Query 043554
Match_columns 192
No_of_seqs 145 out of 1843
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 06:11:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043554.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043554hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 4.4E-20 9.6E-25 155.2 10.8 84 80-164 203-288 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 5.6E-17 1.2E-21 98.3 1.5 44 106-150 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 8.6E-14 1.9E-18 93.3 4.0 46 104-150 18-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 1.9E-13 4.1E-18 114.8 5.6 73 85-159 268-350 (491)
5 COG5540 RING-finger-containing 99.4 9.8E-14 2.1E-18 113.7 3.1 51 104-155 322-373 (374)
6 PHA02929 N1R/p28-like protein; 99.4 2.3E-13 5E-18 110.1 5.1 73 82-154 148-227 (238)
7 PLN03208 E3 ubiquitin-protein 99.3 2.4E-12 5.1E-17 100.5 6.3 58 104-165 17-90 (193)
8 KOG0823 Predicted E3 ubiquitin 99.2 8.3E-12 1.8E-16 99.2 4.9 60 102-165 44-106 (230)
9 KOG0317 Predicted E3 ubiquitin 99.2 3.6E-12 7.7E-17 104.1 1.7 53 101-157 235-287 (293)
10 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.9E-11 4E-16 75.9 3.1 46 105-154 2-48 (50)
11 PF13923 zf-C3HC4_2: Zinc fing 99.2 2.5E-11 5.5E-16 71.4 3.0 39 108-149 1-39 (39)
12 cd00162 RING RING-finger (Real 99.2 3.7E-11 7.9E-16 71.8 3.8 44 107-153 1-45 (45)
13 PF12861 zf-Apc11: Anaphase-pr 99.1 4.3E-11 9.4E-16 81.4 3.3 52 104-155 20-83 (85)
14 KOG0802 E3 ubiquitin ligase [P 99.1 5.8E-11 1.3E-15 107.2 4.0 61 104-165 290-352 (543)
15 KOG0320 Predicted E3 ubiquitin 99.1 6.1E-11 1.3E-15 90.7 3.2 52 104-157 130-181 (187)
16 PF14634 zf-RING_5: zinc-RING 99.0 3E-10 6.5E-15 68.6 3.6 44 107-151 1-44 (44)
17 PHA02926 zinc finger-like prot 99.0 2.4E-10 5.2E-15 90.5 3.6 51 104-154 169-230 (242)
18 PF15227 zf-C3HC4_4: zinc fing 99.0 4.9E-10 1.1E-14 67.0 2.7 38 108-149 1-42 (42)
19 PF00097 zf-C3HC4: Zinc finger 98.9 5.8E-10 1.3E-14 66.1 2.5 39 108-149 1-41 (41)
20 smart00504 Ubox Modified RING 98.9 2.6E-09 5.6E-14 69.0 4.5 47 106-156 2-48 (63)
21 KOG0828 Predicted E3 ubiquitin 98.9 2E-09 4.4E-14 93.5 4.7 50 105-155 571-635 (636)
22 smart00184 RING Ring finger. E 98.9 2.2E-09 4.7E-14 61.8 3.4 38 108-149 1-39 (39)
23 COG5194 APC11 Component of SCF 98.8 3.6E-09 7.7E-14 70.5 3.2 52 105-156 20-83 (88)
24 KOG1493 Anaphase-promoting com 98.7 2E-09 4.4E-14 71.1 -0.4 51 104-154 19-81 (84)
25 TIGR00599 rad18 DNA repair pro 98.7 1.4E-08 3E-13 87.9 4.5 49 104-156 25-73 (397)
26 COG5574 PEX10 RING-finger-cont 98.7 9.4E-09 2E-13 83.3 2.3 50 104-157 214-265 (271)
27 KOG1734 Predicted RING-contain 98.6 8.3E-09 1.8E-13 83.7 0.2 52 103-155 222-282 (328)
28 PF13445 zf-RING_UBOX: RING-ty 98.6 3.6E-08 7.7E-13 59.1 2.9 38 108-147 1-43 (43)
29 smart00744 RINGv The RING-vari 98.5 9.3E-08 2E-12 59.0 3.3 42 107-150 1-49 (49)
30 KOG2930 SCF ubiquitin ligase, 98.5 7.2E-08 1.6E-12 67.4 2.3 54 102-155 43-109 (114)
31 KOG2164 Predicted E3 ubiquitin 98.5 9.5E-08 2.1E-12 83.8 3.0 49 105-157 186-239 (513)
32 TIGR00570 cdk7 CDK-activating 98.4 4E-07 8.6E-12 76.2 4.5 54 105-159 3-59 (309)
33 KOG0287 Postreplication repair 98.3 1.8E-07 3.9E-12 78.3 1.6 51 106-160 24-74 (442)
34 PF11793 FANCL_C: FANCL C-term 98.3 9.5E-08 2E-12 63.4 -0.1 50 105-154 2-66 (70)
35 KOG0804 Cytoplasmic Zn-finger 98.3 2.4E-07 5.1E-12 80.1 1.7 48 104-154 174-222 (493)
36 KOG4265 Predicted E3 ubiquitin 98.3 4.2E-07 9.2E-12 76.7 2.6 50 103-156 288-338 (349)
37 PF04564 U-box: U-box domain; 98.2 5E-07 1.1E-11 60.4 1.9 48 105-156 4-52 (73)
38 COG5219 Uncharacterized conser 98.2 2.8E-07 6.1E-12 85.7 0.4 51 104-154 1468-1523(1525)
39 KOG2177 Predicted E3 ubiquitin 98.2 7.7E-07 1.7E-11 72.9 1.6 43 104-150 12-54 (386)
40 KOG0827 Predicted E3 ubiquitin 98.1 1.1E-06 2.3E-11 74.9 1.9 52 106-157 5-59 (465)
41 COG5432 RAD18 RING-finger-cont 98.1 1.3E-06 2.8E-11 71.9 2.0 52 106-161 26-77 (391)
42 PF14835 zf-RING_6: zf-RING of 98.0 2E-06 4.3E-11 55.4 0.9 47 106-157 8-54 (65)
43 KOG1039 Predicted E3 ubiquitin 97.9 4.5E-06 9.7E-11 71.2 2.2 50 104-153 160-220 (344)
44 KOG0311 Predicted E3 ubiquitin 97.9 1.1E-06 2.3E-11 74.1 -1.8 57 104-163 42-99 (381)
45 KOG1645 RING-finger-containing 97.8 1.5E-05 3.3E-10 68.4 2.7 48 104-152 3-54 (463)
46 KOG0825 PHD Zn-finger protein 97.8 3.6E-06 7.7E-11 77.2 -1.1 58 105-163 123-180 (1134)
47 KOG4172 Predicted E3 ubiquitin 97.8 4.3E-06 9.3E-11 51.9 -0.4 46 105-154 7-54 (62)
48 KOG4445 Uncharacterized conser 97.7 1.5E-05 3.2E-10 66.0 1.4 58 103-161 113-193 (368)
49 KOG0978 E3 ubiquitin ligase in 97.7 1.3E-05 2.8E-10 73.5 1.0 50 105-158 643-693 (698)
50 KOG0824 Predicted E3 ubiquitin 97.6 3.6E-05 7.7E-10 63.8 2.3 54 105-162 7-61 (324)
51 PF11789 zf-Nse: Zinc-finger o 97.5 7.5E-05 1.6E-09 47.4 2.8 41 105-148 11-53 (57)
52 KOG1785 Tyrosine kinase negati 97.4 4E-05 8.8E-10 65.7 0.8 43 107-153 371-415 (563)
53 KOG0297 TNF receptor-associate 97.4 0.0001 2.2E-09 64.4 2.8 55 103-160 19-73 (391)
54 KOG3970 Predicted E3 ubiquitin 97.3 0.00023 5.1E-09 56.8 3.7 52 105-158 50-109 (299)
55 KOG4159 Predicted E3 ubiquitin 97.3 0.00015 3.3E-09 63.1 2.2 49 103-155 82-130 (398)
56 PF05883 Baculo_RING: Baculovi 97.2 0.00011 2.5E-09 54.2 1.1 36 105-141 26-67 (134)
57 KOG1941 Acetylcholine receptor 97.2 0.00019 4.2E-09 61.5 1.9 46 105-151 365-413 (518)
58 KOG1428 Inhibitor of type V ad 96.9 0.00055 1.2E-08 66.9 2.5 51 103-154 3484-3544(3738)
59 KOG0801 Predicted E3 ubiquitin 96.9 0.00027 5.9E-09 53.7 0.3 31 103-134 175-205 (205)
60 PHA02825 LAP/PHD finger-like p 96.9 0.00098 2.1E-08 50.6 3.3 51 102-156 5-61 (162)
61 KOG2660 Locus-specific chromos 96.8 0.00032 6.9E-09 58.9 -0.3 51 104-157 14-64 (331)
62 KOG1571 Predicted E3 ubiquitin 96.7 0.00018 4E-09 61.0 -1.9 44 104-154 304-347 (355)
63 PHA02862 5L protein; Provision 96.7 0.0012 2.6E-08 49.3 2.5 45 106-155 3-54 (156)
64 KOG3039 Uncharacterized conser 96.7 0.0017 3.7E-08 52.6 3.4 58 105-162 221-278 (303)
65 KOG2879 Predicted E3 ubiquitin 96.7 0.0072 1.6E-07 49.8 7.0 51 101-154 235-287 (298)
66 PF14570 zf-RING_4: RING/Ubox 96.7 0.0016 3.6E-08 39.7 2.5 45 108-153 1-47 (48)
67 KOG1002 Nucleotide excision re 96.6 0.00087 1.9E-08 59.7 1.5 57 103-163 534-595 (791)
68 PF12906 RINGv: RING-variant d 96.6 0.0015 3.2E-08 39.8 2.1 41 108-149 1-47 (47)
69 KOG1814 Predicted E3 ubiquitin 96.6 0.0013 2.9E-08 56.8 2.4 37 104-141 183-219 (445)
70 PF10367 Vps39_2: Vacuolar sor 96.5 0.0012 2.7E-08 46.6 1.4 32 104-137 77-108 (109)
71 COG5152 Uncharacterized conser 96.5 0.001 2.3E-08 52.2 0.9 43 106-152 197-239 (259)
72 KOG0826 Predicted E3 ubiquitin 96.5 0.01 2.2E-07 50.0 6.8 46 104-152 299-344 (357)
73 KOG1952 Transcription factor N 96.4 0.0011 2.5E-08 61.7 1.1 49 104-152 190-245 (950)
74 PHA03096 p28-like protein; Pro 96.4 0.0015 3.2E-08 54.6 1.7 48 106-153 179-236 (284)
75 COG5222 Uncharacterized conser 96.3 0.003 6.5E-08 52.6 2.6 43 106-151 275-318 (427)
76 PF14446 Prok-RING_1: Prokaryo 96.0 0.011 2.3E-07 37.0 3.6 35 104-138 4-38 (54)
77 PF08746 zf-RING-like: RING-li 95.8 0.0049 1.1E-07 36.8 1.2 41 108-149 1-43 (43)
78 PF04641 Rtf2: Rtf2 RING-finge 95.8 0.014 2.9E-07 48.3 4.3 54 103-157 111-164 (260)
79 KOG4739 Uncharacterized protei 95.5 0.0048 1E-07 49.9 0.8 43 107-153 5-47 (233)
80 KOG1813 Predicted E3 ubiquitin 95.5 0.0077 1.7E-07 50.1 1.9 45 105-153 241-285 (313)
81 PF14447 Prok-RING_4: Prokaryo 95.3 0.0099 2.1E-07 37.2 1.4 45 107-157 9-53 (55)
82 KOG0827 Predicted E3 ubiquitin 95.2 0.00079 1.7E-08 57.7 -4.8 51 105-156 196-247 (465)
83 KOG4692 Predicted E3 ubiquitin 95.2 0.015 3.2E-07 49.7 2.7 49 103-155 420-468 (489)
84 KOG2114 Vacuolar assembly/sort 95.2 0.0072 1.6E-07 56.6 0.7 41 105-151 840-880 (933)
85 COG5175 MOT2 Transcriptional r 95.1 0.017 3.7E-07 49.0 2.8 55 104-159 13-69 (480)
86 PF10272 Tmpp129: Putative tra 94.5 0.027 5.9E-07 48.5 2.6 27 129-155 313-352 (358)
87 KOG4185 Predicted E3 ubiquitin 94.5 0.029 6.4E-07 46.9 2.7 47 106-153 4-54 (296)
88 KOG4275 Predicted E3 ubiquitin 94.4 0.0064 1.4E-07 50.5 -1.4 42 105-154 300-342 (350)
89 KOG3268 Predicted E3 ubiquitin 94.3 0.038 8.2E-07 42.9 2.8 31 126-156 189-230 (234)
90 KOG1001 Helicase-like transcri 93.8 0.019 4E-07 53.6 0.1 50 106-160 455-506 (674)
91 KOG1940 Zn-finger protein [Gen 93.4 0.044 9.6E-07 45.5 1.7 44 107-151 160-204 (276)
92 KOG2034 Vacuolar sorting prote 93.1 0.043 9.4E-07 51.8 1.3 36 103-140 815-850 (911)
93 COG5236 Uncharacterized conser 93.0 0.096 2.1E-06 44.7 3.2 49 102-154 58-108 (493)
94 PF01102 Glycophorin_A: Glycop 92.7 0.28 6.1E-06 35.9 4.9 31 28-58 59-89 (122)
95 PF12273 RCR: Chitin synthesis 92.7 0.11 2.4E-06 38.3 2.8 16 37-52 2-17 (130)
96 KOG0309 Conserved WD40 repeat- 92.5 0.062 1.3E-06 50.1 1.5 23 126-148 1047-1069(1081)
97 PF03854 zf-P11: P-11 zinc fin 92.5 0.066 1.4E-06 32.4 1.1 30 127-156 18-48 (50)
98 KOG0298 DEAD box-containing he 92.3 0.032 7E-07 54.6 -0.5 45 105-152 1153-1197(1394)
99 KOG3800 Predicted E3 ubiquitin 92.2 0.14 3E-06 42.7 3.0 53 107-159 2-56 (300)
100 KOG2932 E3 ubiquitin ligase in 91.8 0.067 1.4E-06 45.0 0.8 43 106-153 91-133 (389)
101 KOG3002 Zn finger protein [Gen 91.1 0.18 3.9E-06 42.6 2.7 45 104-154 47-91 (299)
102 KOG3053 Uncharacterized conser 90.9 0.086 1.9E-06 43.2 0.6 52 102-153 17-81 (293)
103 KOG2817 Predicted E3 ubiquitin 90.5 1.3 2.7E-05 38.6 7.3 45 104-149 333-380 (394)
104 PF13901 DUF4206: Domain of un 89.6 0.33 7.1E-06 38.6 2.9 40 105-150 152-196 (202)
105 PF02439 Adeno_E3_CR2: Adenovi 89.5 0.97 2.1E-05 26.0 4.0 28 35-62 5-32 (38)
106 KOG3899 Uncharacterized conser 89.5 0.24 5.1E-06 41.4 2.1 30 127-156 325-367 (381)
107 KOG1609 Protein involved in mR 89.3 0.22 4.7E-06 41.7 1.8 52 105-156 78-136 (323)
108 KOG3161 Predicted E3 ubiquitin 88.8 0.1 2.3E-06 47.8 -0.5 39 106-147 12-51 (861)
109 KOG1812 Predicted E3 ubiquitin 88.4 0.19 4.1E-06 43.9 0.8 38 104-142 145-183 (384)
110 KOG1100 Predicted E3 ubiquitin 88.3 0.24 5.3E-06 39.6 1.3 38 108-153 161-199 (207)
111 PF05290 Baculo_IE-1: Baculovi 88.1 0.37 8E-06 35.7 2.1 52 104-155 79-133 (140)
112 COG5220 TFB3 Cdk activating ki 88.1 0.24 5.2E-06 40.3 1.2 48 104-151 9-61 (314)
113 KOG0802 E3 ubiquitin ligase [P 87.9 0.27 5.8E-06 44.9 1.5 57 103-167 477-533 (543)
114 PF07800 DUF1644: Protein of u 87.4 0.71 1.5E-05 35.2 3.3 35 104-141 1-47 (162)
115 PF10571 UPF0547: Uncharacteri 86.0 0.53 1.1E-05 24.8 1.4 23 107-131 2-24 (26)
116 PF07975 C1_4: TFIIH C1-like d 86.0 0.51 1.1E-05 29.1 1.5 43 108-150 2-50 (51)
117 COG5183 SSM4 Protein involved 85.7 0.66 1.4E-05 43.9 2.8 50 104-154 11-66 (1175)
118 KOG4362 Transcriptional regula 85.5 0.22 4.7E-06 46.2 -0.4 51 105-159 21-74 (684)
119 PF01102 Glycophorin_A: Glycop 84.9 1.6 3.5E-05 32.0 3.9 34 33-66 60-93 (122)
120 KOG4367 Predicted Zn-finger pr 84.6 0.83 1.8E-05 40.3 2.8 33 104-140 3-35 (699)
121 PF15050 SCIMP: SCIMP protein 84.1 3.1 6.8E-05 30.2 5.1 9 35-43 7-15 (133)
122 KOG0269 WD40 repeat-containing 84.0 0.95 2.1E-05 42.5 3.0 41 106-148 780-820 (839)
123 smart00249 PHD PHD zinc finger 83.0 1.2 2.6E-05 25.6 2.3 31 107-138 1-31 (47)
124 TIGR00622 ssl1 transcription f 82.2 2.2 4.7E-05 30.8 3.7 46 105-150 55-110 (112)
125 PF00628 PHD: PHD-finger; Int 81.4 1.2 2.6E-05 26.8 1.9 43 108-151 2-50 (51)
126 KOG1829 Uncharacterized conser 80.8 0.56 1.2E-05 43.0 0.3 42 104-149 510-556 (580)
127 PF13908 Shisa: Wnt and FGF in 80.6 1.6 3.4E-05 33.8 2.7 23 35-57 77-99 (179)
128 PF02891 zf-MIZ: MIZ/SP-RING z 79.9 2.3 5.1E-05 25.9 2.8 42 107-152 4-50 (50)
129 KOG1815 Predicted E3 ubiquitin 78.4 1.4 3.1E-05 39.2 2.1 37 103-142 68-104 (444)
130 PF13719 zinc_ribbon_5: zinc-r 78.1 1.5 3.2E-05 25.0 1.4 26 107-132 4-36 (37)
131 smart00132 LIM Zinc-binding do 77.1 3.3 7.3E-05 22.7 2.8 37 107-153 1-37 (39)
132 KOG3005 GIY-YIG type nuclease 77.0 1.2 2.6E-05 36.8 1.1 49 105-153 182-242 (276)
133 KOG4718 Non-SMC (structural ma 75.9 1.3 2.9E-05 35.4 1.0 46 105-153 181-226 (235)
134 PF15176 LRR19-TM: Leucine-ric 75.2 17 0.00036 25.7 6.2 23 39-61 20-42 (102)
135 PF02009 Rifin_STEVOR: Rifin/s 74.8 4.6 9.9E-05 34.2 4.0 18 43-60 265-282 (299)
136 KOG2066 Vacuolar assembly/sort 74.5 1.2 2.7E-05 41.9 0.6 43 105-149 784-830 (846)
137 PF14979 TMEM52: Transmembrane 74.4 8.3 0.00018 29.1 4.9 34 32-65 16-51 (154)
138 PF03229 Alpha_GJ: Alphavirus 73.6 13 0.00029 26.8 5.5 33 30-62 80-112 (126)
139 KOG1812 Predicted E3 ubiquitin 73.4 1.6 3.4E-05 38.3 1.0 44 105-149 306-351 (384)
140 PF07010 Endomucin: Endomucin; 73.1 13 0.00028 30.2 5.9 32 31-62 185-216 (259)
141 KOG3113 Uncharacterized conser 72.3 4 8.7E-05 33.6 3.0 52 104-157 110-161 (293)
142 PF00412 LIM: LIM domain; Int 72.0 3.3 7.2E-05 25.3 2.0 39 108-156 1-39 (58)
143 PRK01844 hypothetical protein; 71.9 12 0.00026 24.7 4.6 25 35-59 4-28 (72)
144 PF13717 zinc_ribbon_4: zinc-r 71.0 3.3 7.1E-05 23.4 1.6 26 107-132 4-36 (36)
145 PF01363 FYVE: FYVE zinc finge 70.6 2.2 4.7E-05 27.4 1.0 37 104-140 8-44 (69)
146 PF15176 LRR19-TM: Leucine-ric 69.7 8.7 0.00019 27.1 3.8 39 29-67 14-52 (102)
147 PHA02849 putative transmembran 69.7 16 0.00034 24.6 4.8 21 26-46 6-26 (82)
148 PLN02248 cellulose synthase-li 68.9 8.5 0.00018 38.1 4.8 36 126-161 149-184 (1135)
149 PF15102 TMEM154: TMEM154 prot 67.3 1.4 3E-05 33.2 -0.6 9 134-142 128-136 (146)
150 KOG2068 MOT2 transcription fac 65.1 10 0.00023 32.3 4.1 53 106-159 250-303 (327)
151 PF08374 Protocadherin: Protoc 65.0 4.9 0.00011 32.2 2.1 8 3-10 13-20 (221)
152 KOG0825 PHD Zn-finger protein 64.0 3.9 8.6E-05 38.8 1.5 50 104-153 95-153 (1134)
153 PRK00523 hypothetical protein; 63.9 20 0.00044 23.7 4.5 26 35-60 5-30 (72)
154 PHA02657 hypothetical protein; 63.4 23 0.0005 24.2 4.8 35 24-58 16-50 (95)
155 cd00065 FYVE FYVE domain; Zinc 63.3 6.9 0.00015 23.9 2.2 35 106-140 3-37 (57)
156 PF06906 DUF1272: Protein of u 61.8 19 0.00042 22.6 3.9 44 107-155 7-53 (57)
157 PF14569 zf-UDP: Zinc-binding 60.4 16 0.00035 24.5 3.5 52 104-155 8-63 (80)
158 PF02038 ATP1G1_PLM_MAT8: ATP1 60.3 17 0.00038 22.2 3.4 30 29-58 6-35 (50)
159 COG5109 Uncharacterized conser 60.2 29 0.00062 29.7 5.8 45 104-149 335-382 (396)
160 PF06667 PspB: Phage shock pro 59.9 32 0.0007 22.9 5.0 18 46-63 13-30 (75)
161 PHA03240 envelope glycoprotein 59.7 13 0.00028 30.0 3.5 16 36-51 214-229 (258)
162 PF02439 Adeno_E3_CR2: Adenovi 59.6 26 0.00057 20.2 3.9 29 39-67 5-33 (38)
163 PRK14762 membrane protein; Pro 59.6 24 0.00052 18.3 3.6 19 35-53 4-22 (27)
164 PF07649 C1_3: C1-like domain; 58.6 11 0.00023 20.2 2.1 29 107-136 2-30 (30)
165 smart00064 FYVE Protein presen 58.5 10 0.00022 24.2 2.4 36 105-140 10-45 (68)
166 TIGR02976 phageshock_pspB phag 58.3 34 0.00074 22.8 4.9 20 44-63 11-30 (75)
167 PF07191 zinc-ribbons_6: zinc- 58.0 0.87 1.9E-05 30.0 -2.7 40 106-154 2-41 (70)
168 PF05454 DAG1: Dystroglycan (D 57.7 3.4 7.3E-05 34.8 0.0 14 40-53 151-164 (290)
169 PF06844 DUF1244: Protein of u 57.4 6.5 0.00014 25.5 1.3 12 130-141 11-22 (68)
170 TIGR01477 RIFIN variant surfac 57.0 14 0.00031 31.9 3.6 15 46-60 322-336 (353)
171 PTZ00046 rifin; Provisional 57.0 12 0.00027 32.3 3.3 16 45-60 326-341 (358)
172 PLN02189 cellulose synthase 57.0 19 0.00042 35.4 4.9 51 104-154 33-87 (1040)
173 PF06305 DUF1049: Protein of u 56.7 16 0.00036 23.1 3.2 19 32-50 18-36 (68)
174 PF00558 Vpu: Vpu protein; In 56.4 18 0.00038 24.6 3.3 20 38-57 7-26 (81)
175 PF07204 Orthoreo_P10: Orthore 55.6 15 0.00033 25.5 2.9 31 32-62 37-67 (98)
176 KOG2807 RNA polymerase II tran 55.5 9.6 0.00021 32.6 2.3 45 105-150 330-374 (378)
177 PHA02650 hypothetical protein; 54.8 47 0.001 22.3 5.0 11 48-58 61-71 (81)
178 PF06676 DUF1178: Protein of u 54.5 7.8 0.00017 29.3 1.5 26 127-157 10-46 (148)
179 PF05568 ASFV_J13L: African sw 54.5 27 0.00059 26.4 4.3 9 36-44 31-39 (189)
180 smart00647 IBR In Between Ring 54.0 4.3 9.4E-05 25.2 0.0 21 119-139 38-58 (64)
181 PF10497 zf-4CXXC_R1: Zinc-fin 53.8 16 0.00034 26.0 2.9 45 105-151 7-69 (105)
182 KOG3039 Uncharacterized conser 53.5 9.9 0.00022 31.3 2.0 34 104-141 42-75 (303)
183 PF15145 DUF4577: Domain of un 53.1 48 0.001 23.9 5.2 18 74-91 94-111 (128)
184 PF02480 Herpes_gE: Alphaherpe 52.8 4.6 9.9E-05 36.0 0.0 27 32-58 351-377 (439)
185 KOG3842 Adaptor protein Pellin 52.3 20 0.00044 30.6 3.7 51 104-155 340-415 (429)
186 PF07406 NICE-3: NICE-3 protei 52.3 31 0.00068 27.1 4.6 18 131-148 124-143 (186)
187 KOG3579 Predicted E3 ubiquitin 51.7 9.6 0.00021 32.0 1.7 39 105-144 268-307 (352)
188 PF07438 DUF1514: Protein of u 51.7 15 0.00032 23.7 2.2 15 36-50 1-15 (66)
189 PRK05978 hypothetical protein; 51.2 13 0.00028 28.2 2.2 28 128-160 42-69 (148)
190 PF05510 Sarcoglycan_2: Sarcog 50.4 36 0.00077 29.9 5.1 27 36-62 285-311 (386)
191 KOG0860 Synaptobrevin/VAMP-lik 50.1 24 0.00052 25.6 3.3 18 36-53 94-111 (116)
192 COG3763 Uncharacterized protei 50.1 72 0.0016 21.0 6.7 10 49-58 18-27 (71)
193 PF06750 DiS_P_DiS: Bacterial 49.9 82 0.0018 21.6 6.3 39 104-155 32-70 (92)
194 PLN02436 cellulose synthase A 49.7 30 0.00065 34.3 4.9 51 104-154 35-89 (1094)
195 PF05393 Hum_adeno_E3A: Human 48.9 52 0.0011 22.7 4.6 26 37-62 32-57 (94)
196 KOG1608 Protein transporter of 48.9 56 0.0012 27.8 5.7 46 21-66 280-325 (374)
197 PF15050 SCIMP: SCIMP protein 48.3 29 0.00064 25.3 3.5 9 32-40 8-16 (133)
198 COG3364 Zn-ribbon containing p 48.0 17 0.00036 25.8 2.2 34 126-163 7-42 (112)
199 PF06365 CD34_antigen: CD34/Po 47.9 16 0.00034 29.2 2.3 6 57-62 122-127 (202)
200 PF07406 NICE-3: NICE-3 protei 47.3 19 0.0004 28.4 2.7 31 32-62 11-41 (186)
201 PF10577 UPF0560: Uncharacteri 45.7 63 0.0014 31.0 6.2 13 46-58 282-294 (807)
202 KOG2041 WD40 repeat protein [G 45.0 18 0.00039 34.4 2.5 47 103-153 1129-1184(1189)
203 PF07219 HemY_N: HemY protein 45.0 35 0.00076 24.0 3.6 23 36-58 16-38 (108)
204 PF02318 FYVE_2: FYVE-type zin 45.0 15 0.00033 26.4 1.7 47 103-151 52-102 (118)
205 PF14654 Epiglycanin_C: Mucin, 44.8 39 0.00085 23.7 3.6 24 35-58 20-43 (106)
206 KOG1815 Predicted E3 ubiquitin 44.7 7.2 0.00016 34.7 -0.0 38 105-142 226-267 (444)
207 PF15179 Myc_target_1: Myc tar 44.6 35 0.00076 26.8 3.7 9 54-62 40-48 (197)
208 cd00350 rubredoxin_like Rubred 43.9 14 0.0003 20.3 1.1 19 127-151 7-25 (33)
209 PRK09458 pspB phage shock prot 43.8 50 0.0011 22.0 3.8 18 44-61 11-28 (75)
210 PF03554 Herpes_UL73: UL73 vir 43.6 1E+02 0.0022 20.9 6.4 24 38-61 51-74 (82)
211 PF01299 Lamp: Lysosome-associ 43.4 22 0.00048 29.9 2.7 8 38-45 275-282 (306)
212 PF15183 MRAP: Melanocortin-2 43.3 40 0.00086 23.0 3.3 22 38-59 38-59 (90)
213 PF11446 DUF2897: Protein of u 42.3 59 0.0013 20.3 3.9 6 36-41 5-10 (55)
214 PF14311 DUF4379: Domain of un 41.8 21 0.00046 21.8 1.8 23 126-149 33-55 (55)
215 PF06024 DUF912: Nucleopolyhed 41.5 11 0.00025 26.4 0.6 27 35-61 60-86 (101)
216 PF04423 Rad50_zn_hook: Rad50 41.4 7 0.00015 24.0 -0.5 12 145-156 22-33 (54)
217 PF02009 Rifin_STEVOR: Rifin/s 41.4 46 0.001 28.2 4.3 19 35-53 254-272 (299)
218 PF12877 DUF3827: Domain of un 41.2 15 0.00032 34.3 1.4 15 35-49 268-282 (684)
219 KOG4577 Transcription factor L 40.9 7 0.00015 32.8 -0.7 44 105-158 92-135 (383)
220 PF15106 TMEM156: TMEM156 prot 40.9 46 0.001 26.7 3.9 22 36-57 177-198 (226)
221 KOG3653 Transforming growth fa 39.9 99 0.0021 28.1 6.2 13 132-144 291-303 (534)
222 PF07282 OrfB_Zn_ribbon: Putat 39.2 27 0.00059 22.2 2.1 34 105-138 28-63 (69)
223 smart00531 TFIIE Transcription 38.3 31 0.00068 25.7 2.6 15 144-158 124-138 (147)
224 PF14169 YdjO: Cold-inducible 37.8 17 0.00038 23.0 0.9 15 143-157 39-53 (59)
225 KOG0824 Predicted E3 ubiquitin 37.6 9.6 0.00021 32.2 -0.3 49 102-153 102-150 (324)
226 KOG1538 Uncharacterized conser 37.6 18 0.00039 34.1 1.4 35 120-154 1043-1077(1081)
227 PLN02195 cellulose synthase A 37.5 54 0.0012 32.3 4.5 52 104-155 5-60 (977)
228 PRK14475 F0F1 ATP synthase sub 37.5 84 0.0018 23.9 4.9 12 33-44 9-20 (167)
229 PF03107 C1_2: C1 domain; Int 37.4 36 0.00078 18.1 2.1 28 107-135 2-29 (30)
230 PF04710 Pellino: Pellino; In 36.8 11 0.00025 32.9 0.0 49 105-154 328-401 (416)
231 PF04216 FdhE: Protein involve 36.7 4.4 9.5E-05 33.9 -2.6 47 104-151 171-219 (290)
232 PF15179 Myc_target_1: Myc tar 36.6 73 0.0016 25.0 4.4 28 32-59 23-50 (197)
233 PF15183 MRAP: Melanocortin-2 36.5 43 0.00094 22.8 2.7 19 35-53 41-59 (90)
234 PF10083 DUF2321: Uncharacteri 36.2 19 0.0004 27.5 1.0 45 109-156 8-52 (158)
235 PRK11088 rrmA 23S rRNA methylt 36.1 27 0.00059 28.6 2.2 25 106-131 3-27 (272)
236 COG3492 Uncharacterized protei 36.1 18 0.00039 25.0 0.9 12 130-141 42-53 (104)
237 PF14316 DUF4381: Domain of un 35.5 51 0.0011 24.5 3.4 7 35-41 22-28 (146)
238 PF10661 EssA: WXG100 protein 35.4 73 0.0016 23.9 4.2 14 45-58 128-141 (145)
239 PLN02638 cellulose synthase A 35.2 65 0.0014 32.1 4.7 51 104-154 16-70 (1079)
240 PRK09173 F0F1 ATP synthase sub 34.5 73 0.0016 23.9 4.2 18 32-49 1-18 (159)
241 PF13832 zf-HC5HC2H_2: PHD-zin 34.4 33 0.00072 23.9 2.1 31 105-138 55-87 (110)
242 PF05502 Dynactin_p62: Dynacti 34.3 36 0.00077 30.8 2.7 43 104-159 25-68 (483)
243 PF03672 UPF0154: Uncharacteri 34.2 1.1E+02 0.0025 19.7 4.3 11 38-48 3-13 (64)
244 PF09943 DUF2175: Uncharacteri 33.9 28 0.00061 24.6 1.6 32 107-140 4-35 (101)
245 PF05605 zf-Di19: Drought indu 33.9 6.2 0.00013 24.2 -1.6 13 105-117 2-14 (54)
246 PF06422 PDR_CDR: CDR ABC tran 33.8 47 0.001 23.3 2.7 11 36-46 52-62 (103)
247 PF03119 DNA_ligase_ZBD: NAD-d 33.6 15 0.00032 19.5 0.1 13 145-157 1-13 (28)
248 PF02480 Herpes_gE: Alphaherpe 33.4 14 0.0003 33.0 0.0 35 32-66 347-381 (439)
249 KOG1729 FYVE finger containing 33.4 5.6 0.00012 33.5 -2.4 37 105-142 214-250 (288)
250 PHA02935 Hypothetical protein; 33.3 1.3E+02 0.0028 24.2 5.4 31 25-55 303-333 (349)
251 KOG2979 Protein involved in DN 33.1 26 0.00057 28.9 1.5 41 105-148 176-218 (262)
252 PF01528 Herpes_glycop: Herpes 32.8 88 0.0019 27.4 4.8 21 32-52 301-321 (374)
253 PF06143 Baculo_11_kDa: Baculo 32.3 24 0.00052 24.1 1.0 6 35-40 35-40 (84)
254 PF15347 PAG: Phosphoprotein a 32.1 49 0.0011 29.0 3.0 38 24-61 5-42 (428)
255 PF09451 ATG27: Autophagy-rela 32.0 82 0.0018 26.0 4.3 31 35-65 198-228 (268)
256 TIGR00686 phnA alkylphosphonat 31.9 29 0.00064 24.8 1.4 12 107-118 4-15 (109)
257 PF14991 MLANA: Protein melan- 31.8 7.5 0.00016 28.0 -1.6 10 53-62 38-47 (118)
258 PRK01844 hypothetical protein; 31.6 1.6E+02 0.0034 19.5 4.9 30 35-64 7-36 (72)
259 KOG4323 Polycomb-like PHD Zn-f 31.5 27 0.00058 31.4 1.4 47 105-151 168-223 (464)
260 PF05715 zf-piccolo: Piccolo Z 31.4 35 0.00076 21.7 1.5 11 143-153 2-12 (61)
261 COG3813 Uncharacterized protei 31.4 24 0.00051 23.4 0.8 32 127-160 27-58 (84)
262 PLN02915 cellulose synthase A 31.1 81 0.0018 31.3 4.6 51 104-154 14-68 (1044)
263 PF15353 HECA: Headcase protei 30.9 30 0.00066 24.6 1.3 14 127-140 40-53 (107)
264 COG4847 Uncharacterized protei 30.9 45 0.00097 23.3 2.1 35 105-141 6-40 (103)
265 PF15298 AJAP1_PANP_C: AJAP1/P 30.6 25 0.00053 27.9 0.9 29 32-60 96-124 (205)
266 PF05568 ASFV_J13L: African sw 30.3 1.4E+02 0.003 22.7 4.8 10 39-48 31-40 (189)
267 PF14584 DUF4446: Protein of u 30.2 67 0.0015 24.3 3.2 13 104-116 96-108 (151)
268 PLN02400 cellulose synthase 30.1 70 0.0015 31.9 4.1 51 104-154 35-89 (1085)
269 PF11770 GAPT: GRB2-binding ad 30.0 49 0.0011 25.1 2.4 16 38-53 12-27 (158)
270 COG1545 Predicted nucleic-acid 29.8 35 0.00077 25.4 1.6 22 124-153 32-53 (140)
271 PF13314 DUF4083: Domain of un 29.7 1.5E+02 0.0032 18.7 5.5 7 56-62 26-32 (58)
272 PF13771 zf-HC5HC2H: PHD-like 29.3 41 0.0009 22.4 1.8 33 105-138 36-68 (90)
273 KOG4482 Sarcoglycan complex, a 29.2 80 0.0017 27.7 3.8 29 34-62 295-323 (449)
274 PF11395 DUF2873: Protein of u 29.0 1.2E+02 0.0026 17.4 3.7 6 40-45 14-19 (43)
275 KOG3637 Vitronectin receptor, 28.6 36 0.00078 33.8 1.9 26 34-59 977-1002(1030)
276 PF01708 Gemini_mov: Geminivir 28.5 97 0.0021 21.4 3.4 22 37-58 39-60 (91)
277 PF05434 Tmemb_9: TMEM9; Inte 28.5 33 0.00072 26.0 1.3 24 38-61 59-82 (149)
278 PF05191 ADK_lid: Adenylate ki 28.4 15 0.00033 20.7 -0.4 29 124-154 4-32 (36)
279 PF11770 GAPT: GRB2-binding ad 28.2 22 0.00048 27.0 0.3 27 40-66 10-36 (158)
280 PF02723 NS3_envE: Non-structu 28.1 1.7E+02 0.0036 19.9 4.5 19 44-62 24-42 (82)
281 PF13980 UPF0370: Uncharacteri 27.9 81 0.0018 20.0 2.7 14 35-48 7-20 (63)
282 PF11023 DUF2614: Protein of u 27.4 61 0.0013 23.4 2.4 20 141-160 83-102 (114)
283 PF09723 Zn-ribbon_8: Zinc rib 27.3 14 0.00031 21.5 -0.7 25 126-151 10-34 (42)
284 PRK06266 transcription initiat 26.9 97 0.0021 24.0 3.7 18 140-157 133-150 (178)
285 PF11057 Cortexin: Cortexin of 26.8 1.4E+02 0.0031 19.9 3.9 6 13-18 9-14 (81)
286 PF15065 NCU-G1: Lysosomal tra 26.6 40 0.00087 29.2 1.6 29 35-63 318-346 (350)
287 PRK10220 hypothetical protein; 26.3 55 0.0012 23.5 2.0 13 106-118 4-16 (111)
288 TIGR01195 oadG_fam sodium pump 26.1 1.7E+02 0.0038 19.6 4.4 16 47-62 19-34 (82)
289 PF07010 Endomucin: Endomucin; 25.9 2.2E+02 0.0047 23.3 5.5 35 32-66 183-217 (259)
290 PF08274 PhnA_Zn_Ribbon: PhnA 25.8 32 0.00069 18.7 0.6 24 107-130 4-28 (30)
291 PF04689 S1FA: DNA binding pro 25.8 54 0.0012 21.2 1.7 16 47-62 25-40 (69)
292 KOG2621 Prohibitins and stomat 25.5 3E+02 0.0065 23.2 6.4 33 27-59 25-57 (288)
293 PF07069 PRRSV_2b: Porcine rep 25.2 1.9E+02 0.0042 18.5 5.1 8 38-45 31-38 (73)
294 PF11157 DUF2937: Protein of u 25.1 1.6E+02 0.0035 22.6 4.6 30 29-58 130-159 (167)
295 PF03554 Herpes_UL73: UL73 vir 24.6 1.3E+02 0.0028 20.4 3.5 29 30-58 46-74 (82)
296 KOG2071 mRNA cleavage and poly 24.3 40 0.00086 31.1 1.2 34 104-139 512-556 (579)
297 PF10476 DUF2448: Protein of u 23.6 1.2E+02 0.0025 24.0 3.5 24 28-51 18-41 (204)
298 smart00109 C1 Protein kinase C 23.6 74 0.0016 18.1 2.0 34 105-138 11-44 (49)
299 TIGR00373 conserved hypothetic 23.5 1E+02 0.0022 23.3 3.2 18 140-157 125-142 (158)
300 TIGR02098 MJ0042_CXXC MJ0042 f 23.4 72 0.0016 17.6 1.8 10 107-116 4-13 (38)
301 PTZ00208 65 kDa invariant surf 23.0 63 0.0014 28.6 2.1 23 36-58 386-408 (436)
302 KOG2231 Predicted E3 ubiquitin 23.0 68 0.0015 30.3 2.5 46 107-156 2-54 (669)
303 PRK03564 formate dehydrogenase 23.0 35 0.00075 29.1 0.6 47 104-151 186-234 (309)
304 PF06040 Adeno_E3: Adenovirus 23.0 1E+02 0.0023 22.3 2.9 23 30-52 82-104 (127)
305 PF07219 HemY_N: HemY protein 22.9 87 0.0019 21.9 2.6 34 25-58 9-42 (108)
306 KOG4430 Topoisomerase I-bindin 22.9 25 0.00054 32.2 -0.3 56 102-157 257-312 (553)
307 COG4647 AcxC Acetone carboxyla 22.8 41 0.00088 24.9 0.8 22 108-133 60-81 (165)
308 PF11190 DUF2976: Protein of u 22.8 1.4E+02 0.0029 20.5 3.4 19 34-52 24-42 (87)
309 PRK06568 F0F1 ATP synthase sub 22.2 1.6E+02 0.0035 22.3 4.0 22 32-53 4-25 (154)
310 PF01299 Lamp: Lysosome-associ 22.1 68 0.0015 26.9 2.2 30 37-66 270-299 (306)
311 TIGR01562 FdhE formate dehydro 22.0 27 0.00059 29.6 -0.2 46 105-151 184-232 (305)
312 COG5627 MMS21 DNA repair prote 22.0 45 0.00097 27.3 1.0 41 105-148 189-231 (275)
313 smart00734 ZnF_Rad18 Rad18-lik 21.8 43 0.00093 17.3 0.6 9 145-153 3-11 (26)
314 KOG0956 PHD finger protein AF1 21.7 49 0.0011 31.4 1.3 49 105-153 117-181 (900)
315 PF10577 UPF0560: Uncharacteri 21.7 1.2E+02 0.0027 29.1 3.9 23 36-58 275-297 (807)
316 PRK11827 hypothetical protein; 21.5 38 0.00082 21.6 0.4 11 144-154 9-19 (60)
317 COG5415 Predicted integral mem 21.5 39 0.00084 27.2 0.5 30 127-156 195-227 (251)
318 PHA03030 hypothetical protein; 20.8 1.2E+02 0.0025 21.6 2.7 7 61-67 21-27 (122)
319 PHA03164 hypothetical protein; 20.8 1.6E+02 0.0034 19.7 3.2 11 38-48 61-71 (88)
320 PF12955 DUF3844: Domain of un 20.6 1.7E+02 0.0036 20.8 3.6 9 33-41 65-73 (103)
321 PF15339 Afaf: Acrosome format 20.6 2.9E+02 0.0062 21.6 5.0 7 14-20 107-113 (200)
322 PF00130 C1_1: Phorbol esters/ 20.6 78 0.0017 18.7 1.7 33 105-138 11-45 (53)
323 PF12768 Rax2: Cortical protei 20.5 60 0.0013 27.2 1.5 31 36-66 230-260 (281)
324 PF04639 Baculo_E56: Baculovir 20.4 66 0.0014 27.1 1.7 23 28-50 273-295 (305)
325 PRK10633 hypothetical protein; 20.3 2.3E+02 0.005 19.1 4.0 28 35-62 43-70 (80)
326 PF09538 FYDLN_acid: Protein o 20.2 1.3E+02 0.0029 21.4 3.0 13 144-156 27-39 (108)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=4.4e-20 Score=155.17 Aligned_cols=84 Identities=38% Similarity=0.852 Sum_probs=69.3
Q ss_pred hhcCCCHHHHhcCCceeecCCCCCCC-CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcCCC
Q 043554 80 AVTGLKKRDLRRIPVAVYGEGVDIPA-TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLNNN 157 (192)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~~ 157 (192)
...++.++.++++|...|....+... ..|+||||+|+++|+++.|| |+|.||..||+.||.+.+ .||+|++++....
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 34466788999999999888655433 49999999999999999999 999999999999997654 5999999887766
Q ss_pred CCCCCCC
Q 043554 158 ERSTASS 164 (192)
Q Consensus 158 ~~~~~~~ 164 (192)
.......
T Consensus 282 ~~~~~~e 288 (348)
T KOG4628|consen 282 GSEPVSE 288 (348)
T ss_pred CCCCccC
Confidence 6554444
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=99.64 E-value=5.6e-17 Score=98.33 Aligned_cols=44 Identities=64% Similarity=1.317 Sum_probs=40.3
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
++|+||+++|..++.+..++ |||.||.+||..|++++.+||+||
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 37999999999999999999 999999999999999999999997
No 3
>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=99.44 E-value=8.6e-14 Score=93.29 Aligned_cols=46 Identities=37% Similarity=0.878 Sum_probs=36.5
Q ss_pred CCCCCCcccCCcCCC----------CceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 104 PATECPICLGEFVDG----------EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~----------~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
.++.|+||+++|.+. -.+...+ |||.||..||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 455699999999432 2345555 999999999999999999999997
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=1.9e-13 Score=114.75 Aligned_cols=73 Identities=26% Similarity=0.651 Sum_probs=52.2
Q ss_pred CHHHHhcCCceeecCCCCCCCCCCCcccCCcCCCC----------ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 85 KKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGE----------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
.++.-+-+++....+ ...+|..|.||+|++-..+ +.+.+| |||+||-+|+..|++++++||+||.++.
T Consensus 268 ~kdl~~~~~t~t~eq-l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 268 TKDLNAMYPTATEEQ-LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred hhHHHhhcchhhhhh-hcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 333333444433222 2346789999999954332 446788 9999999999999999999999999965
Q ss_pred CCCCC
Q 043554 155 NNNER 159 (192)
Q Consensus 155 ~~~~~ 159 (192)
-+...
T Consensus 346 fd~~~ 350 (491)
T COG5243 346 FDQSS 350 (491)
T ss_pred cccCC
Confidence 55444
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=9.8e-14 Score=113.68 Aligned_cols=51 Identities=45% Similarity=1.181 Sum_probs=47.1
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 155 (192)
.+.+|+|||++|.++|+++++| |+|.||..|++.|+. .+..||+||..+++
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 4679999999999999999999 999999999999998 67889999998864
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.41 E-value=2.3e-13 Score=110.05 Aligned_cols=73 Identities=32% Similarity=0.664 Sum_probs=54.8
Q ss_pred cCCCHHHHhcCCceeecCC---CCCCCCCCCcccCCcCCCCc----eEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 82 TGLKKRDLRRIPVAVYGEG---VDIPATECPICLGEFVDGEK----VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~---~~~~~~~C~ICl~~~~~~~~----v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
.+..+..++.+|....... ....+.+|+||++.+.+++. +.+++.|+|.||..||..|++.+.+||+||..+.
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 4456777888887754322 22346799999999876531 2344449999999999999999999999999775
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.33 E-value=2.4e-12 Score=100.46 Aligned_cols=58 Identities=26% Similarity=0.576 Sum_probs=44.7
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----------------CCCCcccCccCcCCCCCCCCCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----------------HSSCPNCRHSLLNNNERSTASSS 165 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~l~~~~~~~~~~~~ 165 (192)
++.+|+||++.++++ .+++ |||.||+.||..|+.. +..||+||..+....-.+-.+..
T Consensus 17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg 90 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRG 90 (193)
T ss_pred CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccC
Confidence 467899999998765 5566 9999999999999842 34699999998776544444433
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=8.3e-12 Score=99.17 Aligned_cols=60 Identities=27% Similarity=0.502 Sum_probs=46.5
Q ss_pred CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCCCCCCCCCC
Q 043554 102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNNERSTASSS 165 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~~~~~~~ 165 (192)
+....+|.||||.-+++ +++. |||+||+-||.+|+.. .+.||+|+..+..+.-.+-++..
T Consensus 44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG 106 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG 106 (230)
T ss_pred CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence 45678999999986665 4555 9999999999999974 44699999988777655554433
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=3.6e-12 Score=104.09 Aligned_cols=53 Identities=26% Similarity=0.685 Sum_probs=44.7
Q ss_pred CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 101 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
.......|.+||+...++ .-+| |||+||+.||..|...+..||+||..+.+..
T Consensus 235 i~~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 334568999999998776 5677 9999999999999999999999999886543
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=99.17 E-value=1.9e-11 Score=75.93 Aligned_cols=46 Identities=39% Similarity=0.872 Sum_probs=39.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
+..|.||++...+ +..+| |||. |+..|+..|++.+..||+||+++.
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 4689999998654 67888 9999 999999999999999999999874
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.16 E-value=2.5e-11 Score=71.45 Aligned_cols=39 Identities=49% Similarity=1.144 Sum_probs=32.9
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 149 (192)
|+||++.+.+ .+..++ |||.||.+|+.+|++.+..||+|
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 8999999887 356777 99999999999999988899998
No 12
>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=99.16 E-value=3.7e-11 Score=71.81 Aligned_cols=44 Identities=57% Similarity=1.238 Sum_probs=36.8
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSL 153 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l 153 (192)
+|+||++.+ .+.+...+ |+|.||..|+..|++. +..||+||..+
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 33456666 9999999999999987 67799998754
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.12 E-value=4.3e-11 Score=81.43 Aligned_cols=52 Identities=37% Similarity=0.792 Sum_probs=39.2
Q ss_pred CCCCCCcccCCcCC--------CCc-eEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcC
Q 043554 104 PATECPICLGEFVD--------GEK-VRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~--------~~~-v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~ 155 (192)
+++.|.||...|.. ++. ..++..|+|.||..||.+|+.. +..||+||+.+.-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 36789999988872 121 2233359999999999999974 4679999998753
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=5.8e-11 Score=107.23 Aligned_cols=61 Identities=33% Similarity=0.743 Sum_probs=50.6
Q ss_pred CCCCCCcccCCcCCCCc--eEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCCCC
Q 043554 104 PATECPICLGEFVDGEK--VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSS 165 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~ 165 (192)
.+..|+||+|++..... ...++ |+|+||..|+..|++++++||+||..+...+........
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~~~~~~~ 352 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLWQIAALQ 352 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccccccccCCc
Confidence 47789999999998755 67788 999999999999999999999999966666554444444
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=6.1e-11 Score=90.65 Aligned_cols=52 Identities=33% Similarity=0.751 Sum_probs=43.7
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
+-+.|+|||+.+.+...+ -+ +|||+||+.||...++....||+||..|..+.
T Consensus 130 ~~~~CPiCl~~~sek~~v-sT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPV-ST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccCCCceecchhhcccc-cc-ccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 457899999999886433 24 49999999999999999999999999886654
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.02 E-value=3e-10 Score=68.62 Aligned_cols=44 Identities=27% Similarity=0.769 Sum_probs=38.1
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
.|+||+++|.+.....+++ |||+||..|+..+......||+||+
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 4999999996666778887 9999999999998856678999985
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=99.01 E-value=2.4e-10 Score=90.48 Aligned_cols=51 Identities=31% Similarity=0.750 Sum_probs=38.9
Q ss_pred CCCCCCcccCCcCCC-----CceEEcCCCCCcccHhhHHHHHhCC------CCCcccCccCc
Q 043554 104 PATECPICLGEFVDG-----EKVRVLPKCNHGFHVRCIDTWLLSH------SSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~-----~~v~~l~~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~l~ 154 (192)
.+.+|+||||..-++ ....+|+.|+|.||..||..|.+.+ .+||+||..+.
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 357899999986432 1234566699999999999999743 35999999764
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.95 E-value=4.9e-10 Score=67.00 Aligned_cols=38 Identities=45% Similarity=1.034 Sum_probs=29.1
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----CCCccc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----SSCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP~C 149 (192)
|+||++-|+++ ..++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999886 6777 99999999999999643 359987
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.93 E-value=5.8e-10 Score=66.14 Aligned_cols=39 Identities=46% Similarity=1.133 Sum_probs=33.5
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh--CCCCCccc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL--SHSSCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~C 149 (192)
|+||++.+.++. ..++ |||.||..|+..|++ ....||+|
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 799999988763 5777 999999999999998 45569988
No 20
>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=98.88 E-value=2.6e-09 Score=69.03 Aligned_cols=47 Identities=34% Similarity=0.644 Sum_probs=40.9
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
..|+||++.++++ .+++ |||+|+..||..|++.+.+||+|+..+...
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 4699999999886 5677 999999999999998888999999887443
No 21
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=2e-09 Score=93.54 Aligned_cols=50 Identities=30% Similarity=0.717 Sum_probs=39.8
Q ss_pred CCCCCcccCCcCCC--------------CceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554 105 ATECPICLGEFVDG--------------EKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN 155 (192)
Q Consensus 105 ~~~C~ICl~~~~~~--------------~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 155 (192)
..+|+|||.++.-- .....+| |+|+||..|+.+|+. .+-.||+||.+++.
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 45899999988611 1234568 999999999999998 55589999998863
No 22
>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=98.87 E-value=2.2e-09 Score=61.82 Aligned_cols=38 Identities=50% Similarity=1.225 Sum_probs=32.0
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCccc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~C 149 (192)
|+||++.. .....++ |+|.||..|+..|++ .+..||+|
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 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.81 E-value=3.6e-09 Score=70.49 Aligned_cols=52 Identities=33% Similarity=0.717 Sum_probs=37.9
Q ss_pred CCCCCcccCCcC-----------CCCce-EEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 105 ATECPICLGEFV-----------DGEKV-RVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 105 ~~~C~ICl~~~~-----------~~~~v-~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
-+.|+||...|. .+++. .....|+|.||..||.+||..+..||++|+++.-.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 345666665553 33332 23335999999999999999999999999988543
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=2e-09 Score=71.06 Aligned_cols=51 Identities=37% Similarity=0.812 Sum_probs=38.0
Q ss_pred CCCCCCcccCCcCC--------CC-ceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCc
Q 043554 104 PATECPICLGEFVD--------GE-KVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~--------~~-~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~ 154 (192)
++.+|.||.-.|.. +| -..++..|.|.||..||.+|+.. +..||+||+.+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 45689999888862 22 22233369999999999999964 456999999874
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=1.4e-08 Score=87.89 Aligned_cols=49 Identities=29% Similarity=0.579 Sum_probs=42.3
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
....|+||++.|.+. .+++ |||.||..||..|+..+..||+||..+...
T Consensus 25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 457899999999775 4677 999999999999998888899999987654
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=9.4e-09 Score=83.27 Aligned_cols=50 Identities=28% Similarity=0.656 Sum_probs=41.8
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH-HHhCCCC-CcccCccCcCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT-WLLSHSS-CPNCRHSLLNNN 157 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~-Wl~~~~~-CP~CR~~l~~~~ 157 (192)
.++.|+||++..... ..++ |||+||..||.. |-+++.- ||+||+....+.
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 478999999987665 5666 999999999999 9877665 999999886654
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=8.3e-09 Score=83.73 Aligned_cols=52 Identities=27% Similarity=0.678 Sum_probs=43.0
Q ss_pred CCCCCCCcccCCcCCCC-------ceEEcCCCCCcccHhhHHHHHh--CCCCCcccCccCcC
Q 043554 103 IPATECPICLGEFVDGE-------KVRVLPKCNHGFHVRCIDTWLL--SHSSCPNCRHSLLN 155 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~-------~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~ 155 (192)
.++..|+||-..+.... ++..|. |+|+||+.||.-|-. ++++||.|+..+.-
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 35789999999887554 567787 999999999999984 67899999887643
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.60 E-value=3.6e-08 Score=59.09 Aligned_cols=38 Identities=39% Similarity=0.845 Sum_probs=22.4
Q ss_pred CCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCC----CCCc
Q 043554 108 CPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSH----SSCP 147 (192)
Q Consensus 108 C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP 147 (192)
|+||.+ |.+.+ ..++|+ |||+|+.+||+.++++. ..||
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 76644 457798 99999999999999743 3476
No 29
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.52 E-value=9.3e-08 Score=58.98 Aligned_cols=42 Identities=29% Similarity=0.734 Sum_probs=32.6
Q ss_pred CCCcccCCcCCCCceEEcCCCC-----CcccHhhHHHHHhC--CCCCcccC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCN-----HGFHVRCIDTWLLS--HSSCPNCR 150 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR 150 (192)
.|-||++ ..+++...+.| |. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 44445556788 75 89999999999964 44799995
No 30
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=7.2e-08 Score=67.37 Aligned_cols=54 Identities=31% Similarity=0.694 Sum_probs=40.2
Q ss_pred CCCCCCCCcccCCcC-------------CCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554 102 DIPATECPICLGEFV-------------DGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN 155 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~-------------~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 155 (192)
+...+.|+||..-+- .++-+.....|+|.||..||.+|+++++.||+|.+.+.-
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 345668999875542 222333444699999999999999999999999887753
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=9.5e-08 Score=83.78 Aligned_cols=49 Identities=31% Similarity=0.590 Sum_probs=38.9
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-----CCCcccCccCcCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-----SSCPNCRHSLLNNN 157 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~l~~~~ 157 (192)
+..|+|||++...+ ..+ .|||+||..||-+++... ..||+||..+..++
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 77899999987665 334 399999999999988643 46999999887643
No 32
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.37 E-value=4e-07 Score=76.17 Aligned_cols=54 Identities=31% Similarity=0.687 Sum_probs=39.7
Q ss_pred CCCCCcccCC-cCCCC-ceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCC
Q 043554 105 ATECPICLGE-FVDGE-KVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNER 159 (192)
Q Consensus 105 ~~~C~ICl~~-~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~ 159 (192)
+..|++|..+ |.+++ ++.+.+ |||.||..|++..+. ....||.|+..+-..+..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 5689999996 44444 233345 999999999999664 456799999988666533
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.33 E-value=1.8e-07 Score=78.31 Aligned_cols=51 Identities=29% Similarity=0.691 Sum_probs=44.4
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 160 (192)
..|.||.+-|..+ .++| |+|.||.-||..+|..+..||.|+.++.+..-+.
T Consensus 24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~ 74 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRN 74 (442)
T ss_pred HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhhh
Confidence 4699999999886 6788 9999999999999999999999999887764433
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.33 E-value=9.5e-08 Score=63.40 Aligned_cols=50 Identities=34% Similarity=0.879 Sum_probs=23.5
Q ss_pred CCCCCcccCCcCCCCce--EEcC--CCCCcccHhhHHHHHhC----CC-------CCcccCccCc
Q 043554 105 ATECPICLGEFVDGEKV--RVLP--KCNHGFHVRCIDTWLLS----HS-------SCPNCRHSLL 154 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v--~~l~--~C~H~FH~~Ci~~Wl~~----~~-------~CP~CR~~l~ 154 (192)
+.+|.||++.+.+++.+ .+.+ .|++.||..||.+||.. +. +||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 35799999987633322 3332 69999999999999952 11 4999998774
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.30 E-value=2.4e-07 Score=80.08 Aligned_cols=48 Identities=35% Similarity=0.881 Sum_probs=39.0
Q ss_pred CCCCCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 104 PATECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
+..+|+|||+.+.... .+.... |.|.||..|+..|. ..+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence 5679999999998764 344555 99999999999994 568999998654
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=4.2e-07 Score=76.67 Aligned_cols=50 Identities=34% Similarity=0.691 Sum_probs=41.8
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
++..+|.|||++-++ +.+|| |.|. .|..|-+.-.-+.+.||+||+++.+-
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 457899999998766 58999 9998 99999988655677899999988654
No 37
>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=98.24 E-value=5e-07 Score=60.39 Aligned_cols=48 Identities=27% Similarity=0.470 Sum_probs=37.3
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN 156 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~ 156 (192)
...|+|+.+-|.++ .+++ +||.|...||+.|++. ..+||+|+.++...
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 46799999999886 5677 9999999999999988 78899999888654
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.22 E-value=2.8e-07 Score=85.69 Aligned_cols=51 Identities=31% Similarity=0.763 Sum_probs=38.1
Q ss_pred CCCCCCcccCCcCCCC---ceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCc
Q 043554 104 PATECPICLGEFVDGE---KVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~---~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~ 154 (192)
+..+|+||+..+..-+ .-..+++|.|.||..|+..|++. +.+||+||..++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4678999998765211 11234479999999999999974 567999998764
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=7.7e-07 Score=72.90 Aligned_cols=43 Identities=40% Similarity=0.867 Sum_probs=38.3
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
+...|+||++.|.++ .+++ |+|.||..|+..++.....||.||
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 466899999999998 7788 999999999999988556799999
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.1e-06 Score=74.86 Aligned_cols=52 Identities=27% Similarity=0.763 Sum_probs=37.0
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNN 157 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~ 157 (192)
..|.||.+-+.....+.-...|||+||..|+.+|+.. +.+||.|+-.+....
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~ 59 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH 59 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence 4799994444444455444469999999999999974 457999995554433
No 41
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.11 E-value=1.3e-06 Score=71.95 Aligned_cols=52 Identities=27% Similarity=0.503 Sum_probs=42.9
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST 161 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~ 161 (192)
..|-||-+-|..+ ..++ |||.||.-||...|..+..||+||.+..+......
T Consensus 26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~ 77 (391)
T COG5432 26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGS 77 (391)
T ss_pred HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhhcccc
Confidence 4799999888775 4555 99999999999999999999999997766544433
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.00 E-value=2e-06 Score=55.42 Aligned_cols=47 Identities=28% Similarity=0.607 Sum_probs=23.7
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
..|++|.+-++++ |.+. .|+|+||..||..-+.. .||+|+.+...++
T Consensus 8 LrCs~C~~~l~~p--v~l~-~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLG-GCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS---B----SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCC--ceec-cCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence 4699999998876 3334 59999999999885543 4999988765544
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=4.5e-06 Score=71.16 Aligned_cols=50 Identities=36% Similarity=0.900 Sum_probs=39.1
Q ss_pred CCCCCCcccCCcCCCC----ceEEcCCCCCcccHhhHHHHHh--C-----CCCCcccCccC
Q 043554 104 PATECPICLGEFVDGE----KVRVLPKCNHGFHVRCIDTWLL--S-----HSSCPNCRHSL 153 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~----~v~~l~~C~H~FH~~Ci~~Wl~--~-----~~~CP~CR~~l 153 (192)
.+.+|.||++...+.. ....+|.|.|.||..||..|-. + .+.||.||...
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 4779999999877653 1345577999999999999984 3 35799999854
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=1.1e-06 Score=74.12 Aligned_cols=57 Identities=28% Similarity=0.585 Sum_probs=46.4
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCCCCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNERSTAS 163 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~~~~~ 163 (192)
.+..|+|||+-++.. +.++.|.|.||.+||..-++ .++.||.||+.+..+.+.....
T Consensus 42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp 99 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDP 99 (381)
T ss_pred hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCc
Confidence 467899999988764 55557999999999999886 4678999999998877665544
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=1.5e-05 Score=68.41 Aligned_cols=48 Identities=35% Similarity=0.883 Sum_probs=36.9
Q ss_pred CCCCCCcccCCcCCCCc--eEEcCCCCCcccHhhHHHHHhC--CCCCcccCcc
Q 043554 104 PATECPICLGEFVDGEK--VRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHS 152 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~ 152 (192)
...+|+||++.+...-+ +..+ .|||.|..+||+.|+.+ +..||.|...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 35789999999986543 3344 59999999999999953 3359999653
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=3.6e-06 Score=77.22 Aligned_cols=58 Identities=21% Similarity=0.406 Sum_probs=44.2
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTAS 163 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~ 163 (192)
...|++|+..+.++......+ |+|.||..||+.|-+..++||+||..+.+-.......
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~ 180 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTG 180 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeeecccc
Confidence 346777777776665555555 9999999999999999999999999776554444333
No 47
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=4.3e-06 Score=51.90 Aligned_cols=46 Identities=35% Similarity=0.642 Sum_probs=33.8
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHh-CCCCCcccCccCc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
+++|.||+|.-.+. | +-.|||. .|.+|-.+-++ .+..||+||+++-
T Consensus 7 ~dECTICye~pvds--V--lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS--V--LYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH--H--HHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 36899999875443 2 2249998 89999655444 6788999999863
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.69 E-value=1.5e-05 Score=66.01 Aligned_cols=58 Identities=28% Similarity=0.656 Sum_probs=45.9
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----------------------CCCCCcccCccCcCCCCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----------------------SHSSCPNCRHSLLNNNER 159 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----------------------~~~~CP~CR~~l~~~~~~ 159 (192)
....+|.|||--|.+.+...+++ |.|.||..|+.++|. .+..||+||..|......
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 35668999999999999999998 999999999987762 012499999988665444
Q ss_pred CC
Q 043554 160 ST 161 (192)
Q Consensus 160 ~~ 161 (192)
--
T Consensus 192 lk 193 (368)
T KOG4445|consen 192 LK 193 (368)
T ss_pred ee
Confidence 33
No 49
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=1.3e-05 Score=73.54 Aligned_cols=50 Identities=26% Similarity=0.656 Sum_probs=39.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNE 158 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~ 158 (192)
-..|++|-+.+++. .++ +|+|+||..|+..-+. ++..||.|...+...+.
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred ceeCCCccCchhhH---HHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 45899998766553 334 4999999999999885 57789999998866543
No 50
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=3.6e-05 Score=63.80 Aligned_cols=54 Identities=24% Similarity=0.404 Sum_probs=41.6
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCCCCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNNERSTA 162 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~~~~~ 162 (192)
..+|+||+....-+ ..++ |+|.||..||.--.++ +.+|++||.++...-.....
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~ps 61 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPS 61 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcchh
Confidence 45899999887665 4566 9999999999776654 56799999999766544433
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.54 E-value=7.5e-05 Score=47.42 Aligned_cols=41 Identities=32% Similarity=0.665 Sum_probs=28.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPN 148 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~ 148 (192)
...|+|.+..|+++ |+-.. |+|+|-++.|.+|+++ ...||+
T Consensus 11 ~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 56899999999876 55555 9999999999999944 345998
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.44 E-value=4e-05 Score=65.75 Aligned_cols=43 Identities=33% Similarity=0.867 Sum_probs=35.9
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSL 153 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l 153 (192)
-|-||-|. +..|++-| |||..|..|+..|-.. .++||.||..+
T Consensus 371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 59999765 45688899 9999999999999843 57899999865
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.40 E-value=0.0001 Score=64.40 Aligned_cols=55 Identities=31% Similarity=0.647 Sum_probs=45.6
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 160 (192)
.++..|++|...+.++-.. +. |||.||..|+..|+..+..||.|+..+...+..+
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhccC
Confidence 3567899999999887432 34 9999999999999999999999998886666554
No 54
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00023 Score=56.81 Aligned_cols=52 Identities=23% Similarity=0.689 Sum_probs=43.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--------CCCCcccCccCcCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--------HSSCPNCRHSLLNNNE 158 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~l~~~~~ 158 (192)
+.-|..|-..+..+|.++.. |-|+||++|+++|--+ ...||.|-..+..+..
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 44699999999999988875 9999999999999842 3469999998876643
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00015 Score=63.09 Aligned_cols=49 Identities=33% Similarity=0.743 Sum_probs=42.4
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN 155 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 155 (192)
..+.+|.||+.-+... ..+| |||.||..||++-+.....||.||..+.+
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 4578999998888776 5668 99999999999988877789999999876
No 56
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.25 E-value=0.00011 Score=54.24 Aligned_cols=36 Identities=22% Similarity=0.516 Sum_probs=30.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCC------CcccHhhHHHHHh
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCN------HGFHVRCIDTWLL 141 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~------H~FH~~Ci~~Wl~ 141 (192)
..+|.||++.+.+++.++.++ || |+||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 458999999999966676666 65 8999999999943
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.16 E-value=0.00019 Score=61.48 Aligned_cols=46 Identities=39% Similarity=0.875 Sum_probs=37.6
Q ss_pred CCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhCC--CCCcccCc
Q 043554 105 ATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCRH 151 (192)
Q Consensus 105 ~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~~--~~CP~CR~ 151 (192)
+.-|..|-+.+-.. +.+.-+| |.|+||..|+...+.++ ++||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 45799999888644 4567788 99999999999999654 57999983
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.90 E-value=0.00055 Score=66.92 Aligned_cols=51 Identities=29% Similarity=0.621 Sum_probs=40.8
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----------CCCcccCccCc
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----------SSCPNCRHSLL 154 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~l~ 154 (192)
+.++.|-||+.+--.....+.|. |+|+||..|...-|.++ -+||+|..++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 35778999998887777788897 99999999997766432 15999998763
No 59
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00027 Score=53.67 Aligned_cols=31 Identities=32% Similarity=0.684 Sum_probs=27.7
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHh
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVR 134 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~ 134 (192)
...-+|.||||+++.++.+..|| |-.+||+.
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK~ 205 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHKQ 205 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence 34568999999999999999999 99999973
No 60
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.88 E-value=0.00098 Score=50.60 Aligned_cols=51 Identities=22% Similarity=0.505 Sum_probs=36.1
Q ss_pred CCCCCCCCcccCCcCCCCceEEcC-CCCC---cccHhhHHHHHhC--CCCCcccCccCcCC
Q 043554 102 DIPATECPICLGEFVDGEKVRVLP-KCNH---GFHVRCIDTWLLS--HSSCPNCRHSLLNN 156 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v~~l~-~C~H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~ 156 (192)
+..+..|-||.++... .. -| .|.. ..|.+|+++|+.. ...|++|+.++.-.
T Consensus 5 s~~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4457799999988542 22 34 2444 5699999999964 45699999877443
No 61
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.75 E-value=0.00032 Score=58.91 Aligned_cols=51 Identities=27% Similarity=0.714 Sum_probs=41.7
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
..-+|.+|-.-|.+...+. .|-|.||+.||...|.....||+|...+..-.
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 3558999998888775443 49999999999999999999999988775543
No 62
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=0.00018 Score=61.00 Aligned_cols=44 Identities=27% Similarity=0.596 Sum_probs=32.0
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
....|.||+++..+ ...+| |||+-| |..-- +...+||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 45679999999777 56788 999965 55443 23345999998763
No 63
>PHA02862 5L protein; Provisional
Probab=96.69 E-value=0.0012 Score=49.27 Aligned_cols=45 Identities=20% Similarity=0.512 Sum_probs=33.4
Q ss_pred CCCCcccCCcCCCCceEEcCCCC-----CcccHhhHHHHHh--CCCCCcccCccCcC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCN-----HGFHVRCIDTWLL--SHSSCPNCRHSLLN 155 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~ 155 (192)
+.|=||+++-++. + -| |. -..|.+|+.+|++ ++..|++|+.++.-
T Consensus 3 diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 5799999985433 3 34 43 4689999999996 35579999987643
No 64
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.68 E-value=0.0017 Score=52.61 Aligned_cols=58 Identities=14% Similarity=0.243 Sum_probs=50.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTA 162 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~ 162 (192)
-+.|+||.+.+.+...+..|..|||+|+.+|++..++....||+|-.++.+.+-....
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~Lq 278 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQ 278 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeee
Confidence 5679999999999988877777999999999999998899999999988777655443
No 65
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.0072 Score=49.78 Aligned_cols=51 Identities=27% Similarity=0.466 Sum_probs=37.4
Q ss_pred CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCc
Q 043554 101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLL 154 (192)
Q Consensus 101 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~ 154 (192)
....+.+|++|-+.-..+ ....+ |+|+||--||..=+.. ..+||.|-.+..
T Consensus 235 ~~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 344578999998875544 33444 9999999999886653 368999977654
No 66
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.66 E-value=0.0016 Score=39.66 Aligned_cols=45 Identities=24% Similarity=0.608 Sum_probs=22.7
Q ss_pred CCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccC
Q 043554 108 CPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSL 153 (192)
Q Consensus 108 C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l 153 (192)
|++|.+++...+ .+.-.+ |++.++..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999995443 334444 899999999998775 367899999864
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.62 E-value=0.00087 Score=59.66 Aligned_cols=57 Identities=23% Similarity=0.463 Sum_probs=42.2
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----CCCCCcccCccCcCCCCCCCCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----SHSSCPNCRHSLLNNNERSTAS 163 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~~l~~~~~~~~~~ 163 (192)
.+..+|.+|.++-++. .... |.|.||.-||.+++. .+-+||+|...+.-+...++.+
T Consensus 534 k~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ale 595 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALE 595 (791)
T ss_pred cCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhh
Confidence 3567899999875543 4454 999999999988874 3567999988887665544443
No 68
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.62 E-value=0.0015 Score=39.77 Aligned_cols=41 Identities=29% Similarity=0.813 Sum_probs=26.2
Q ss_pred CCcccCCcCCCCceEEcC-CCCC---cccHhhHHHHHh--CCCCCccc
Q 043554 108 CPICLGEFVDGEKVRVLP-KCNH---GFHVRCIDTWLL--SHSSCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~-~C~H---~FH~~Ci~~Wl~--~~~~CP~C 149 (192)
|-||+++-.+.+ ..+.| .|.= ..|.+|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678998877665 33455 2443 789999999997 45569887
No 69
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.59 E-value=0.0013 Score=56.78 Aligned_cols=37 Identities=27% Similarity=0.695 Sum_probs=33.2
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL 141 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~ 141 (192)
.-..|.||+++..-...+..+| |+|+||+.|+..++.
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT 219 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence 3568999999988878899999 999999999999984
No 70
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.51 E-value=0.0012 Score=46.59 Aligned_cols=32 Identities=31% Similarity=0.736 Sum_probs=27.0
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHH
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCID 137 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~ 137 (192)
++..|++|-..+.. ....+.| |||+||..|+.
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 35679999999987 5677788 99999999975
No 71
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.47 E-value=0.001 Score=52.20 Aligned_cols=43 Identities=23% Similarity=0.492 Sum_probs=36.0
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS 152 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 152 (192)
..|.||-.+|+.+ +++. |||.||..|...=++....|-+|...
T Consensus 197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence 4799999999986 4444 99999999998877878889999653
No 72
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.46 E-value=0.01 Score=50.02 Aligned_cols=46 Identities=22% Similarity=0.476 Sum_probs=36.7
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS 152 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 152 (192)
....|++|+..-.++..+.+ -|-+||..|+..++.+.+.||+=..+
T Consensus 299 ~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCCc
Confidence 45689999998777644332 68999999999999999999985443
No 73
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.44 E-value=0.0011 Score=61.72 Aligned_cols=49 Identities=33% Similarity=0.726 Sum_probs=39.5
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-C------CCcccCcc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-S------SCPNCRHS 152 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-~------~CP~CR~~ 152 (192)
..++|.||.+.+...+.+--...|-|+||..||..|-++. + .||.|+..
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4679999999998887766555688999999999999631 1 49999843
No 74
>PHA03096 p28-like protein; Provisional
Probab=96.44 E-value=0.0015 Score=54.62 Aligned_cols=48 Identities=21% Similarity=0.495 Sum_probs=35.0
Q ss_pred CCCCcccCCcCCCC----ceEEcCCCCCcccHhhHHHHHhC---CCC---CcccCccC
Q 043554 106 TECPICLGEFVDGE----KVRVLPKCNHGFHVRCIDTWLLS---HSS---CPNCRHSL 153 (192)
Q Consensus 106 ~~C~ICl~~~~~~~----~v~~l~~C~H~FH~~Ci~~Wl~~---~~~---CP~CR~~l 153 (192)
..|.||++...... .-..|+.|.|.||..|+..|... +.. ||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 57999999887542 23457789999999999999953 223 55555544
No 75
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.27 E-value=0.003 Score=52.64 Aligned_cols=43 Identities=40% Similarity=0.810 Sum_probs=34.6
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCc
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRH 151 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~ 151 (192)
..|+.|..-+.+. ..++.|+|.||++||...|. ....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799998887776 33456999999999998775 5778999944
No 76
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.03 E-value=0.011 Score=36.96 Aligned_cols=35 Identities=31% Similarity=0.880 Sum_probs=31.1
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT 138 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~ 138 (192)
....|.+|-+.|++++.+.+.|.|+-.+|.+|.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 45689999999999999999999999999999544
No 77
>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=95.77 E-value=0.0049 Score=36.76 Aligned_cols=41 Identities=29% Similarity=0.774 Sum_probs=22.2
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC--CCccc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--SCPNC 149 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~C 149 (192)
|.+|.+-...+...... .|+=.+|..|+..+++.+. .||.|
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 56777666655333222 3888999999999997654 69987
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.76 E-value=0.014 Score=48.30 Aligned_cols=54 Identities=20% Similarity=0.408 Sum_probs=41.4
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
.....|||...+|........+-.|||+|-..+|..- +....||+|-.++.+.+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 4567899999999665555444349999999999995 43557999999887554
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.55 E-value=0.0048 Score=49.87 Aligned_cols=43 Identities=26% Similarity=0.679 Sum_probs=31.9
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
-|..|.- +..++...++. |+|+||..|...-. ...||+|+.++
T Consensus 5 hCn~C~~-~~~~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFR-FPSQDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSI 47 (233)
T ss_pred Eeccccc-cCCCCceeeee-chhhhhhhhcccCC--cccccccccee
Confidence 3666654 34477888887 99999999976532 22899999985
No 80
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.52 E-value=0.0077 Score=50.06 Aligned_cols=45 Identities=24% Similarity=0.390 Sum_probs=37.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
...|-||...|..+ +++. |+|.||..|...=++....|.+|-+..
T Consensus 241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccc
Confidence 45699999999886 4454 999999999888777778899996644
No 81
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.28 E-value=0.0099 Score=37.16 Aligned_cols=45 Identities=29% Similarity=0.552 Sum_probs=31.6
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
.|-.|... +.+-.++| |+|+.+..|..-+ +-+-||.|..++...+
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 45555433 23346788 9999999998774 4556999988886544
No 82
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.00079 Score=57.75 Aligned_cols=51 Identities=25% Similarity=0.640 Sum_probs=44.1
Q ss_pred CCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 105 ATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 105 ~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
...|+||.+.++.. +++..+- |||.+|..||..|+..+..||.||+.+...
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45799999999987 6666675 999999999999998888899999988654
No 83
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.015 Score=49.68 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=40.7
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN 155 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 155 (192)
.++..|+||...- ......| |+|.-|..||.+-+-+.+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 4688999998653 3346778 99999999999999999999999987753
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.15 E-value=0.0072 Score=56.59 Aligned_cols=41 Identities=24% Similarity=0.694 Sum_probs=31.6
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
...|..|-..++-+. .-- .|||.||.+|++ .+...||.|+.
T Consensus 840 ~skCs~C~~~LdlP~--VhF-~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPF--VHF-LCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCccccce--eee-ecccHHHHHhhc---cCcccCCccch
Confidence 358999988877662 233 399999999998 35567999976
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.11 E-value=0.017 Score=49.00 Aligned_cols=55 Identities=24% Similarity=0.533 Sum_probs=39.9
Q ss_pred CCCCCCcccCCcCCCCc-eEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCCCC
Q 043554 104 PATECPICLGEFVDGEK-VRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNNER 159 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~~ 159 (192)
+++-|+.|++++...|+ ..-.+ ||-..|.-|...--++ +..||-||+...+.+.+
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 44559999999987664 45566 9988888887663322 55799999988665543
No 86
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.53 E-value=0.027 Score=48.50 Aligned_cols=27 Identities=26% Similarity=0.805 Sum_probs=20.3
Q ss_pred CcccHhhHHHHHhCC-------------CCCcccCccCcC
Q 043554 129 HGFHVRCIDTWLLSH-------------SSCPNCRHSLLN 155 (192)
Q Consensus 129 H~FH~~Ci~~Wl~~~-------------~~CP~CR~~l~~ 155 (192)
=++|.+|+.+|+-.+ -.||+||+.+.-
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 356889999999422 259999998754
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.49 E-value=0.029 Score=46.91 Aligned_cols=47 Identities=32% Similarity=0.710 Sum_probs=37.6
Q ss_pred CCCCcccCCcCCCCc---eEEcCCCCCcccHhhHHHHHhC-CCCCcccCccC
Q 043554 106 TECPICLGEFVDGEK---VRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSL 153 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~---v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l 153 (192)
.+|-||-++|...+. .+.|. |||.|+..|+..-+.+ ...||.||...
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 579999999997742 35565 9999999999986654 34599999985
No 88
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.0064 Score=50.50 Aligned_cols=42 Identities=29% Similarity=0.671 Sum_probs=32.2
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
+.-|+||++.-.+ ...|+ |||. -|.+|-... +.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 5679999987444 67888 9996 788886552 37999998764
No 89
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.34 E-value=0.038 Score=42.86 Aligned_cols=31 Identities=29% Similarity=0.885 Sum_probs=24.5
Q ss_pred CCCCcccHhhHHHHHhC----CC-------CCcccCccCcCC
Q 043554 126 KCNHGFHVRCIDTWLLS----HS-------SCPNCRHSLLNN 156 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~----~~-------~CP~CR~~l~~~ 156 (192)
.||.-||.-|+..||+. ++ .||.|-.++.-+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 49999999999999962 22 499998877544
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.77 E-value=0.019 Score=53.57 Aligned_cols=50 Identities=28% Similarity=0.623 Sum_probs=38.2
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCcCCCCCC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~~~~ 160 (192)
..|.||++ .+.....+ |+|.||.+|+..-+.. ...||.||..+.+..-..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 68999998 44556666 9999999999887753 335999999876654433
No 91
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.37 E-value=0.044 Score=45.53 Aligned_cols=44 Identities=32% Similarity=0.743 Sum_probs=36.2
Q ss_pred CCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 107 ECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 107 ~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
.|+||.+.+-... .+..++ |||..|..|++.......+||+|..
T Consensus 160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 4999998876554 345666 9999999999998877789999977
No 92
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.06 E-value=0.043 Score=51.82 Aligned_cols=36 Identities=28% Similarity=0.617 Sum_probs=28.6
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL 140 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl 140 (192)
.+++.|.+|.-.+... ...+-| |||.||++||..-.
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 3577999999887765 445677 99999999997655
No 93
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.00 E-value=0.096 Score=44.73 Aligned_cols=49 Identities=29% Similarity=0.587 Sum_probs=36.2
Q ss_pred CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHH--HhCCCCCcccCccCc
Q 043554 102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTW--LLSHSSCPNCRHSLL 154 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~W--l~~~~~CP~CR~~l~ 154 (192)
+++..-|.||-+.+.- +.++| |+|..|.-|-.+- |-.++.||+||..+.
T Consensus 58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3455679999876543 57888 9999999997552 235678999998653
No 94
>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=92.75 E-value=0.28 Score=35.92 Aligned_cols=31 Identities=13% Similarity=0.082 Sum_probs=17.4
Q ss_pred CCCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 28 NEANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 28 ~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
-.++-..+.+|+++++.++++++++|.++++
T Consensus 59 h~fs~~~i~~Ii~gv~aGvIg~Illi~y~ir 89 (122)
T PF01102_consen 59 HRFSEPAIIGIIFGVMAGVIGIILLISYCIR 89 (122)
T ss_dssp SSSS-TCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCccccceeehhHHHHHHHHHHHHHHHHHHH
Confidence 3444445677777777777665554444443
No 95
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=92.70 E-value=0.11 Score=38.34 Aligned_cols=16 Identities=19% Similarity=0.324 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 043554 37 VIILAALLCALICALG 52 (192)
Q Consensus 37 ~iil~~ll~~~i~~~~ 52 (192)
|++++++|++++++|+
T Consensus 2 W~l~~iii~~i~l~~~ 17 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLF 17 (130)
T ss_pred eeeHHHHHHHHHHHHH
Confidence 3344433333333333
No 96
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.49 E-value=0.062 Score=50.10 Aligned_cols=23 Identities=30% Similarity=0.866 Sum_probs=21.0
Q ss_pred CCCCcccHhhHHHHHhCCCCCcc
Q 043554 126 KCNHGFHVRCIDTWLLSHSSCPN 148 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~~~~CP~ 148 (192)
.|+|+.|.+|...|+...-.||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 59999999999999999888874
No 97
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=92.45 E-value=0.066 Score=32.41 Aligned_cols=30 Identities=27% Similarity=0.687 Sum_probs=21.4
Q ss_pred CC-CcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 127 CN-HGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 127 C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
|+ |..|-.|+...+.+...||+|..+++.+
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 75 9999999999888888899999988654
No 98
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.33 E-value=0.032 Score=54.57 Aligned_cols=45 Identities=31% Similarity=0.734 Sum_probs=38.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS 152 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 152 (192)
...|.||++.+.+...+. .|||.+|..|+..|+..+..||.|+..
T Consensus 1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence 448999999988654444 399999999999999999999999743
No 99
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=92.20 E-value=0.14 Score=42.67 Aligned_cols=53 Identities=26% Similarity=0.674 Sum_probs=37.5
Q ss_pred CCCcccCC-cCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCC
Q 043554 107 ECPICLGE-FVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNER 159 (192)
Q Consensus 107 ~C~ICl~~-~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~ 159 (192)
.|++|-.+ |.+++...+...|+|..|.+|++.-+. ....||.|...+-..+.+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 58888754 445554433334999999999999885 456799998776555443
No 100
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.77 E-value=0.067 Score=44.98 Aligned_cols=43 Identities=28% Similarity=0.561 Sum_probs=28.8
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
..|--|--. ..-.-|+.| |+|+||.+|-.. ...+.||.|-..+
T Consensus 91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 357666333 222337788 999999999765 4456799986544
No 101
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=91.08 E-value=0.18 Score=42.57 Aligned_cols=45 Identities=20% Similarity=0.482 Sum_probs=34.5
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
+-.+|+||.+.+..+ +.+.+ =||+.|..|=. +..+.||.||.++.
T Consensus 47 ~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCccccccc
Confidence 456899999999887 34433 37999999965 34667999999886
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.94 E-value=0.086 Score=43.17 Aligned_cols=52 Identities=27% Similarity=0.646 Sum_probs=34.7
Q ss_pred CCCCCCCCcccCCcCCCCce-EEcC-CCC---CcccHhhHHHHHhCCC--------CCcccCccC
Q 043554 102 DIPATECPICLGEFVDGEKV-RVLP-KCN---HGFHVRCIDTWLLSHS--------SCPNCRHSL 153 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v-~~l~-~C~---H~FH~~Ci~~Wl~~~~--------~CP~CR~~l 153 (192)
...+..|=||+..=+++-.- -+-| .|. |=.|..|+..|+..++ +||.|+...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 44567899999875555322 1233 142 6699999999994322 499998754
No 103
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.47 E-value=1.3 Score=38.60 Aligned_cols=45 Identities=20% Similarity=0.411 Sum_probs=38.1
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC---CCCccc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH---SSCPNC 149 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~C 149 (192)
+-..|||=.+.-.+....+.|. |||+..++-+.+-.++. ..||.|
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence 5678999988888888888898 99999999999976643 369999
No 104
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=89.57 E-value=0.33 Score=38.62 Aligned_cols=40 Identities=35% Similarity=0.811 Sum_probs=29.8
Q ss_pred CCCCCcccCC-----cCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 105 ATECPICLGE-----FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 105 ~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
+..|-+|-++ |+. +.+...+.|+-+||..|... ..||-|.
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 6789999753 222 35677778999999999662 6799994
No 105
>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=89.54 E-value=0.97 Score=26.03 Aligned_cols=28 Identities=18% Similarity=0.274 Sum_probs=16.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 35 NMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
...++.++++++.++++.++.+..|++|
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3456666666666666666555555443
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.52 E-value=0.24 Score=41.43 Aligned_cols=30 Identities=20% Similarity=0.669 Sum_probs=22.4
Q ss_pred CCCcccHhhHHHHHhC-------------CCCCcccCccCcCC
Q 043554 127 CNHGFHVRCIDTWLLS-------------HSSCPNCRHSLLNN 156 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~l~~~ 156 (192)
|.-.+|.+|+.+|+.. +-+||+||+.+.-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 5567889999999842 33699999987543
No 107
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.31 E-value=0.22 Score=41.70 Aligned_cols=52 Identities=23% Similarity=0.637 Sum_probs=36.7
Q ss_pred CCCCCcccCCcCCCCc-eEEcC-CCC---CcccHhhHHHHHh--CCCCCcccCccCcCC
Q 043554 105 ATECPICLGEFVDGEK-VRVLP-KCN---HGFHVRCIDTWLL--SHSSCPNCRHSLLNN 156 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~-v~~l~-~C~---H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~~ 156 (192)
+..|-||+++...... ..+.| .|+ +..|..|++.|+. .+..|-+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4689999998765432 33445 243 5689999999997 456699998766444
No 108
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.84 E-value=0.1 Score=47.81 Aligned_cols=39 Identities=33% Similarity=0.669 Sum_probs=29.5
Q ss_pred CCCCcccCCcCCCCce-EEcCCCCCcccHhhHHHHHhCCCCCc
Q 043554 106 TECPICLGEFVDGEKV-RVLPKCNHGFHVRCIDTWLLSHSSCP 147 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v-~~l~~C~H~FH~~Ci~~Wl~~~~~CP 147 (192)
..|.||+..|-..... +.+ .|||..|..|++.- .+.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~l--yn~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLL--YNASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccc-cccchHHHHHHHhH--hhccCC
Confidence 3699998888766433 334 59999999999884 456788
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.40 E-value=0.19 Score=43.92 Aligned_cols=38 Identities=34% Similarity=0.711 Sum_probs=28.3
Q ss_pred CCCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhC
Q 043554 104 PATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLS 142 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~ 142 (192)
...+|.||..++... +...+. .|+|.||.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 456899999555554 444444 59999999999988863
No 110
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.33 E-value=0.24 Score=39.58 Aligned_cols=38 Identities=32% Similarity=0.662 Sum_probs=28.4
Q ss_pred CCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccC
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
|-.|-+ .+..|..+| |.|+ +|..|=+. -..||+|+...
T Consensus 161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence 666654 456688999 9986 99999654 34699998754
No 111
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.13 E-value=0.37 Score=35.67 Aligned_cols=52 Identities=19% Similarity=0.380 Sum_probs=35.3
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh---CCCCCcccCccCcC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL---SHSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~~ 155 (192)
.-++|.||.|.-.+..-+.--.-||-..|.-|-..-++ ....||+|+.++-.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 46789999987554422211114899999988766554 35679999988743
No 112
>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=88.13 E-value=0.24 Score=40.29 Aligned_cols=48 Identities=25% Similarity=0.822 Sum_probs=35.3
Q ss_pred CCCCCCcccCC-cCCCC-ceEEcCCCCCcccHhhHHHHHhC-CCCCc--ccCc
Q 043554 104 PATECPICLGE-FVDGE-KVRVLPKCNHGFHVRCIDTWLLS-HSSCP--NCRH 151 (192)
Q Consensus 104 ~~~~C~ICl~~-~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP--~CR~ 151 (192)
.+..|+||..+ |-+++ ++.+-|.|-|..|.+|+++-|.. ...|| -|..
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45689999876 34444 34455679999999999999865 45699 7744
No 113
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.89 E-value=0.27 Score=44.87 Aligned_cols=57 Identities=32% Similarity=0.764 Sum_probs=45.6
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCCCCCC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAA 167 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~~~ 167 (192)
.....|.||+.++ ..+..+ |. |..|+..|+-.+..||+|+..+..+......+.++.
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~~~ 533 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSEST 533 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccCccccccc
Confidence 3567899999988 345555 77 999999999999999999998877777666665555
No 114
>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=87.42 E-value=0.71 Score=35.23 Aligned_cols=35 Identities=26% Similarity=0.603 Sum_probs=22.2
Q ss_pred CCCCCCcccCCcCCCCceEEcC------C-----CCC-cccHhhHHHHHh
Q 043554 104 PATECPICLGEFVDGEKVRVLP------K-----CNH-GFHVRCIDTWLL 141 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~------~-----C~H-~FH~~Ci~~Wl~ 141 (192)
++..|+||||--.+. ++|- + |+- .-|..|++++-+
T Consensus 1 ed~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 356899999865543 2221 1 443 358899999754
No 115
>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=86.03 E-value=0.53 Score=24.84 Aligned_cols=23 Identities=30% Similarity=0.801 Sum_probs=14.5
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcc
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGF 131 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~F 131 (192)
.|+-|-.++... .+..|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 577777665443 44556677777
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=85.98 E-value=0.51 Score=29.14 Aligned_cols=43 Identities=30% Similarity=0.622 Sum_probs=21.3
Q ss_pred CCcccCCcCCC------CceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 108 CPICLGEFVDG------EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 108 C~ICl~~~~~~------~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
|--|+..|... ......+.|++.|+.+|=.--=..=.+||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 44566666654 24556678999999999332112345799884
No 117
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.74 E-value=0.66 Score=43.90 Aligned_cols=50 Identities=24% Similarity=0.596 Sum_probs=36.4
Q ss_pred CCCCCCcccCCcCCCCceEEcC-CCC---CcccHhhHHHHHh--CCCCCcccCccCc
Q 043554 104 PATECPICLGEFVDGEKVRVLP-KCN---HGFHVRCIDTWLL--SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~-~C~---H~FH~~Ci~~Wl~--~~~~CP~CR~~l~ 154 (192)
++..|-||..+-..++.+- -| +|. -..|.+|+.+|+. .+..|-+|+.++.
T Consensus 11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 4578999998876665542 23 243 3489999999996 3556999998763
No 118
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=85.46 E-value=0.22 Score=46.24 Aligned_cols=51 Identities=31% Similarity=0.700 Sum_probs=37.9
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNNER 159 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~ 159 (192)
..+|+||...+.++ ..+ +|.|.|+..|+..-|.. ...||+|+..+......
T Consensus 21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~ 74 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR 74 (684)
T ss_pred hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence 35799999999887 344 49999999998776643 34699998766544333
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=84.86 E-value=1.6 Score=31.98 Aligned_cols=34 Identities=9% Similarity=0.225 Sum_probs=21.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 33 DTNMVIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 33 ~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
++.--.+++++++++..++++++++.|++||+++
T Consensus 60 ~fs~~~i~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 60 RFSEPAIIGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp SSS-TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred CccccceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3334466777777777777777777766665544
No 120
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=84.63 E-value=0.83 Score=40.34 Aligned_cols=33 Identities=27% Similarity=0.729 Sum_probs=27.8
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL 140 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl 140 (192)
++..|+||..-|+++ ++|+ |+|.+|..|-..-+
T Consensus 3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNIL 35 (699)
T ss_pred ccccCceehhhccCc---eEee-cccHHHHHHHHhhc
Confidence 456899999999886 7888 99999999987644
No 121
>PF15050 SCIMP: SCIMP protein
Probab=84.13 E-value=3.1 Score=30.24 Aligned_cols=9 Identities=56% Similarity=0.597 Sum_probs=5.0
Q ss_pred hHHHHHHHH
Q 043554 35 NMVIILAAL 43 (192)
Q Consensus 35 ~~~iil~~l 43 (192)
+|||||++-
T Consensus 7 nFWiiLAVa 15 (133)
T PF15050_consen 7 NFWIILAVA 15 (133)
T ss_pred chHHHHHHH
Confidence 456666643
No 122
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=84.01 E-value=0.95 Score=42.47 Aligned_cols=41 Identities=22% Similarity=0.510 Sum_probs=30.3
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcc
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPN 148 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~ 148 (192)
..|.+|-..+.. .....+.|+|.-|.+|+..|+.....||.
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 368888655433 23345579999999999999987777765
No 123
>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 TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.21 E-value=2.2 Score=30.77 Aligned_cols=46 Identities=28% Similarity=0.437 Sum_probs=34.1
Q ss_pred CCCCCcccCCcCCCC----------ceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 105 ATECPICLGEFVDGE----------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~----------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
...|--|+..|.+.. .....+.|++.|+.+|=.-+-..=.+||-|.
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 356999999887531 1234567999999999777666667799995
No 125
>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=81.39 E-value=1.2 Score=26.81 Aligned_cols=43 Identities=30% Similarity=0.644 Sum_probs=29.2
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh------CCCCCcccCc
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL------SHSSCPNCRH 151 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~------~~~~CP~CR~ 151 (192)
|.||.. ..+.+.+..-..|+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 889988 444455666667999999999854321 2346888853
No 126
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.78 E-value=0.56 Score=42.98 Aligned_cols=42 Identities=26% Similarity=0.703 Sum_probs=26.8
Q ss_pred CCCCCCcccCC-----cCCCCceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554 104 PATECPICLGE-----FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149 (192)
Q Consensus 104 ~~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 149 (192)
....|.+|... |+ .+.++....|+++||+.|+.. ....||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 35678888321 22 233444446999999999655 33449999
No 127
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=80.56 E-value=1.6 Score=33.84 Aligned_cols=23 Identities=9% Similarity=0.049 Sum_probs=10.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGLNSIV 57 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~ 57 (192)
.++|+++++++++++++++.++.
T Consensus 77 ~~~iivgvi~~Vi~Iv~~Iv~~~ 99 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLIVCFC 99 (179)
T ss_pred eeeeeeehhhHHHHHHHhHhhhe
Confidence 44455555444444444443344
No 128
>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=79.91 E-value=2.3 Score=25.93 Aligned_cols=42 Identities=26% Similarity=0.552 Sum_probs=19.2
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-----CCCCcccCcc
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-----HSSCPNCRHS 152 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~ 152 (192)
.|+|....++.+ ++-.. |.|.-+.+ ++.|+.. .-.||+|.++
T Consensus 4 ~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 588888777664 56665 99984422 3455532 2259999763
No 129
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.42 E-value=1.4 Score=39.18 Aligned_cols=37 Identities=24% Similarity=0.547 Sum_probs=30.3
Q ss_pred CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC
Q 043554 103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~ 142 (192)
....+|-||.+.+.. .+..+. |+|.|+..|...++.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 345789999999877 455666 9999999999999864
No 130
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=78.11 E-value=1.5 Score=25.04 Aligned_cols=26 Identities=35% Similarity=0.704 Sum_probs=16.0
Q ss_pred CCCcccCCcCCCCc-------eEEcCCCCCccc
Q 043554 107 ECPICLGEFVDGEK-------VRVLPKCNHGFH 132 (192)
Q Consensus 107 ~C~ICl~~~~~~~~-------v~~l~~C~H~FH 132 (192)
+|+-|...|+.++. ....+.|+|+|.
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 58888888775543 223445777764
No 131
>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=77.15 E-value=3.3 Score=22.73 Aligned_cols=37 Identities=27% Similarity=0.547 Sum_probs=25.0
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
.|..|-+.+...+..... =+..||.+| ..|..|..+|
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcC
Confidence 378888887776333332 467899888 3577887765
No 132
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=76.99 E-value=1.2 Score=36.79 Aligned_cols=49 Identities=31% Similarity=0.727 Sum_probs=35.1
Q ss_pred CCCCCcccCCcCCCCceEEc-C--CCCCcccHhhHHHHHhC---------CCCCcccCccC
Q 043554 105 ATECPICLGEFVDGEKVRVL-P--KCNHGFHVRCIDTWLLS---------HSSCPNCRHSL 153 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l-~--~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~l 153 (192)
..+|-+|.+++.+.+..+.. + .|+-++|-.|+..-+.. ...||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 35899999999655544432 1 68889999999885531 33699998754
No 133
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=75.91 E-value=1.3 Score=35.38 Aligned_cols=46 Identities=28% Similarity=0.684 Sum_probs=34.9
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
-..|.+|.+-.-.+ +....||-.+|..|+..++.+...||.|..-+
T Consensus 181 lk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 45899998765443 22334778899999999999988899995444
No 134
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=75.20 E-value=17 Score=25.66 Aligned_cols=23 Identities=17% Similarity=0.494 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 043554 39 ILAALLCALICALGLNSIVRCAL 61 (192)
Q Consensus 39 il~~ll~~~i~~~~l~~~~~~~~ 61 (192)
++++++.++++.+++++.++|-.
T Consensus 20 LVGVv~~al~~SlLIalaaKC~~ 42 (102)
T PF15176_consen 20 LVGVVVTALVTSLLIALAAKCPV 42 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHH
Confidence 33333334444444444444433
No 135
>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=74.76 E-value=4.6 Score=34.17 Aligned_cols=18 Identities=17% Similarity=0.255 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043554 43 LLCALICALGLNSIVRCA 60 (192)
Q Consensus 43 ll~~~i~~~~l~~~~~~~ 60 (192)
+|+++++.+++++++|+.
T Consensus 265 IliIVLIMvIIYLILRYR 282 (299)
T PF02009_consen 265 ILIIVLIMVIIYLILRYR 282 (299)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444445555566643
No 136
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.46 E-value=1.2 Score=41.91 Aligned_cols=43 Identities=23% Similarity=0.535 Sum_probs=30.4
Q ss_pred CCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554 105 ATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149 (192)
Q Consensus 105 ~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 149 (192)
+..|.-|.+..... +.+.++. |+|+||+.|+..-..+++ |-.|
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 34799998877633 3566676 999999999977665444 5444
No 137
>PF14979 TMEM52: Transmembrane 52
Probab=74.43 E-value=8.3 Score=29.07 Aligned_cols=34 Identities=35% Similarity=0.458 Sum_probs=15.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHH-HHHHH-HHHhhcc
Q 043554 32 FDTNMVIILAALLCALICALGL-NSIVR-CALRCSH 65 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l-~~~~~-~~~~~~~ 65 (192)
....+.|.|++++++++++.++ ..++| |++|+..
T Consensus 16 W~~LWyIwLill~~~llLLCG~ta~C~rfCClrk~~ 51 (154)
T PF14979_consen 16 WSSLWYIWLILLIGFLLLLCGLTASCVRFCCLRKQA 51 (154)
T ss_pred eehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 3334444444444444444444 23444 6665543
No 138
>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=73.62 E-value=13 Score=26.85 Aligned_cols=33 Identities=18% Similarity=0.396 Sum_probs=22.9
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 30 ANFDTNMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 30 ~~~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
...+..+-.+|+.+.++.+..++.+.+++.+.|
T Consensus 80 ~p~d~aLp~VIGGLcaL~LaamGA~~LLrR~cR 112 (126)
T PF03229_consen 80 PPVDFALPLVIGGLCALTLAAMGAGALLRRCCR 112 (126)
T ss_pred CCcccchhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 344556678888888888888888776664443
No 139
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.40 E-value=1.6 Score=38.26 Aligned_cols=44 Identities=25% Similarity=0.524 Sum_probs=32.5
Q ss_pred CCCCCcccCCcCCCCc--eEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554 105 ATECPICLGEFVDGEK--VRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 149 (192)
-..|+.|.-.++.... ..+.. |||.|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 4579999877665543 34555 99999999999998777766444
No 140
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=73.14 E-value=13 Score=30.21 Aligned_cols=32 Identities=13% Similarity=0.343 Sum_probs=13.0
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 31 NFDTNMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 31 ~~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
++...++.++++++++.+.+|.+..+++.+++
T Consensus 185 S~S~vilpvvIaliVitl~vf~LvgLyr~C~k 216 (259)
T PF07010_consen 185 SYSSVILPVVIALIVITLSVFTLVGLYRMCWK 216 (259)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34434443333344444444444444443333
No 141
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.30 E-value=4 Score=33.60 Aligned_cols=52 Identities=19% Similarity=0.322 Sum_probs=37.5
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
....|+|=--+|........+-.|||+|-..-+.+. ...+|++|.+.+.+.+
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 355799987777665544333349999998887772 3667999999876654
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=72.00 E-value=3.3 Score=25.28 Aligned_cols=39 Identities=23% Similarity=0.455 Sum_probs=23.5
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
|.-|-..+..++.+... -+..||.+| ..|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCCC
Confidence 56676666655444222 566777777 3577777666443
No 143
>PRK01844 hypothetical protein; Provisional
Probab=71.92 E-value=12 Score=24.73 Aligned_cols=25 Identities=16% Similarity=0.110 Sum_probs=11.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGLNSIVRC 59 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~ 59 (192)
++||+++++.++..++.+++.-.++
T Consensus 4 ~~~I~l~I~~li~G~~~Gff~ark~ 28 (72)
T PRK01844 4 WLGILVGVVALVAGVALGFFIARKY 28 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555544444444444444443
No 144
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=71.05 E-value=3.3 Score=23.45 Aligned_cols=26 Identities=27% Similarity=0.630 Sum_probs=15.9
Q ss_pred CCCcccCCcCCCCc-------eEEcCCCCCccc
Q 043554 107 ECPICLGEFVDGEK-------VRVLPKCNHGFH 132 (192)
Q Consensus 107 ~C~ICl~~~~~~~~-------v~~l~~C~H~FH 132 (192)
+|+=|...|..++. -...+.|+|.|+
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 57888888875543 123345777764
No 145
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=70.61 E-value=2.2 Score=27.45 Aligned_cols=37 Identities=19% Similarity=0.341 Sum_probs=18.9
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL 140 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl 140 (192)
+...|.+|...|.--..-.....||++|+.+|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3568999999996543333444699999999976543
No 146
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=69.72 E-value=8.7 Score=27.08 Aligned_cols=39 Identities=21% Similarity=0.212 Sum_probs=27.7
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 043554 29 EANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRL 67 (192)
Q Consensus 29 ~~~~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r~ 67 (192)
..++.+++-+++++++..+++++.+-.-+.+.++.+.+.
T Consensus 14 g~sW~~LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H 52 (102)
T PF15176_consen 14 GRSWPFLVGVVVTALVTSLLIALAAKCPVWYKYLASYRH 52 (102)
T ss_pred CcccHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccc
Confidence 445777888888888888888888876666555544443
No 147
>PHA02849 putative transmembrane protein; Provisional
Probab=69.70 E-value=16 Score=24.55 Aligned_cols=21 Identities=19% Similarity=0.482 Sum_probs=12.0
Q ss_pred CCCCCCcchhHHHHHHHHHHH
Q 043554 26 FVNEANFDTNMVIILAALLCA 46 (192)
Q Consensus 26 ~~~~~~~~~~~~iil~~ll~~ 46 (192)
-+++.+|+..++.++.++++.
T Consensus 6 ~~~d~~f~~g~v~vi~v~v~v 26 (82)
T PHA02849 6 HLNDIEFDAGAVTVILVFVLV 26 (82)
T ss_pred cccccccccchHHHHHHHHHH
Confidence 456677777766555444333
No 148
>PLN02248 cellulose synthase-like protein
Probab=68.85 E-value=8.5 Score=38.07 Aligned_cols=36 Identities=17% Similarity=0.390 Sum_probs=29.0
Q ss_pred CCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCC
Q 043554 126 KCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST 161 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~ 161 (192)
.|++..|.+|...-++....||-|+.+.-..+....
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTDLDDE 184 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccccccccc
Confidence 388899999999999988899999998854444433
No 149
>PF15102 TMEM154: TMEM154 protein family
Probab=67.31 E-value=1.4 Score=33.20 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=5.8
Q ss_pred hhHHHHHhC
Q 043554 134 RCIDTWLLS 142 (192)
Q Consensus 134 ~Ci~~Wl~~ 142 (192)
+=+++|+..
T Consensus 128 eeldkwm~s 136 (146)
T PF15102_consen 128 EELDKWMNS 136 (146)
T ss_pred HHHHhHHHh
Confidence 347788853
No 150
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=65.06 E-value=10 Score=32.33 Aligned_cols=53 Identities=25% Similarity=0.594 Sum_probs=37.3
Q ss_pred CCCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCC
Q 043554 106 TECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159 (192)
Q Consensus 106 ~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 159 (192)
..|+||.+.....+ ...-.+ |++..|..|+..-......||.||.+...+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~~ 303 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERNTKK 303 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccCccc
Confidence 68999999875444 233344 888888888777666778899999666544433
No 151
>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=65.02 E-value=4.9 Score=32.25 Aligned_cols=8 Identities=75% Similarity=0.870 Sum_probs=3.9
Q ss_pred cccccccC
Q 043554 3 RRLLETEL 10 (192)
Q Consensus 3 ~~~~~~~~ 10 (192)
||-|.++.
T Consensus 13 ~rs~~tPl 20 (221)
T PF08374_consen 13 RRSLETPL 20 (221)
T ss_pred HhhccCCC
Confidence 45555443
No 152
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=64.02 E-value=3.9 Score=38.84 Aligned_cols=50 Identities=12% Similarity=0.241 Sum_probs=34.5
Q ss_pred CCCCCCcccCCcCCCCc---eEEcCCCCCcccHhhHHHHHhC------CCCCcccCccC
Q 043554 104 PATECPICLGEFVDGEK---VRVLPKCNHGFHVRCIDTWLLS------HSSCPNCRHSL 153 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~---v~~l~~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l 153 (192)
+...|.+|.-++..++. +-.+..|+|.||-.||..|..+ +-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 45678888888887321 1222269999999999999953 22478886644
No 153
>PRK00523 hypothetical protein; Provisional
Probab=63.93 E-value=20 Score=23.67 Aligned_cols=26 Identities=12% Similarity=0.009 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGLNSIVRCA 60 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~ 60 (192)
.+||+++++.++..++.+++.-.++.
T Consensus 5 ~l~I~l~i~~li~G~~~Gffiark~~ 30 (72)
T PRK00523 5 GLALGLGIPLLIVGGIIGYFVSKKMF 30 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555554444555554444433
No 154
>PHA02657 hypothetical protein; Provisional
Probab=63.42 E-value=23 Score=24.19 Aligned_cols=35 Identities=11% Similarity=0.241 Sum_probs=23.6
Q ss_pred CCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 24 DSFVNEANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 24 ~~~~~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+|+-..+|.+.+++.+-++++.++++++++++..
T Consensus 16 ~~~~~~~~~~~imVitvfv~vI~il~flLLYLvkW 50 (95)
T PHA02657 16 NYYYMKINFESILVFTIFIFVVCILIYLLIYLVDW 50 (95)
T ss_pred ceEEEEecchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777888888777766666666666655444
No 155
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=63.27 E-value=6.9 Score=23.91 Aligned_cols=35 Identities=17% Similarity=0.374 Sum_probs=24.4
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL 140 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl 140 (192)
..|.+|-..|.....-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46889988877643323333699999999977654
No 156
>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=61.77 E-value=19 Score=22.57 Aligned_cols=44 Identities=27% Similarity=0.724 Sum_probs=31.1
Q ss_pred CCCcccCCcCCCC-ceEEcCCCC--CcccHhhHHHHHhCCCCCcccCccCcC
Q 043554 107 ECPICLGEFVDGE-KVRVLPKCN--HGFHVRCIDTWLLSHSSCPNCRHSLLN 155 (192)
Q Consensus 107 ~C~ICl~~~~~~~-~v~~l~~C~--H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 155 (192)
.|-.|-.++..+. ..++ |. ..||.+|.+.-| +..||.|--.++.
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 4666767776555 3343 65 579999999966 5689999776654
No 157
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=60.36 E-value=16 Score=24.54 Aligned_cols=52 Identities=19% Similarity=0.393 Sum_probs=20.9
Q ss_pred CCCCCCcccCCcCC---CCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554 104 PATECPICLGEFVD---GEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~---~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 155 (192)
+...|.||-+++-. ++...-...|+--.|+.|.+-=.+ .++.||-|+.....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 45689999988753 232232335777789999876554 46679999976643
No 158
>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=60.27 E-value=17 Score=22.22 Aligned_cols=30 Identities=17% Similarity=0.283 Sum_probs=16.0
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 29 EANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 29 ~~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+.+|+-.+-+-+.++..+++++++++++.
T Consensus 6 pF~YDy~tLrigGLi~A~vlfi~Gi~iils 35 (50)
T PF02038_consen 6 PFYYDYETLRIGGLIFAGVLFILGILIILS 35 (50)
T ss_dssp GGGGCHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred CCccchhHhhccchHHHHHHHHHHHHHHHc
Confidence 334555555555555555556666554443
No 159
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=60.22 E-value=29 Score=29.69 Aligned_cols=45 Identities=20% Similarity=0.406 Sum_probs=34.5
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCccc
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNC 149 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~C 149 (192)
+-..||+=-+.-.+.....++. |||+.-++-++.--++ ...||.|
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 4568998777766666667787 9999999999985543 2359999
No 160
>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=59.94 E-value=32 Score=22.92 Aligned_cols=18 Identities=11% Similarity=0.058 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 043554 46 ALICALGLNSIVRCALRC 63 (192)
Q Consensus 46 ~~i~~~~l~~~~~~~~~~ 63 (192)
+++++..+++++.|..++
T Consensus 13 f~ifVap~WL~lHY~sk~ 30 (75)
T PF06667_consen 13 FMIFVAPIWLILHYRSKW 30 (75)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 334444445555554443
No 161
>PHA03240 envelope glycoprotein M; Provisional
Probab=59.75 E-value=13 Score=29.96 Aligned_cols=16 Identities=19% Similarity=0.320 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICAL 51 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~ 51 (192)
+||+++++++++++++
T Consensus 214 ~WIiilIIiIiIIIL~ 229 (258)
T PHA03240 214 AWIFIAIIIIIVIILF 229 (258)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 5666655444433333
No 162
>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=59.65 E-value=26 Score=20.16 Aligned_cols=29 Identities=7% Similarity=0.070 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 043554 39 ILAALLCALICALGLNSIVRCALRCSHRL 67 (192)
Q Consensus 39 il~~ll~~~i~~~~l~~~~~~~~~~~~r~ 67 (192)
.+++++++++.+..+.+++.++.-+.++.
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 34555666665555555555555554443
No 163
>PRK14762 membrane protein; Provisional
Probab=59.65 E-value=24 Score=18.34 Aligned_cols=19 Identities=21% Similarity=0.378 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGL 53 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l 53 (192)
..|++++++++.++.+.+.
T Consensus 4 ~lw~i~iifligllvvtgv 22 (27)
T PRK14762 4 ILWAVLIIFLIGLLVVTGV 22 (27)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555444
No 164
>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=58.57 E-value=11 Score=20.17 Aligned_cols=29 Identities=17% Similarity=0.428 Sum_probs=10.6
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhH
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCI 136 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci 136 (192)
.|.+|...... +.......|+-.+|.+|+
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 57888877665 344444569999999985
No 165
>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 TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=58.34 E-value=34 Score=22.77 Aligned_cols=20 Identities=15% Similarity=0.064 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 043554 44 LCALICALGLNSIVRCALRC 63 (192)
Q Consensus 44 l~~~i~~~~l~~~~~~~~~~ 63 (192)
+++++++..+++++++..++
T Consensus 11 iif~ifVap~wl~lHY~~k~ 30 (75)
T TIGR02976 11 IIFVIFVAPLWLILHYRSKR 30 (75)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 33344445555566654443
No 167
>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=57.96 E-value=0.87 Score=29.98 Aligned_cols=40 Identities=25% Similarity=0.515 Sum_probs=20.9
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
..|+.|..++... =+|.+|..|-.. ++....||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHHH
Confidence 4699998775443 256666777655 345566999988763
No 168
>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=57.73 E-value=3.4 Score=34.79 Aligned_cols=14 Identities=21% Similarity=0.458 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHH
Q 043554 40 LAALLCALICALGL 53 (192)
Q Consensus 40 l~~ll~~~i~~~~l 53 (192)
.++++++++++.++
T Consensus 151 paVVI~~iLLIA~i 164 (290)
T PF05454_consen 151 PAVVIAAILLIAGI 164 (290)
T ss_dssp --------------
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 169
>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=57.39 E-value=6.5 Score=25.50 Aligned_cols=12 Identities=33% Similarity=1.041 Sum_probs=8.7
Q ss_pred cccHhhHHHHHh
Q 043554 130 GFHVRCIDTWLL 141 (192)
Q Consensus 130 ~FH~~Ci~~Wl~ 141 (192)
-||..|+..|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 170
>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=57.03 E-value=14 Score=31.90 Aligned_cols=15 Identities=13% Similarity=0.180 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHH
Q 043554 46 ALICALGLNSIVRCA 60 (192)
Q Consensus 46 ~~i~~~~l~~~~~~~ 60 (192)
+.++.+++++++|+.
T Consensus 322 IVLIMvIIYLILRYR 336 (353)
T TIGR01477 322 IVLIMVIIYLILRYR 336 (353)
T ss_pred HHHHHHHHHHHHHhh
Confidence 334445555666643
No 171
>PTZ00046 rifin; Provisional
Probab=57.00 E-value=12 Score=32.34 Aligned_cols=16 Identities=13% Similarity=0.169 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 043554 45 CALICALGLNSIVRCA 60 (192)
Q Consensus 45 ~~~i~~~~l~~~~~~~ 60 (192)
++.++.+++++++|+.
T Consensus 326 VIVLIMvIIYLILRYR 341 (358)
T PTZ00046 326 VIVLIMVIIYLILRYR 341 (358)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3334445555666643
No 172
>PLN02189 cellulose synthase
Probab=56.98 E-value=19 Score=35.43 Aligned_cols=51 Identities=22% Similarity=0.471 Sum_probs=35.5
Q ss_pred CCCCCCcccCCcC---CCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCc
Q 043554 104 PATECPICLGEFV---DGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
....|.||-+++. +++..+-...|+--.|..|.+-=.+ .++.||.|+...-
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3558999999976 3333344445777899999954333 3567999988765
No 173
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=56.69 E-value=16 Score=23.10 Aligned_cols=19 Identities=32% Similarity=0.427 Sum_probs=8.0
Q ss_pred cchhHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICA 50 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~ 50 (192)
....+++++++++++++..
T Consensus 18 ~pl~l~il~~f~~G~llg~ 36 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGW 36 (68)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 3333444444444444333
No 174
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=56.42 E-value=18 Score=24.56 Aligned_cols=20 Identities=40% Similarity=0.526 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 043554 38 IILAALLCALICALGLNSIV 57 (192)
Q Consensus 38 iil~~ll~~~i~~~~l~~~~ 57 (192)
+.++++++++++.++++.++
T Consensus 7 ~~iialiv~~iiaIvvW~iv 26 (81)
T PF00558_consen 7 LAIIALIVALIIAIVVWTIV 26 (81)
T ss_dssp -HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444455444443
No 175
>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=55.60 E-value=15 Score=25.52 Aligned_cols=31 Identities=13% Similarity=-0.015 Sum_probs=16.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
+...+|-.|+.--+++++++++.++..|+.|
T Consensus 37 ~~~ayWpyLA~GGG~iLilIii~Lv~CC~~K 67 (98)
T PF07204_consen 37 SFVAYWPYLAAGGGLILILIIIALVCCCRAK 67 (98)
T ss_pred hHHhhhHHhhccchhhhHHHHHHHHHHhhhh
Confidence 3344666666555555555555555555444
No 176
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=55.49 E-value=9.6 Score=32.59 Aligned_cols=45 Identities=27% Similarity=0.574 Sum_probs=31.7
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 150 (192)
...|-.|.++.......+-- .|+|.||.+|=.--=..=..||.|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcC
Confidence 44599998777766555444 4999999999443223445799996
No 177
>PHA02650 hypothetical protein; Provisional
Probab=54.75 E-value=47 Score=22.33 Aligned_cols=11 Identities=27% Similarity=0.096 Sum_probs=4.0
Q ss_pred HHHHHHHHHHH
Q 043554 48 ICALGLNSIVR 58 (192)
Q Consensus 48 i~~~~l~~~~~ 58 (192)
++++++++.++
T Consensus 61 i~~l~~flYLK 71 (81)
T PHA02650 61 IVALFSFFVFK 71 (81)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 178
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=54.49 E-value=7.8 Score=29.33 Aligned_cols=26 Identities=31% Similarity=0.731 Sum_probs=17.3
Q ss_pred CCCcccHhhHHHHHhC-----------CCCCcccCccCcCCC
Q 043554 127 CNHGFHVRCIDTWLLS-----------HSSCPNCRHSLLNNN 157 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl~~-----------~~~CP~CR~~l~~~~ 157 (192)
++|.| +.||.. --+||+|-..-+.+.
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~K~ 46 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEVSKA 46 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeEeee
Confidence 57887 678853 136999977555443
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=54.49 E-value=27 Score=26.39 Aligned_cols=9 Identities=44% Similarity=0.622 Sum_probs=3.5
Q ss_pred HHHHHHHHH
Q 043554 36 MVIILAALL 44 (192)
Q Consensus 36 ~~iil~~ll 44 (192)
+.+||+.++
T Consensus 31 m~tILiaIv 39 (189)
T PF05568_consen 31 MYTILIAIV 39 (189)
T ss_pred HHHHHHHHH
Confidence 444443333
No 180
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=53.97 E-value=4.3 Score=25.23 Aligned_cols=21 Identities=33% Similarity=0.740 Sum_probs=15.7
Q ss_pred CceEEcCCCCCcccHhhHHHH
Q 043554 119 EKVRVLPKCNHGFHVRCIDTW 139 (192)
Q Consensus 119 ~~v~~l~~C~H~FH~~Ci~~W 139 (192)
+.....+.|+|.||..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344556459999999998887
No 181
>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=53.84 E-value=16 Score=25.98 Aligned_cols=45 Identities=22% Similarity=0.518 Sum_probs=27.9
Q ss_pred CCCCCcccCCcCCCCceEEc------CCC---CCcccHhhHHHHHhC---------CCCCcccCc
Q 043554 105 ATECPICLGEFVDGEKVRVL------PKC---NHGFHVRCIDTWLLS---------HSSCPNCRH 151 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l------~~C---~H~FH~~Ci~~Wl~~---------~~~CP~CR~ 151 (192)
...|-.|...-.+. .... +.| .=.||..||..++.. +-.||.||.
T Consensus 7 g~~CHqCrqKt~~~--~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 7 GKTCHQCRQKTLDF--KTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCchhhcCCCCCC--ceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 45677777643322 1121 246 567999999888742 224999976
No 182
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.52 E-value=9.9 Score=31.28 Aligned_cols=34 Identities=24% Similarity=0.339 Sum_probs=28.3
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL 141 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~ 141 (192)
+-+.|+.||..+.++ .+++ =||+|+.+||.+++.
T Consensus 42 ~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 456899999999887 5566 799999999988873
No 183
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=53.13 E-value=48 Score=23.88 Aligned_cols=18 Identities=22% Similarity=0.473 Sum_probs=8.9
Q ss_pred HHHhHHhhcCCCHHHHhc
Q 043554 74 QAAARLAVTGLKKRDLRR 91 (192)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~ 91 (192)
+...++.+.+-+-+.+++
T Consensus 94 dvSrRL~aEgKdIdeLKK 111 (128)
T PF15145_consen 94 DVSRRLTAEGKDIDELKK 111 (128)
T ss_pred HHHHHHHhccCCHHHHHH
Confidence 344455555555544444
No 184
>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=52.78 E-value=4.6 Score=36.03 Aligned_cols=27 Identities=7% Similarity=0.076 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
+...+.+++++++++++++++++.+++
T Consensus 351 ~~~~l~vVlgvavlivVv~viv~vc~~ 377 (439)
T PF02480_consen 351 GAALLGVVLGVAVLIVVVGVIVWVCLR 377 (439)
T ss_dssp ---------------------------
T ss_pred ccchHHHHHHHHHHHHHHHHHhheeee
Confidence 333344444433333333333333333
No 185
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=52.33 E-value=20 Score=30.62 Aligned_cols=51 Identities=27% Similarity=0.584 Sum_probs=34.4
Q ss_pred CCCCCCcccCCcCC---------------C-CceEEcCCCCCcccHhhHHHHHhC---------CCCCcccCccCcC
Q 043554 104 PATECPICLGEFVD---------------G-EKVRVLPKCNHGFHVRCIDTWLLS---------HSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~---------------~-~~v~~l~~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~l~~ 155 (192)
.+.+|++|+..=.- + -.-...| |||+--++-..-|-+. +..||.|-..+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 36789999875320 0 0113456 9999999999999853 2359999776643
No 186
>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=52.30 E-value=31 Score=27.08 Aligned_cols=18 Identities=28% Similarity=0.372 Sum_probs=9.9
Q ss_pred ccHhhHHHHH--hCCCCCcc
Q 043554 131 FHVRCIDTWL--LSHSSCPN 148 (192)
Q Consensus 131 FH~~Ci~~Wl--~~~~~CP~ 148 (192)
...+-+..|| .++..+|.
T Consensus 124 ~~G~~~R~~L~~Lr~~~~p~ 143 (186)
T PF07406_consen 124 LPGENFRSYLLDLRNSSTPL 143 (186)
T ss_pred cccccHHHHHHHHHhccCCc
Confidence 4456677888 34444443
No 187
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.74 E-value=9.6 Score=31.99 Aligned_cols=39 Identities=21% Similarity=0.367 Sum_probs=28.8
Q ss_pred CCCCCcccCCcCCCCceEEcC-CCCCcccHhhHHHHHhCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLP-KCNHGFHVRCIDTWLLSHS 144 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci~~Wl~~~~ 144 (192)
-..|.+|.|.+++..-| +.| -=.|.||.-|-++-+|++.
T Consensus 268 pLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhhc
Confidence 46899999999886544 322 1259999999999887543
No 188
>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=51.69 E-value=15 Score=23.70 Aligned_cols=15 Identities=27% Similarity=0.392 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICA 50 (192)
Q Consensus 36 ~~iil~~ll~~~i~~ 50 (192)
||+++++++.+++++
T Consensus 1 MWIiiSIvLai~lLI 15 (66)
T PF07438_consen 1 MWIIISIVLAIALLI 15 (66)
T ss_pred ChhhHHHHHHHHHHH
Confidence 577777665554433
No 189
>PRK05978 hypothetical protein; Provisional
Probab=51.16 E-value=13 Score=28.20 Aligned_cols=28 Identities=14% Similarity=0.424 Sum_probs=20.9
Q ss_pred CCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554 128 NHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 128 ~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 160 (192)
|+.|+ .+++-+..||.|-.++...+...
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCccc
Confidence 47886 67888999999988885554433
No 190
>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=50.43 E-value=36 Score=29.92 Aligned_cols=27 Identities=30% Similarity=0.349 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 36 MVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
+++.+++-+++++++++++.++.|++|
T Consensus 285 ~~vtl~iPl~i~llL~llLs~Imc~rR 311 (386)
T PF05510_consen 285 FLVTLAIPLIIALLLLLLLSYIMCCRR 311 (386)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHheech
Confidence 444444444444444444444444443
No 191
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.14 E-value=24 Score=25.57 Aligned_cols=18 Identities=28% Similarity=0.451 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICALGL 53 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l 53 (192)
+.++++++++++++++++
T Consensus 94 m~~il~~v~~i~l~iiii 111 (116)
T KOG0860|consen 94 MRIILGLVIIILLVVIII 111 (116)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444433333
No 192
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.13 E-value=72 Score=20.99 Aligned_cols=10 Identities=10% Similarity=-0.100 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 043554 49 CALGLNSIVR 58 (192)
Q Consensus 49 ~~~~l~~~~~ 58 (192)
++.++++..+
T Consensus 18 ~~~G~fiark 27 (71)
T COG3763 18 LIGGFFIARK 27 (71)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 193
>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=49.87 E-value=82 Score=21.62 Aligned_cols=39 Identities=26% Similarity=0.556 Sum_probs=29.5
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 155 (192)
+-..|.-|...+.--|. .| |-.|+..+..|..|++++..
T Consensus 32 ~rS~C~~C~~~L~~~~l---IP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDL---IP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCccccc---ch----------HHHHHHhCCCCcccCCCCCh
Confidence 34579988877766543 45 77899999999999998753
No 194
>PLN02436 cellulose synthase A
Probab=49.67 E-value=30 Score=34.30 Aligned_cols=51 Identities=24% Similarity=0.523 Sum_probs=35.3
Q ss_pred CCCCCCcccCCcC---CCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCc
Q 043554 104 PATECPICLGEFV---DGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
....|.||-+++. +++...-...|+--.|..|.+-=.+ .++.||.|+...-
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3458999999974 4444444445777799999954333 3567999988765
No 195
>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=48.91 E-value=52 Score=22.65 Aligned_cols=26 Identities=15% Similarity=0.023 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 37 VIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 37 ~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
.+-+.++++..++++++++.+.|+++
T Consensus 32 ~Lgm~~lvI~~iFil~VilwfvCC~k 57 (94)
T PF05393_consen 32 NLGMWFLVICGIFILLVILWFVCCKK 57 (94)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444434444444444444
No 196
>KOG1608 consensus Protein transporter of the TRAM (translocating chain-associating membrane) superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.88 E-value=56 Score=27.80 Aligned_cols=46 Identities=17% Similarity=0.144 Sum_probs=31.6
Q ss_pred CCCCCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 21 RTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 21 ~~~~~~~~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
+++-.+.+..+|+....-+.+.+.+..+-.+.++.++..++|+.+.
T Consensus 280 en~~~D~~~GNfN~l~~rl~vL~~vc~~Qa~l~w~fI~~qlrrwrE 325 (374)
T KOG1608|consen 280 ENQFVDISTGNFNTLAIRLAVLLSVCALQAFLMWSFITFQLRRWRE 325 (374)
T ss_pred cccCCCcccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334456677788888877777777777777777777776665443
No 197
>PF15050 SCIMP: SCIMP protein
Probab=48.28 E-value=29 Score=25.29 Aligned_cols=9 Identities=11% Similarity=0.239 Sum_probs=4.4
Q ss_pred cchhHHHHH
Q 043554 32 FDTNMVIIL 40 (192)
Q Consensus 32 ~~~~~~iil 40 (192)
|.++..+.|
T Consensus 8 FWiiLAVaI 16 (133)
T PF15050_consen 8 FWIILAVAI 16 (133)
T ss_pred hHHHHHHHH
Confidence 555554443
No 198
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=47.98 E-value=17 Score=25.80 Aligned_cols=34 Identities=29% Similarity=0.586 Sum_probs=17.2
Q ss_pred CCCCcccHhhHHHHHhCCCCCccc--CccCcCCCCCCCCC
Q 043554 126 KCNHGFHVRCIDTWLLSHSSCPNC--RHSLLNNNERSTAS 163 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~~~~CP~C--R~~l~~~~~~~~~~ 163 (192)
+|||+|-.- -..-+ +-||.| +..+.-..+...+.
T Consensus 7 rCG~vf~~g-~~~il---~GCp~CG~nkF~yv~~e~rpa~ 42 (112)
T COG3364 7 RCGEVFDDG-SEEIL---SGCPKCGCNKFLYVPEEKRPAV 42 (112)
T ss_pred ccccccccc-cHHHH---ccCccccchheEecccccccch
Confidence 499998654 11111 249988 33343444443333
No 199
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=47.90 E-value=16 Score=29.16 Aligned_cols=6 Identities=33% Similarity=0.584 Sum_probs=2.3
Q ss_pred HHHHHh
Q 043554 57 VRCALR 62 (192)
Q Consensus 57 ~~~~~~ 62 (192)
+.++.|
T Consensus 122 Y~~~~R 127 (202)
T PF06365_consen 122 YCCHQR 127 (202)
T ss_pred HHhhhh
Confidence 333333
No 200
>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=47.34 E-value=19 Score=28.36 Aligned_cols=31 Identities=29% Similarity=0.462 Sum_probs=12.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
+++.+++++++++++++++|.=--+.|+..+
T Consensus 11 v~vvlv~a~g~l~~vllfIfaKRQI~Rf~lr 41 (186)
T PF07406_consen 11 VNVVLVIAYGSLVFVLLFIFAKRQIMRFALR 41 (186)
T ss_pred eeeehhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444444444444444333333343333
No 201
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=45.70 E-value=63 Score=31.05 Aligned_cols=13 Identities=15% Similarity=0.117 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 043554 46 ALICALGLNSIVR 58 (192)
Q Consensus 46 ~~i~~~~l~~~~~ 58 (192)
+++++++++.++.
T Consensus 282 ~~livl~lL~vLl 294 (807)
T PF10577_consen 282 TALIVLILLCVLL 294 (807)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444443
No 202
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=45.02 E-value=18 Score=34.44 Aligned_cols=47 Identities=23% Similarity=0.485 Sum_probs=30.8
Q ss_pred CCCCCCCcccCCcCC---------CCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 103 IPATECPICLGEFVD---------GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~---------~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
..+..|+-|...|.. ....-+.+.|+|--|..=|.. .+.||+|...+
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 345678878777641 112335667999988776544 46799997754
No 203
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=44.99 E-value=35 Score=23.97 Aligned_cols=23 Identities=22% Similarity=0.283 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
++++++++++.++++.+++.+++
T Consensus 16 l~~~~~~l~~~~~~l~ll~~ll~ 38 (108)
T PF07219_consen 16 LWVALILLLLLFVVLYLLLRLLR 38 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333443
No 204
>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=44.99 E-value=15 Score=26.37 Aligned_cols=47 Identities=21% Similarity=0.345 Sum_probs=28.4
Q ss_pred CCCCCCCcccCCcCCC--CceEEcCCCCCcccHhhHHHHHhCCC--CCcccCc
Q 043554 103 IPATECPICLGEFVDG--EKVRVLPKCNHGFHVRCIDTWLLSHS--SCPNCRH 151 (192)
Q Consensus 103 ~~~~~C~ICl~~~~~~--~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~CR~ 151 (192)
.++..|.+|...|.-- .. .....|+|.+|..|-.. ..+.. .|-+|..
T Consensus 52 ~~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 52 YGERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp HCCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred cCCcchhhhCCcccccCCCC-CcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 3567999999887532 23 44446999999999654 11122 2777743
No 205
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=44.75 E-value=39 Score=23.72 Aligned_cols=24 Identities=33% Similarity=0.300 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
+++|.|+.+++...++.+|+.++|
T Consensus 20 IfLItLasVvvavGl~aGLfFcvR 43 (106)
T PF14654_consen 20 IFLITLASVVVAVGLFAGLFFCVR 43 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455555555555555555555554
No 206
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.67 E-value=7.2 Score=34.71 Aligned_cols=38 Identities=21% Similarity=0.428 Sum_probs=27.6
Q ss_pred CCCCCcccCCcCCCCceE----EcCCCCCcccHhhHHHHHhC
Q 043554 105 ATECPICLGEFVDGEKVR----VLPKCNHGFHVRCIDTWLLS 142 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~----~l~~C~H~FH~~Ci~~Wl~~ 142 (192)
-..|+.|...++.+.... ....|+|.||+.|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 445999999988776322 11139999999999988754
No 207
>PF15179 Myc_target_1: Myc target protein 1
Probab=44.63 E-value=35 Score=26.78 Aligned_cols=9 Identities=11% Similarity=0.087 Sum_probs=3.6
Q ss_pred HHHHHHHHh
Q 043554 54 NSIVRCALR 62 (192)
Q Consensus 54 ~~~~~~~~~ 62 (192)
+.++.|..|
T Consensus 40 ~~LltwlSR 48 (197)
T PF15179_consen 40 WALLTWLSR 48 (197)
T ss_pred HHHHHHHHh
Confidence 334444443
No 208
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=43.86 E-value=14 Score=20.28 Aligned_cols=19 Identities=21% Similarity=0.476 Sum_probs=11.2
Q ss_pred CCCcccHhhHHHHHhCCCCCcccCc
Q 043554 127 CNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666654322 3347999965
No 209
>PRK09458 pspB phage shock protein B; Provisional
Probab=43.83 E-value=50 Score=22.04 Aligned_cols=18 Identities=0% Similarity=-0.165 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043554 44 LCALICALGLNSIVRCAL 61 (192)
Q Consensus 44 l~~~i~~~~l~~~~~~~~ 61 (192)
+++++++.-+++++.|..
T Consensus 11 iiF~ifVaPiWL~LHY~s 28 (75)
T PRK09458 11 TIFVLFVAPIWLWLHYRS 28 (75)
T ss_pred HHHHHHHHHHHHHHhhcc
Confidence 333444444555555543
No 210
>PF03554 Herpes_UL73: UL73 viral envelope glycoprotein ; InterPro: IPR005211 This entry represents a conserved region found in a number of viral proteins: BLRF1, U46, 53, and UL73, collectively known as glycoprotein N. These UL73-like envelope glycoproteins, which associate in a high molecular mass complex with their counterpart protein gM, induce neutralizing antibody responses in the host. These glycoproteins are highly polymorphic, particularly in the N-terminal region [].; GO: 0019031 viral envelope
Probab=43.57 E-value=1e+02 Score=20.90 Aligned_cols=24 Identities=21% Similarity=0.256 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 38 IILAALLCALICALGLNSIVRCAL 61 (192)
Q Consensus 38 iil~~ll~~~i~~~~l~~~~~~~~ 61 (192)
|+..+.++++++++++++...|+.
T Consensus 51 IW~iiN~~il~~A~~vyLry~Cf~ 74 (82)
T PF03554_consen 51 IWAIINVVILLCAFCVYLRYLCFQ 74 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333444555555544444443
No 211
>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=43.39 E-value=22 Score=29.91 Aligned_cols=8 Identities=38% Similarity=0.468 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 043554 38 IILAALLC 45 (192)
Q Consensus 38 iil~~ll~ 45 (192)
|++++.|.
T Consensus 275 IaVG~~La 282 (306)
T PF01299_consen 275 IAVGAALA 282 (306)
T ss_pred HHHHHHHH
Confidence 33443333
No 212
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=43.26 E-value=40 Score=22.99 Aligned_cols=22 Identities=18% Similarity=0.090 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 043554 38 IILAALLCALICALGLNSIVRC 59 (192)
Q Consensus 38 iil~~ll~~~i~~~~l~~~~~~ 59 (192)
|+|++++.+..+++++++++.+
T Consensus 38 IVI~FWv~LA~FV~~lF~iL~~ 59 (90)
T PF15183_consen 38 IVIAFWVSLAAFVVFLFLILLY 59 (90)
T ss_pred eehhHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444443
No 213
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=42.26 E-value=59 Score=20.26 Aligned_cols=6 Identities=17% Similarity=0.263 Sum_probs=2.3
Q ss_pred HHHHHH
Q 043554 36 MVIILA 41 (192)
Q Consensus 36 ~~iil~ 41 (192)
.|+|++
T Consensus 5 ~wlIIv 10 (55)
T PF11446_consen 5 PWLIIV 10 (55)
T ss_pred hhHHHH
Confidence 333333
No 214
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=41.78 E-value=21 Score=21.85 Aligned_cols=23 Identities=30% Similarity=0.735 Sum_probs=13.1
Q ss_pred CCCCcccHhhHHHHHhCCCCCccc
Q 043554 126 KCNHGFHVRCIDTWLLSHSSCPNC 149 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~~~~CP~C 149 (192)
.|||.|-..=-.+ ......||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-ccCCCCCCCC
Confidence 4777765432222 2455679988
No 215
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=41.51 E-value=11 Score=26.40 Aligned_cols=27 Identities=30% Similarity=0.234 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGLNSIVRCAL 61 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~ 61 (192)
.+.+++++++.++.++++++.+..+..
T Consensus 60 ~~~iili~lls~v~IlVily~IyYFVI 86 (101)
T PF06024_consen 60 NGNIILISLLSFVCILVILYAIYYFVI 86 (101)
T ss_pred cccchHHHHHHHHHHHHHHhhheEEEE
Confidence 456666666666555555555444433
No 216
>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=41.45 E-value=7 Score=23.99 Aligned_cols=12 Identities=33% Similarity=0.819 Sum_probs=5.8
Q ss_pred CCcccCccCcCC
Q 043554 145 SCPNCRHSLLNN 156 (192)
Q Consensus 145 ~CP~CR~~l~~~ 156 (192)
.||+|.+++.+.
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 799998877543
No 217
>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=41.41 E-value=46 Score=28.18 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=8.6
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGL 53 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l 53 (192)
+...+++.++.++++++++
T Consensus 254 ~~t~I~aSiiaIliIVLIM 272 (299)
T PF02009_consen 254 LTTAIIASIIAILIIVLIM 272 (299)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 218
>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=41.18 E-value=15 Score=34.29 Aligned_cols=15 Identities=33% Similarity=0.474 Sum_probs=8.0
Q ss_pred hHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALIC 49 (192)
Q Consensus 35 ~~~iil~~ll~~~i~ 49 (192)
+.|||+++++-++++
T Consensus 268 NlWII~gVlvPv~vV 282 (684)
T PF12877_consen 268 NLWIIAGVLVPVLVV 282 (684)
T ss_pred CeEEEehHhHHHHHH
Confidence 566666665444433
No 219
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=40.88 E-value=7 Score=32.85 Aligned_cols=44 Identities=25% Similarity=0.589 Sum_probs=31.3
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNE 158 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~ 158 (192)
+..|+-|.+-+.....|+.. =.|+||-.|+. |-+|+..+..+++
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TGdE 135 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATGDE 135 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccCCe
Confidence 56799999888877777664 57999999964 5556555544443
No 220
>PF15106 TMEM156: TMEM156 protein family
Probab=40.87 E-value=46 Score=26.72 Aligned_cols=22 Identities=18% Similarity=0.244 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICALGLNSIV 57 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~ 57 (192)
.|.+|+++|++++++++++-++
T Consensus 177 TWYvLVllVfiflii~iI~KIl 198 (226)
T PF15106_consen 177 TWYVLVLLVFIFLIILIIYKIL 198 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555554444
No 221
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=39.89 E-value=99 Score=28.13 Aligned_cols=13 Identities=8% Similarity=0.148 Sum_probs=8.7
Q ss_pred cHhhHHHHHhCCC
Q 043554 132 HVRCIDTWLLSHS 144 (192)
Q Consensus 132 H~~Ci~~Wl~~~~ 144 (192)
++-++..||+.+-
T Consensus 291 ~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 291 PKGSLCDYLKANT 303 (534)
T ss_pred cCCcHHHHHHhcc
Confidence 3567888887543
No 222
>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=39.15 E-value=27 Score=22.19 Aligned_cols=34 Identities=18% Similarity=0.365 Sum_probs=23.6
Q ss_pred CCCCCcccCCcCC--CCceEEcCCCCCcccHhhHHH
Q 043554 105 ATECPICLGEFVD--GEKVRVLPKCNHGFHVRCIDT 138 (192)
Q Consensus 105 ~~~C~ICl~~~~~--~~~v~~l~~C~H~FH~~Ci~~ 138 (192)
-..|+.|-...+. .......+.||+.+|.+-...
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 4579999888776 445566667888887765433
No 223
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=38.33 E-value=31 Score=25.73 Aligned_cols=15 Identities=27% Similarity=0.813 Sum_probs=11.6
Q ss_pred CCCcccCccCcCCCC
Q 043554 144 SSCPNCRHSLLNNNE 158 (192)
Q Consensus 144 ~~CP~CR~~l~~~~~ 158 (192)
..||.|...+...+.
T Consensus 124 f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 124 FTCPRCGEELEEDDN 138 (147)
T ss_pred EECCCCCCEEEEcCc
Confidence 579999998866544
No 224
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=37.77 E-value=17 Score=23.04 Aligned_cols=15 Identities=20% Similarity=0.815 Sum_probs=11.0
Q ss_pred CCCCcccCccCcCCC
Q 043554 143 HSSCPNCRHSLLNNN 157 (192)
Q Consensus 143 ~~~CP~CR~~l~~~~ 157 (192)
...||+|..+...+.
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 457999988775543
No 225
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.58 E-value=9.6 Score=32.19 Aligned_cols=49 Identities=24% Similarity=0.622 Sum_probs=37.9
Q ss_pred CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
......|-||...+...+... +|.|.|+..|...|....+.||.|+...
T Consensus 102 ~~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred cCCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCc
Confidence 335667889888776654332 5999999999999999888999997643
No 226
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=37.57 E-value=18 Score=34.12 Aligned_cols=35 Identities=29% Similarity=0.597 Sum_probs=27.1
Q ss_pred ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 120 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 120 ~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
.+...|.|.-+||.+=++.-..++..||.||.+-.
T Consensus 1043 ~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1043 SITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hhhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 34455678888888888777778899999998654
No 227
>PLN02195 cellulose synthase A
Probab=37.48 E-value=54 Score=32.27 Aligned_cols=52 Identities=17% Similarity=0.300 Sum_probs=35.4
Q ss_pred CCCCCCcccCCcCCC---CceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554 104 PATECPICLGEFVDG---EKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN 155 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~---~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 155 (192)
....|.||-+++... +...-...|+--.|..|.+-=.+ .++.||.|+...-+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 345899999877533 33333445888899999844222 35679999887763
No 228
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=37.46 E-value=84 Score=23.85 Aligned_cols=12 Identities=8% Similarity=0.160 Sum_probs=5.0
Q ss_pred chhHHHHHHHHH
Q 043554 33 DTNMVIILAALL 44 (192)
Q Consensus 33 ~~~~~iil~~ll 44 (192)
+..+|.++.+++
T Consensus 9 ~~~~w~~i~f~i 20 (167)
T PRK14475 9 NPEFWVGAGLLI 20 (167)
T ss_pred chHHHHHHHHHH
Confidence 334554444333
No 229
>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=37.39 E-value=36 Score=18.12 Aligned_cols=28 Identities=25% Similarity=0.500 Sum_probs=18.1
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhh
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRC 135 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~C 135 (192)
.|.+|..+..... ......|+-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 5888877665543 433344777788776
No 230
>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=36.80 E-value=11 Score=32.94 Aligned_cols=49 Identities=24% Similarity=0.511 Sum_probs=0.0
Q ss_pred CCCCCcccCCcCC----------------CCceEEcCCCCCcccHhhHHHHHhC---------CCCCcccCccCc
Q 043554 105 ATECPICLGEFVD----------------GEKVRVLPKCNHGFHVRCIDTWLLS---------HSSCPNCRHSLL 154 (192)
Q Consensus 105 ~~~C~ICl~~~~~----------------~~~v~~l~~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~l~ 154 (192)
..+|++|+..-.- .-.....| |||+-=.+...-|-+. +..||.|-..|.
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 6789999965320 01223567 9999999999999852 235999977774
No 231
>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=36.66 E-value=4.4 Score=33.90 Aligned_cols=47 Identities=21% Similarity=0.360 Sum_probs=21.2
Q ss_pred CCCCCCcccCCcCCCCceEEcC--CCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 104 PATECPICLGEFVDGEKVRVLP--KCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~--~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
....|+||-..-.-. .++.-. +=.|.+|.-|-..|--.+..||.|-.
T Consensus 171 ~~g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 346899997663322 111111 12467888999999777788999954
No 232
>PF15179 Myc_target_1: Myc target protein 1
Probab=36.59 E-value=73 Score=25.04 Aligned_cols=28 Identities=21% Similarity=0.095 Sum_probs=14.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRC 59 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~ 59 (192)
+.+.+-++|+++++.++.+++.++-.|.
T Consensus 23 laF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 23 LAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333445555555555555555544443
No 233
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=36.48 E-value=43 Score=22.81 Aligned_cols=19 Identities=26% Similarity=0.223 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALICALGL 53 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l 53 (192)
.+|+.|+++++++++++.+
T Consensus 41 ~FWv~LA~FV~~lF~iL~~ 59 (90)
T PF15183_consen 41 AFWVSLAAFVVFLFLILLY 59 (90)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 3777777666555444443
No 234
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.23 E-value=19 Score=27.52 Aligned_cols=45 Identities=27% Similarity=0.540 Sum_probs=30.0
Q ss_pred CcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554 109 PICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156 (192)
Q Consensus 109 ~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 156 (192)
.||+.--...+.+..-|.=.+.||.+|-..-+. .||.|..++...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 366655554444444443457899999888654 599998888554
No 235
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=36.13 E-value=27 Score=28.57 Aligned_cols=25 Identities=32% Similarity=0.686 Sum_probs=18.8
Q ss_pred CCCCcccCCcCCCCceEEcCCCCCcc
Q 043554 106 TECPICLGEFVDGEKVRVLPKCNHGF 131 (192)
Q Consensus 106 ~~C~ICl~~~~~~~~v~~l~~C~H~F 131 (192)
..||+|.+.+...+.--..+ .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999998666555555 67888
No 236
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.09 E-value=18 Score=25.04 Aligned_cols=12 Identities=33% Similarity=1.052 Sum_probs=10.8
Q ss_pred cccHhhHHHHHh
Q 043554 130 GFHVRCIDTWLL 141 (192)
Q Consensus 130 ~FH~~Ci~~Wl~ 141 (192)
-||..|+..|++
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999996
No 237
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=35.51 E-value=51 Score=24.48 Aligned_cols=7 Identities=29% Similarity=0.420 Sum_probs=3.1
Q ss_pred hHHHHHH
Q 043554 35 NMVIILA 41 (192)
Q Consensus 35 ~~~iil~ 41 (192)
.+|++++
T Consensus 22 GWwll~~ 28 (146)
T PF14316_consen 22 GWWLLLA 28 (146)
T ss_pred HHHHHHH
Confidence 3444444
No 238
>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=35.38 E-value=73 Score=23.94 Aligned_cols=14 Identities=21% Similarity=0.299 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHH
Q 043554 45 CALICALGLNSIVR 58 (192)
Q Consensus 45 ~~~i~~~~l~~~~~ 58 (192)
++++++++++.++|
T Consensus 128 ~ll~i~~giy~~~r 141 (145)
T PF10661_consen 128 ILLAICGGIYVVLR 141 (145)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444455555554
No 239
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=35.17 E-value=65 Score=32.11 Aligned_cols=51 Identities=24% Similarity=0.458 Sum_probs=34.3
Q ss_pred CCCCCCcccCCcC---CCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCc
Q 043554 104 PATECPICLGEFV---DGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
....|.||-+++. +++...-...|+--.|..|.+-=.+ .++.||.|+...-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3458999999975 3333333335677799999843222 3667999988664
No 240
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=34.52 E-value=73 Score=23.86 Aligned_cols=18 Identities=11% Similarity=0.244 Sum_probs=8.9
Q ss_pred cchhHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALIC 49 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~ 49 (192)
|+.++|.++.++++++++
T Consensus 1 ~~~~~w~~i~f~i~l~~l 18 (159)
T PRK09173 1 MDATFWAFVGLVLFLALV 18 (159)
T ss_pred CCchHHHHHHHHHHHHHH
Confidence 344566555544444333
No 241
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=34.37 E-value=33 Score=23.93 Aligned_cols=31 Identities=26% Similarity=0.604 Sum_probs=21.1
Q ss_pred CCCCCcccCCcCCCCceEEcC--CCCCcccHhhHHH
Q 043554 105 ATECPICLGEFVDGEKVRVLP--KCNHGFHVRCIDT 138 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~--~C~H~FH~~Ci~~ 138 (192)
...|.||... .+. ..... +|...||..|...
T Consensus 55 ~~~C~iC~~~--~G~-~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGA-CIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--Cce-eEEcCCCCCCcCCCHHHHHH
Confidence 5689999877 221 22322 3888999999765
No 242
>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=34.28 E-value=36 Score=30.82 Aligned_cols=43 Identities=28% Similarity=0.524 Sum_probs=24.6
Q ss_pred CCCCCCcccCCcCCCCceEEcCCCC-CcccHhhHHHHHhCCCCCcccCccCcCCCCC
Q 043554 104 PATECPICLGEFVDGEKVRVLPKCN-HGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l~~C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 159 (192)
+-.-|+-||+++...+.-..-..|. +-| .||.|-..|......
T Consensus 25 ~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf-------------~CP~C~~~L~~~~~~ 68 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSEARSEKNRCSRNCF-------------DCPICFSPLSVRASD 68 (483)
T ss_pred ceeECccccccCChhhheeccceeccccc-------------cCCCCCCcceeEecc
Confidence 3557888888886654211111243 333 599998877544333
No 243
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=34.24 E-value=1.1e+02 Score=19.68 Aligned_cols=11 Identities=55% Similarity=0.727 Sum_probs=4.4
Q ss_pred HHHHHHHHHHH
Q 043554 38 IILAALLCALI 48 (192)
Q Consensus 38 iil~~ll~~~i 48 (192)
+++++++++++
T Consensus 3 iilali~G~~~ 13 (64)
T PF03672_consen 3 IILALIVGAVI 13 (64)
T ss_pred HHHHHHHHHHH
Confidence 34444444333
No 244
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=33.92 E-value=28 Score=24.57 Aligned_cols=32 Identities=19% Similarity=0.382 Sum_probs=26.7
Q ss_pred CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL 140 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl 140 (192)
.|.||-.++..++....+. +-..|.+|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHH
Confidence 6999999999998887775 3789999997754
No 245
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=33.88 E-value=6.2 Score=24.20 Aligned_cols=13 Identities=31% Similarity=0.797 Sum_probs=9.4
Q ss_pred CCCCCcccCCcCC
Q 043554 105 ATECPICLGEFVD 117 (192)
Q Consensus 105 ~~~C~ICl~~~~~ 117 (192)
...||.|-+.|..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 4679999886554
No 246
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=33.80 E-value=47 Score=23.28 Aligned_cols=11 Identities=18% Similarity=0.214 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q 043554 36 MVIILAALLCA 46 (192)
Q Consensus 36 ~~iil~~ll~~ 46 (192)
+.|+++++++.
T Consensus 52 ~GIli~f~i~f 62 (103)
T PF06422_consen 52 FGILIAFWIFF 62 (103)
T ss_pred HHHHHHHHHHH
Confidence 44444444433
No 247
>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=33.58 E-value=15 Score=19.53 Aligned_cols=13 Identities=31% Similarity=0.940 Sum_probs=6.3
Q ss_pred CCcccCccCcCCC
Q 043554 145 SCPNCRHSLLNNN 157 (192)
Q Consensus 145 ~CP~CR~~l~~~~ 157 (192)
.||.|.+.+....
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4899988886443
No 248
>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=33.43 E-value=14 Score=32.98 Aligned_cols=35 Identities=23% Similarity=0.350 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
-.....++++++++++++++++..+..++.+++++
T Consensus 347 ~~~~~~~~l~vVlgvavlivVv~viv~vc~~~rrr 381 (439)
T PF02480_consen 347 RTSRGAALLGVVLGVAVLIVVVGVIVWVCLRCRRR 381 (439)
T ss_dssp -----------------------------------
T ss_pred CCCcccchHHHHHHHHHHHHHHHHHhheeeeehhc
Confidence 34445566666666655555555555544444433
No 249
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=33.40 E-value=5.6 Score=33.45 Aligned_cols=37 Identities=27% Similarity=0.569 Sum_probs=26.3
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~ 142 (192)
...|.+|+++|..+.....+. |.-+||..|+-.|+..
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred ceecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 347888888887654445554 5558888888888764
No 250
>PHA02935 Hypothetical protein; Provisional
Probab=33.33 E-value=1.3e+02 Score=24.20 Aligned_cols=31 Identities=19% Similarity=0.375 Sum_probs=16.5
Q ss_pred CCCCCCCcchhHHHHHHHHHHHHHHHHHHHH
Q 043554 25 SFVNEANFDTNMVIILAALLCALICALGLNS 55 (192)
Q Consensus 25 ~~~~~~~~~~~~~iil~~ll~~~i~~~~l~~ 55 (192)
.|....+.+-+.+++++.++.+++++++.+.
T Consensus 303 dysapmnvdnlimivlitmlsiiiiiivvia 333 (349)
T PHA02935 303 DYSAPMNVDNLIMIVLITMLSIIIIIIVVIA 333 (349)
T ss_pred cccCCcccccchHHHHHHHHHHHHHHHHHHH
Confidence 3444556666666666555555544444433
No 251
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=33.10 E-value=26 Score=28.94 Aligned_cols=41 Identities=27% Similarity=0.394 Sum_probs=30.5
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC--CCcc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--SCPN 148 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~ 148 (192)
...|+|=...+.++ ++-. .|||+|=.+=|...+..+. .||+
T Consensus 176 s~rdPis~~~I~nP--viSk-kC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISK-KCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhch--hhhc-CcCcchhhhhHHHHhccCceeeccc
Confidence 45788887777776 3333 5999999999999886533 4886
No 252
>PF01528 Herpes_glycop: Herpesvirus glycoprotein M; InterPro: IPR000785 The Equid herpesvirus 1 (Equine herpesvirus 1, EHV-1) protein belongs to a family of sequences that groups together Human herpesvirus 1 (HHV-1) UL10, EHV-1 52, Human herpesvirus 3 (HHV-3) 50, Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) BBRF3, Human herpesvirus 1 (HHV-1) 39 and Human cytomegalovirus (HHV-5) UL100. Little is yet known about the properties of the protein. However, its amino acid sequence is highly hydrophobic, containing 8 putative membrane-spanning regions, and it is therefore believed to be either membrane-associated or transmembrane.; GO: 0016020 membrane
Probab=32.80 E-value=88 Score=27.41 Aligned_cols=21 Identities=19% Similarity=0.229 Sum_probs=8.9
Q ss_pred cchhHHHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICALG 52 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~ 52 (192)
+.....+.|+++.++.++.++
T Consensus 301 ~~~~i~~~la~i~~i~l~~~v 321 (374)
T PF01528_consen 301 LHTGIAINLAVIAIICLIMMV 321 (374)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444555544444333333
No 253
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=32.33 E-value=24 Score=24.07 Aligned_cols=6 Identities=17% Similarity=0.883 Sum_probs=2.3
Q ss_pred hHHHHH
Q 043554 35 NMVIIL 40 (192)
Q Consensus 35 ~~~iil 40 (192)
.++.++
T Consensus 35 dFvLVi 40 (84)
T PF06143_consen 35 DFVLVI 40 (84)
T ss_pred HHHHHH
Confidence 344333
No 254
>PF15347 PAG: Phosphoprotein associated with glycosphingolipid-enriched
Probab=32.07 E-value=49 Score=28.98 Aligned_cols=38 Identities=16% Similarity=0.140 Sum_probs=26.6
Q ss_pred CCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 24 DSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL 61 (192)
Q Consensus 24 ~~~~~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~~~~ 61 (192)
..+.+...+.+.+|..|+.+..++++.|+|+++--|-+
T Consensus 5 g~~Ls~gq~qivlwgsLaav~~f~lis~LifLCsSC~r 42 (428)
T PF15347_consen 5 GSLLSSGQVQIVLWGSLAAVTTFLLISFLIFLCSSCDR 42 (428)
T ss_pred cccccCCceeEEeehHHHHHHHHHHHHHHHHHhhcccc
Confidence 34555566778888888888777777777766666543
No 255
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=31.96 E-value=82 Score=25.99 Aligned_cols=31 Identities=13% Similarity=-0.043 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 043554 35 NMVIILAALLCALICALGLNSIVRCALRCSH 65 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~ 65 (192)
..|-+++++++++++++++++++..++..++
T Consensus 198 ~~~g~f~wl~i~~~l~~~~Y~i~g~~~n~~~ 228 (268)
T PF09451_consen 198 GGWGFFTWLFIILFLFLAAYLIFGSWYNYNR 228 (268)
T ss_pred ccccHHHHHHHHHHHHHHHHhhhhhheeecc
Confidence 3444556666666666666666665555443
No 256
>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=31.87 E-value=29 Score=24.78 Aligned_cols=12 Identities=33% Similarity=0.830 Sum_probs=8.3
Q ss_pred CCCcccCCcCCC
Q 043554 107 ECPICLGEFVDG 118 (192)
Q Consensus 107 ~C~ICl~~~~~~ 118 (192)
.|+-|..+|.-.
T Consensus 4 ~CP~C~seytY~ 15 (109)
T TIGR00686 4 PCPKCNSEYTYH 15 (109)
T ss_pred cCCcCCCcceEe
Confidence 588888777543
No 257
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=31.77 E-value=7.5 Score=28.01 Aligned_cols=10 Identities=10% Similarity=0.278 Sum_probs=0.0
Q ss_pred HHHHHHHHHh
Q 043554 53 LNSIVRCALR 62 (192)
Q Consensus 53 l~~~~~~~~~ 62 (192)
+++++.||+.
T Consensus 38 iLLliGCWYc 47 (118)
T PF14991_consen 38 ILLLIGCWYC 47 (118)
T ss_dssp ----------
T ss_pred HHHHHhheee
Confidence 3334455443
No 258
>PRK01844 hypothetical protein; Provisional
Probab=31.59 E-value=1.6e+02 Score=19.51 Aligned_cols=30 Identities=10% Similarity=-0.036 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 043554 35 NMVIILAALLCALICALGLNSIVRCALRCS 64 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~~~ 64 (192)
+.++++++++++++.+++.-....-+++.+
T Consensus 7 I~l~I~~li~G~~~Gff~ark~~~k~lk~N 36 (72)
T PRK01844 7 ILVGVVALVAGVALGFFIARKYMMNYLQKN 36 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 344445555555555555554444444433
No 259
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=31.51 E-value=27 Score=31.38 Aligned_cols=47 Identities=19% Similarity=0.485 Sum_probs=30.7
Q ss_pred CCCCCcccCCc-CCCCceEEcCCCCCcccHhhHHHHHhC--------CCCCcccCc
Q 043554 105 ATECPICLGEF-VDGEKVRVLPKCNHGFHVRCIDTWLLS--------HSSCPNCRH 151 (192)
Q Consensus 105 ~~~C~ICl~~~-~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~ 151 (192)
+..|.+|+.-. -....+....+|+--||..|.....+. ...|=+|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 45699998433 333455566578888999997654321 124999955
No 260
>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=31.41 E-value=35 Score=21.70 Aligned_cols=11 Identities=45% Similarity=1.096 Sum_probs=6.8
Q ss_pred CCCCcccCccC
Q 043554 143 HSSCPNCRHSL 153 (192)
Q Consensus 143 ~~~CP~CR~~l 153 (192)
+..||+|+..+
T Consensus 2 k~~CPlCkt~~ 12 (61)
T PF05715_consen 2 KSLCPLCKTTL 12 (61)
T ss_pred CccCCcccchh
Confidence 34577776655
No 261
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.36 E-value=24 Score=23.41 Aligned_cols=32 Identities=31% Similarity=0.660 Sum_probs=23.7
Q ss_pred CCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554 127 CNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 160 (192)
=.|.||.+|.+.-| ...||.|--.++....++
T Consensus 27 fEcTFCadCae~~l--~g~CPnCGGelv~RP~RP 58 (84)
T COG3813 27 FECTFCADCAENRL--HGLCPNCGGELVARPIRP 58 (84)
T ss_pred EeeehhHhHHHHhh--cCcCCCCCchhhcCcCCh
Confidence 35899999998754 468999987776554443
No 262
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=31.07 E-value=81 Score=31.34 Aligned_cols=51 Identities=20% Similarity=0.406 Sum_probs=34.9
Q ss_pred CCCCCCcccCCcCC---CCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCc
Q 043554 104 PATECPICLGEFVD---GEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~~---~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
+...|.||-++... ++...-...|+--.|..|.+-=.+ .++.||.|+...-
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45689999998763 333333335777799999954333 3567999988765
No 263
>PF15353 HECA: Headcase protein family homologue
Probab=30.93 E-value=30 Score=24.62 Aligned_cols=14 Identities=21% Similarity=0.703 Sum_probs=12.2
Q ss_pred CCCcccHhhHHHHH
Q 043554 127 CNHGFHVRCIDTWL 140 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl 140 (192)
.++..|.+|++.|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 47899999999984
No 264
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.86 E-value=45 Score=23.30 Aligned_cols=35 Identities=20% Similarity=0.484 Sum_probs=28.3
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL 141 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~ 141 (192)
...|.||-..+.+++.....+ .-..|.+|+..=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 357999999999998887775 56789999987443
No 265
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=30.56 E-value=25 Score=27.93 Aligned_cols=29 Identities=17% Similarity=0.273 Sum_probs=10.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRCA 60 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~~ 60 (192)
+++-.+|-|.+-++++|.+++-.++++++
T Consensus 96 lavh~~iTITvSlImViaAliTtlvlK~C 124 (205)
T PF15298_consen 96 LAVHQIITITVSLIMVIAALITTLVLKNC 124 (205)
T ss_pred CCceEEEEEeeehhHHHHHhhhhhhhhhh
Confidence 33333333333333333333333344433
No 266
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=30.34 E-value=1.4e+02 Score=22.70 Aligned_cols=10 Identities=10% Similarity=0.457 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 043554 39 ILAALLCALI 48 (192)
Q Consensus 39 il~~ll~~~i 48 (192)
++++++.+.+
T Consensus 31 m~tILiaIvV 40 (189)
T PF05568_consen 31 MYTILIAIVV 40 (189)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 267
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=30.18 E-value=67 Score=24.31 Aligned_cols=13 Identities=8% Similarity=-0.113 Sum_probs=7.6
Q ss_pred CCCCCCcccCCcC
Q 043554 104 PATECPICLGEFV 116 (192)
Q Consensus 104 ~~~~C~ICl~~~~ 116 (192)
++..-++++-+-.
T Consensus 96 g~LSFslAlLD~~ 108 (151)
T PF14584_consen 96 GDLSFSLALLDDN 108 (151)
T ss_pred ccceeeeEEEeCC
Confidence 4556677765543
No 268
>PLN02400 cellulose synthase
Probab=30.15 E-value=70 Score=31.88 Aligned_cols=51 Identities=18% Similarity=0.417 Sum_probs=33.9
Q ss_pred CCCCCCcccCCcC---CCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCc
Q 043554 104 PATECPICLGEFV---DGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLL 154 (192)
Q Consensus 104 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 154 (192)
....|.||-+++. +++...-...|+--.|..|.+-=.+ .++.||.|+...-
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3558999999975 3333333335667799999843212 3567999988665
No 269
>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=29.98 E-value=49 Score=25.13 Aligned_cols=16 Identities=25% Similarity=0.332 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 043554 38 IILAALLCALICALGL 53 (192)
Q Consensus 38 iil~~ll~~~i~~~~l 53 (192)
+.+++.+++++++.++
T Consensus 12 i~igi~Ll~lLl~cgi 27 (158)
T PF11770_consen 12 ISIGISLLLLLLLCGI 27 (158)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3444334344444443
No 270
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=29.78 E-value=35 Score=25.38 Aligned_cols=22 Identities=23% Similarity=0.641 Sum_probs=16.4
Q ss_pred cCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554 124 LPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153 (192)
Q Consensus 124 l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 153 (192)
.++|||+|+ --+..||.|.+..
T Consensus 32 C~~CG~v~~--------PPr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYF--------PPRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEc--------CCcccCCCCCCCC
Confidence 346999986 4566799998874
No 271
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=29.74 E-value=1.5e+02 Score=18.71 Aligned_cols=7 Identities=29% Similarity=0.354 Sum_probs=3.0
Q ss_pred HHHHHHh
Q 043554 56 IVRCALR 62 (192)
Q Consensus 56 ~~~~~~~ 62 (192)
++|....
T Consensus 26 ~IRri~~ 32 (58)
T PF13314_consen 26 FIRRILI 32 (58)
T ss_pred HHHHHHH
Confidence 4444333
No 272
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=29.29 E-value=41 Score=22.41 Aligned_cols=33 Identities=24% Similarity=0.446 Sum_probs=21.0
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT 138 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~ 138 (192)
...|.+|....-..-....- +|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~-~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHP-GCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCC-CCCcEEChHHHcc
Confidence 45799998662222122222 5999999999754
No 273
>KOG4482 consensus Sarcoglycan complex, alpha/epsilon subunits [Function unknown]
Probab=29.19 E-value=80 Score=27.74 Aligned_cols=29 Identities=14% Similarity=0.157 Sum_probs=16.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 34 TNMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 34 ~~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
..+.+.+++.+.+++++++++..+.|++|
T Consensus 295 ~df~~tfaIpl~Valll~~~La~imc~rr 323 (449)
T KOG4482|consen 295 GDFLHTFAIPLGVALLLVLALAYIMCCRR 323 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 34555666656666666666556666554
No 274
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=29.03 E-value=1.2e+02 Score=17.36 Aligned_cols=6 Identities=50% Similarity=0.556 Sum_probs=2.1
Q ss_pred HHHHHH
Q 043554 40 LAALLC 45 (192)
Q Consensus 40 l~~ll~ 45 (192)
++.+++
T Consensus 14 l~~llf 19 (43)
T PF11395_consen 14 LSFLLF 19 (43)
T ss_pred HHHHHH
Confidence 333333
No 275
>KOG3637 consensus Vitronectin receptor, alpha subunit [Extracellular structures]
Probab=28.60 E-value=36 Score=33.82 Aligned_cols=26 Identities=31% Similarity=0.350 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 34 TNMVIILAALLCALICALGLNSIVRC 59 (192)
Q Consensus 34 ~~~~iil~~ll~~~i~~~~l~~~~~~ 59 (192)
.+++|+++++.++++++++++++.++
T Consensus 977 p~wiIi~svl~GLLlL~llv~~LwK~ 1002 (1030)
T KOG3637|consen 977 PLWIIILSVLGGLLLLALLVLLLWKC 1002 (1030)
T ss_pred ceeeehHHHHHHHHHHHHHHHHHHhc
Confidence 35667777777776666666655554
No 276
>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=28.50 E-value=97 Score=21.41 Aligned_cols=22 Identities=9% Similarity=0.091 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 043554 37 VIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 37 ~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+++.+++.+.++.+.+..+++
T Consensus 39 ~v~i~~lvaVg~~YL~y~~fLk 60 (91)
T PF01708_consen 39 EVAIFTLVAVGCLYLAYTWFLK 60 (91)
T ss_pred eeeehHHHHHHHHHHHHHHHHH
Confidence 3444444444444444445554
No 277
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=28.48 E-value=33 Score=25.97 Aligned_cols=24 Identities=17% Similarity=0.084 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 38 IILAALLCALICALGLNSIVRCAL 61 (192)
Q Consensus 38 iil~~ll~~~i~~~~l~~~~~~~~ 61 (192)
|++.++++++++.++++.++--.+
T Consensus 59 Iivl~Vi~lLvlYM~fL~~ldPll 82 (149)
T PF05434_consen 59 IIVLWVIGLLVLYMLFLMCLDPLL 82 (149)
T ss_pred EEeHHHHHHHHHHHHHHHHHhHHH
Confidence 444455555555555555554334
No 278
>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=28.35 E-value=15 Score=20.73 Aligned_cols=29 Identities=28% Similarity=0.622 Sum_probs=16.9
Q ss_pred cCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554 124 LPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154 (192)
Q Consensus 124 l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 154 (192)
.+.||++||..=--. +....|..|...|.
T Consensus 4 C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp ETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred cCCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 346999998332111 23456888877654
No 279
>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=28.18 E-value=22 Score=26.97 Aligned_cols=27 Identities=22% Similarity=0.235 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 40 LAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 40 l~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
+++.+++++++++++.-+.|..++..+
T Consensus 10 v~i~igi~Ll~lLl~cgiGcvwhwkhr 36 (158)
T PF11770_consen 10 VAISIGISLLLLLLLCGIGCVWHWKHR 36 (158)
T ss_pred HHHHHHHHHHHHHHHHhcceEEEeecc
Confidence 344444444444444444444444433
No 280
>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=28.14 E-value=1.7e+02 Score=19.88 Aligned_cols=19 Identities=21% Similarity=0.474 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 043554 44 LCALICALGLNSIVRCALR 62 (192)
Q Consensus 44 l~~~i~~~~l~~~~~~~~~ 62 (192)
++++++.+.++..++.+..
T Consensus 24 ~~~liv~~AlL~~IqLC~~ 42 (82)
T PF02723_consen 24 LVVLIVCIALLQLIQLCFQ 42 (82)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444333
No 281
>PF13980 UPF0370: Uncharacterised protein family (UPF0370)
Probab=27.94 E-value=81 Score=20.00 Aligned_cols=14 Identities=36% Similarity=0.356 Sum_probs=7.2
Q ss_pred hHHHHHHHHHHHHH
Q 043554 35 NMVIILAALLCALI 48 (192)
Q Consensus 35 ~~~iil~~ll~~~i 48 (192)
++||+|++++++++
T Consensus 7 YWWiiLl~lvG~i~ 20 (63)
T PF13980_consen 7 YWWIILLILVGMII 20 (63)
T ss_pred HHHHHHHHHHHHHH
Confidence 35565555555433
No 282
>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=27.40 E-value=61 Score=23.38 Aligned_cols=20 Identities=15% Similarity=0.326 Sum_probs=14.2
Q ss_pred hCCCCCcccCccCcCCCCCC
Q 043554 141 LSHSSCPNCRHSLLNNNERS 160 (192)
Q Consensus 141 ~~~~~CP~CR~~l~~~~~~~ 160 (192)
.+...|+.|++++.-+.+..
T Consensus 83 Gr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 83 GRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred chhhccCcCCCcCccCchhh
Confidence 34457999999997665543
No 283
>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=27.28 E-value=14 Score=21.46 Aligned_cols=25 Identities=28% Similarity=0.550 Sum_probs=13.7
Q ss_pred CCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 126 KCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 126 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
.|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47877754321110 12446999977
No 284
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=26.92 E-value=97 Score=24.03 Aligned_cols=18 Identities=22% Similarity=0.481 Sum_probs=13.6
Q ss_pred HhCCCCCcccCccCcCCC
Q 043554 140 LLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 140 l~~~~~CP~CR~~l~~~~ 157 (192)
+.....||.|...+.+.+
T Consensus 133 ~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred hhcCCcCCCCCCCCeecc
Confidence 455778999999886643
No 285
>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=26.83 E-value=1.4e+02 Score=19.87 Aligned_cols=6 Identities=50% Similarity=0.506 Sum_probs=2.3
Q ss_pred CCCCCC
Q 043554 13 SPPTAS 18 (192)
Q Consensus 13 ~~~~~~ 18 (192)
++.+++
T Consensus 9 s~~~~s 14 (81)
T PF11057_consen 9 SPLPMS 14 (81)
T ss_pred CCcccC
Confidence 333333
No 286
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=26.60 E-value=40 Score=29.22 Aligned_cols=29 Identities=24% Similarity=0.273 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 043554 35 NMVIILAALLCALICALGLNSIVRCALRC 63 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~~ 63 (192)
+++.++++-+++-++++++..+.-|.+|+
T Consensus 318 lvi~i~~vgLG~P~l~li~Ggl~v~~~r~ 346 (350)
T PF15065_consen 318 LVIMIMAVGLGVPLLLLILGGLYVCLRRR 346 (350)
T ss_pred HHHHHHHHHhhHHHHHHHHhhheEEEecc
Confidence 34444444455545544444444444443
No 287
>PRK10220 hypothetical protein; Provisional
Probab=26.26 E-value=55 Score=23.48 Aligned_cols=13 Identities=31% Similarity=0.807 Sum_probs=8.5
Q ss_pred CCCCcccCCcCCC
Q 043554 106 TECPICLGEFVDG 118 (192)
Q Consensus 106 ~~C~ICl~~~~~~ 118 (192)
.-|+-|-.+|.-.
T Consensus 4 P~CP~C~seytY~ 16 (111)
T PRK10220 4 PHCPKCNSEYTYE 16 (111)
T ss_pred CcCCCCCCcceEc
Confidence 3588887776543
No 288
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=26.07 E-value=1.7e+02 Score=19.57 Aligned_cols=16 Identities=19% Similarity=-0.029 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHHh
Q 043554 47 LICALGLNSIVRCALR 62 (192)
Q Consensus 47 ~i~~~~l~~~~~~~~~ 62 (192)
+++++++..++....+
T Consensus 19 F~fL~lLi~~i~~~~~ 34 (82)
T TIGR01195 19 FLFLSLLIYAVRGMGK 34 (82)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333334443333
No 289
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=25.94 E-value=2.2e+02 Score=23.30 Aligned_cols=35 Identities=14% Similarity=0.247 Sum_probs=25.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 32 FDTNMVIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
+.++--+++-+++.++++.+.++.++.+++-|+..
T Consensus 183 spS~S~vilpvvIaliVitl~vf~LvgLyr~C~k~ 217 (259)
T PF07010_consen 183 SPSYSSVILPVVIALIVITLSVFTLVGLYRMCWKT 217 (259)
T ss_pred CccccchhHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 55556678777777777777777777877666654
No 290
>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=25.84 E-value=32 Score=18.68 Aligned_cols=24 Identities=33% Similarity=0.930 Sum_probs=8.3
Q ss_pred CCCcccCCcCCCC-ceEEcCCCCCc
Q 043554 107 ECPICLGEFVDGE-KVRVLPKCNHG 130 (192)
Q Consensus 107 ~C~ICl~~~~~~~-~v~~l~~C~H~ 130 (192)
.|+-|-.++.-.| .+.+.|.|+|.
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 5777777765322 33445556654
No 291
>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=25.78 E-value=54 Score=21.15 Aligned_cols=16 Identities=19% Similarity=0.227 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHh
Q 043554 47 LICALGLNSIVRCALR 62 (192)
Q Consensus 47 ~i~~~~l~~~~~~~~~ 62 (192)
++++++.+.+..++++
T Consensus 25 l~flvGnyvlY~Yaqk 40 (69)
T PF04689_consen 25 LVFLVGNYVLYVYAQK 40 (69)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3344444444444443
No 292
>KOG2621 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=25.53 E-value=3e+02 Score=23.20 Aligned_cols=33 Identities=12% Similarity=0.145 Sum_probs=18.7
Q ss_pred CCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 27 VNEANFDTNMVIILAALLCALICALGLNSIVRC 59 (192)
Q Consensus 27 ~~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~~ 59 (192)
.....+-.++++++.++++++-+-+.++++++.
T Consensus 25 ~~~~~~~~~~l~~~S~llvi~TfP~S~~fclKi 57 (288)
T KOG2621|consen 25 SKPLGACEWLLVILSFLLVLMTFPISIWFCLKI 57 (288)
T ss_pred cCCcchHHHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 333344445566666666666666666555554
No 293
>PF07069 PRRSV_2b: Porcine reproductive and respiratory syndrome virus 2b ; InterPro: IPR009775 This family consists of several Porcine reproductive and respiratory syndrome virus (PRRSV) ORF2b proteins. The function of this family is unknown however it is known that large amounts of 2b protein are present in the virion and it is thought that this protein may be an integral component of the virion [].
Probab=25.19 E-value=1.9e+02 Score=18.46 Aligned_cols=8 Identities=50% Similarity=0.609 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 043554 38 IILAALLC 45 (192)
Q Consensus 38 iil~~ll~ 45 (192)
|+++++++
T Consensus 31 iflailfg 38 (73)
T PF07069_consen 31 IFLAILFG 38 (73)
T ss_pred HHHHHHHh
Confidence 33433333
No 294
>PF11157 DUF2937: Protein of unknown function (DUF2937); InterPro: IPR022584 This family of proteins with unknown function appears to be found mainly in Proteobacteria.
Probab=25.06 E-value=1.6e+02 Score=22.60 Aligned_cols=30 Identities=27% Similarity=0.236 Sum_probs=14.5
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 29 EANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 29 ~~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
..++..+.+-+++.+++.+++-+.+..+.+
T Consensus 130 plt~~gi~~g~vg~l~~~~l~~~l~~l~~~ 159 (167)
T PF11157_consen 130 PLTPEGIVFGLVGALLGALLVELLLGLLRR 159 (167)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555444444443333
No 295
>PF03554 Herpes_UL73: UL73 viral envelope glycoprotein ; InterPro: IPR005211 This entry represents a conserved region found in a number of viral proteins: BLRF1, U46, 53, and UL73, collectively known as glycoprotein N. These UL73-like envelope glycoproteins, which associate in a high molecular mass complex with their counterpart protein gM, induce neutralizing antibody responses in the host. These glycoproteins are highly polymorphic, particularly in the N-terminal region [].; GO: 0019031 viral envelope
Probab=24.65 E-value=1.3e+02 Score=20.41 Aligned_cols=29 Identities=17% Similarity=0.233 Sum_probs=16.5
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 30 ANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 30 ~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+|.+++.++-++++.+..++++-+.+..
T Consensus 46 ~SFsSIW~iiN~~il~~A~~vyLry~Cf~ 74 (82)
T PF03554_consen 46 SSFSSIWAIINVVILLCAFCVYLRYLCFQ 74 (82)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666666666666655555555554443
No 296
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=24.32 E-value=40 Score=31.13 Aligned_cols=34 Identities=26% Similarity=0.555 Sum_probs=23.3
Q ss_pred CCCCCCcccCCcCCC-----------CceEEcCCCCCcccHhhHHHH
Q 043554 104 PATECPICLGEFVDG-----------EKVRVLPKCNHGFHVRCIDTW 139 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~-----------~~v~~l~~C~H~FH~~Ci~~W 139 (192)
....|+||.|.|+.- +.|.+. =|-+||..|+..-
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 356799999999721 222221 4779999998763
No 297
>PF10476 DUF2448: Protein of unknown function C-terminus (DUF2448) ; InterPro: IPR018861 The proteins in the entry are restricted to chordates and their function is not known.
Probab=23.64 E-value=1.2e+02 Score=24.03 Aligned_cols=24 Identities=29% Similarity=0.377 Sum_probs=11.2
Q ss_pred CCCCcchhHHHHHHHHHHHHHHHH
Q 043554 28 NEANFDTNMVIILAALLCALICAL 51 (192)
Q Consensus 28 ~~~~~~~~~~iil~~ll~~~i~~~ 51 (192)
....+.++++-+++++++.+++..
T Consensus 18 v~~P~qVIlLR~LAFL~CAFLla~ 41 (204)
T PF10476_consen 18 VKAPVQVILLRFLAFLACAFLLAT 41 (204)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHH
Confidence 333444555555554444444443
No 298
>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=23.58 E-value=74 Score=18.07 Aligned_cols=34 Identities=18% Similarity=0.366 Sum_probs=23.1
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT 138 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~ 138 (192)
...|.+|.+.+.....-.....|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4569999888875321122334888899999876
No 299
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=23.50 E-value=1e+02 Score=23.32 Aligned_cols=18 Identities=22% Similarity=0.433 Sum_probs=13.1
Q ss_pred HhCCCCCcccCccCcCCC
Q 043554 140 LLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 140 l~~~~~CP~CR~~l~~~~ 157 (192)
+.....||.|...+...+
T Consensus 125 ~~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 125 MELNFTCPRCGAMLDYLD 142 (158)
T ss_pred HHcCCcCCCCCCEeeecc
Confidence 445778999988875543
No 300
>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=23.37 E-value=72 Score=17.63 Aligned_cols=10 Identities=40% Similarity=1.049 Sum_probs=5.7
Q ss_pred CCCcccCCcC
Q 043554 107 ECPICLGEFV 116 (192)
Q Consensus 107 ~C~ICl~~~~ 116 (192)
+|+-|-..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666665554
No 301
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=23.01 E-value=63 Score=28.58 Aligned_cols=23 Identities=35% Similarity=0.333 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+||+++++-++|+++.-..|+.
T Consensus 386 ~~i~~avl~p~~il~~~~~~~~~ 408 (436)
T PTZ00208 386 AMIILAVLVPAIILAIIAVAFFI 408 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhe
Confidence 46677766666665544333333
No 302
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.98 E-value=68 Score=30.29 Aligned_cols=46 Identities=22% Similarity=0.461 Sum_probs=31.7
Q ss_pred CCCcccCCcCCCCceEEcCCCCC-cccHhhHHHHHh--C----CCCCcccCccCcCC
Q 043554 107 ECPICLGEFVDGEKVRVLPKCNH-GFHVRCIDTWLL--S----HSSCPNCRHSLLNN 156 (192)
Q Consensus 107 ~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~Wl~--~----~~~CP~CR~~l~~~ 156 (192)
.|+||-..+.- .....||| ..+..|..+... + ...||+||..+...
T Consensus 2 ~c~ic~~s~~~----~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCccc----cccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 58899766433 23335999 799999887552 2 34589999877544
No 303
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=22.96 E-value=35 Score=29.07 Aligned_cols=47 Identities=21% Similarity=0.436 Sum_probs=29.9
Q ss_pred CCCCCCcccCCcCCCCceEEc--CCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 104 PATECPICLGEFVDGEKVRVL--PKCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 104 ~~~~C~ICl~~~~~~~~v~~l--~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
....|+||-..-... .++.- .+=.|.+|.-|-..|--.+..||.|-.
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 357899997763221 11110 112366778888888777788999964
No 304
>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=22.95 E-value=1e+02 Score=22.28 Aligned_cols=23 Identities=22% Similarity=0.303 Sum_probs=14.4
Q ss_pred CCcchhHHHHHHHHHHHHHHHHH
Q 043554 30 ANFDTNMVIILAALLCALICALG 52 (192)
Q Consensus 30 ~~~~~~~~iil~~ll~~~i~~~~ 52 (192)
..+.+.-.++|+++++.+++++.
T Consensus 82 ~p~evvG~l~LGvV~GG~i~vLc 104 (127)
T PF06040_consen 82 SPWEVVGYLILGVVAGGLIAVLC 104 (127)
T ss_pred CCeeeeehhhHHHHhccHHHHHH
Confidence 34555566777777777665553
No 305
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=22.89 E-value=87 Score=21.91 Aligned_cols=34 Identities=9% Similarity=0.198 Sum_probs=18.2
Q ss_pred CCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554 25 SFVNEANFDTNMVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 25 ~~~~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.|..+.++.+..+++++.++++.++.-++..+..
T Consensus 9 ~~~ie~sl~~~~~~l~~~~~~l~ll~~ll~~~~~ 42 (108)
T PF07219_consen 9 GYRIETSLWVALILLLLLFVVLYLLLRLLRRLLS 42 (108)
T ss_pred CEEEEeeHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445666776666555555555444444444443
No 306
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=22.86 E-value=25 Score=32.22 Aligned_cols=56 Identities=14% Similarity=0.124 Sum_probs=46.2
Q ss_pred CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554 102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157 (192)
Q Consensus 102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 157 (192)
+.....|.+|+.......+...+..|.|-+...|+..|-.....|+.|+..+...-
T Consensus 257 q~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~~ 312 (553)
T KOG4430|consen 257 QENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTIS 312 (553)
T ss_pred hhcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccccc
Confidence 34567899999998888877777767899999999999888889999988775443
No 307
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.84 E-value=41 Score=24.95 Aligned_cols=22 Identities=27% Similarity=0.454 Sum_probs=14.4
Q ss_pred CCcccCCcCCCCceEEcCCCCCcccH
Q 043554 108 CPICLGEFVDGEKVRVLPKCNHGFHV 133 (192)
Q Consensus 108 C~ICl~~~~~~~~v~~l~~C~H~FH~ 133 (192)
=-||.+. +..|.... |||.|+.
T Consensus 60 lfi~qs~---~~rv~rce-cghsf~d 81 (165)
T COG4647 60 LFICQSA---QKRVIRCE-CGHSFGD 81 (165)
T ss_pred EEEEecc---cccEEEEe-ccccccC
Confidence 3456543 34467776 9999984
No 308
>PF11190 DUF2976: Protein of unknown function (DUF2976); InterPro: IPR021356 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=22.76 E-value=1.4e+02 Score=20.53 Aligned_cols=19 Identities=21% Similarity=0.259 Sum_probs=8.0
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 043554 34 TNMVIILAALLCALICALG 52 (192)
Q Consensus 34 ~~~~iil~~ll~~~i~~~~ 52 (192)
.+..++++.++.+..++.+
T Consensus 24 ~d~~~l~gLv~~a~afi~V 42 (87)
T PF11190_consen 24 KDGVLLLGLVLAAAAFIVV 42 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444333333
No 309
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=22.17 E-value=1.6e+02 Score=22.33 Aligned_cols=22 Identities=5% Similarity=0.116 Sum_probs=11.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHH
Q 043554 32 FDTNMVIILAALLCALICALGL 53 (192)
Q Consensus 32 ~~~~~~iil~~ll~~~i~~~~l 53 (192)
++..+|.++.++++++++.-+.
T Consensus 4 ~~~~fwq~I~FlIll~ll~kfa 25 (154)
T PRK06568 4 LDESFWLAVSFVIFVYLIYRPA 25 (154)
T ss_pred hHhHHHHHHHHHHHHHHHHHHh
Confidence 4555666666555544443333
No 310
>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=22.09 E-value=68 Score=26.94 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 37 VIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 37 ~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
-.++-++|++.+..++++.++-|++.|+|.
T Consensus 270 ~~~vPIaVG~~La~lvlivLiaYli~Rrr~ 299 (306)
T PF01299_consen 270 SDLVPIAVGAALAGLVLIVLIAYLIGRRRS 299 (306)
T ss_pred cchHHHHHHHHHHHHHHHHHHhheeEeccc
Confidence 466777777777777776666666555443
No 311
>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=22.04 E-value=27 Score=29.65 Aligned_cols=46 Identities=24% Similarity=0.405 Sum_probs=29.1
Q ss_pred CCCCCcccCCcCCCCceEEc---CCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554 105 ATECPICLGEFVDGEKVRVL---PKCNHGFHVRCIDTWLLSHSSCPNCRH 151 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l---~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 151 (192)
...|+||-..-... .++.. .+=.+.+|.-|-.+|--.+..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 44899998763221 11111 112356777888888777788999965
No 312
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=22.00 E-value=45 Score=27.32 Aligned_cols=41 Identities=29% Similarity=0.491 Sum_probs=29.8
Q ss_pred CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC--CCcc
Q 043554 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--SCPN 148 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~ 148 (192)
+..|+|-+..+..+ ..-..|+|.|-.+-|...++..- .||.
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 56899988887665 22225999999999999887443 4663
No 313
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=21.83 E-value=43 Score=17.34 Aligned_cols=9 Identities=33% Similarity=1.036 Sum_probs=6.5
Q ss_pred CCcccCccC
Q 043554 145 SCPNCRHSL 153 (192)
Q Consensus 145 ~CP~CR~~l 153 (192)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588886655
No 314
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=21.67 E-value=49 Score=31.36 Aligned_cols=49 Identities=22% Similarity=0.428 Sum_probs=31.7
Q ss_pred CCCCCcccCCcCCCCc----eEEcC--CCCCcccHhhHHHH----------HhCCCCCcccCccC
Q 043554 105 ATECPICLGEFVDGEK----VRVLP--KCNHGFHVRCIDTW----------LLSHSSCPNCRHSL 153 (192)
Q Consensus 105 ~~~C~ICl~~~~~~~~----v~~l~--~C~H~FH~~Ci~~W----------l~~~~~CP~CR~~l 153 (192)
..+|=||-|+=++++. ++... +|.-.||-.|-..- +.+-+.|-.|+..+
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred cceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 5689999988665431 12211 47788999997542 12345699998755
No 315
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=21.66 E-value=1.2e+02 Score=29.14 Aligned_cols=23 Identities=13% Similarity=0.069 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 043554 36 MVIILAALLCALICALGLNSIVR 58 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~~ 58 (192)
.+.||+.+++++++++.++++.+
T Consensus 275 Ll~ILG~~~livl~lL~vLl~yC 297 (807)
T PF10577_consen 275 LLAILGGTALIVLILLCVLLCYC 297 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 35666656665555555555554
No 316
>PRK11827 hypothetical protein; Provisional
Probab=21.46 E-value=38 Score=21.56 Aligned_cols=11 Identities=36% Similarity=0.908 Sum_probs=5.7
Q ss_pred CCCcccCccCc
Q 043554 144 SSCPNCRHSLL 154 (192)
Q Consensus 144 ~~CP~CR~~l~ 154 (192)
-.||+|+.++.
T Consensus 9 LaCP~ckg~L~ 19 (60)
T PRK11827 9 IACPVCNGKLW 19 (60)
T ss_pred eECCCCCCcCe
Confidence 34555555553
No 317
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=21.46 E-value=39 Score=27.20 Aligned_cols=30 Identities=20% Similarity=0.346 Sum_probs=18.3
Q ss_pred CCCcccHhhHHHHHh---CCCCCcccCccCcCC
Q 043554 127 CNHGFHVRCIDTWLL---SHSSCPNCRHSLLNN 156 (192)
Q Consensus 127 C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~~~ 156 (192)
|.|-||..=+...-. ....||.|.....+.
T Consensus 195 C~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~ 227 (251)
T COG5415 195 CPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEV 227 (251)
T ss_pred cccccccccccccccccchheecccchhhcCcc
Confidence 777777655544332 245699998765433
No 318
>PHA03030 hypothetical protein; Provisional
Probab=20.85 E-value=1.2e+02 Score=21.58 Aligned_cols=7 Identities=29% Similarity=0.283 Sum_probs=2.5
Q ss_pred Hhhcccc
Q 043554 61 LRCSHRL 67 (192)
Q Consensus 61 ~~~~~r~ 67 (192)
.+-..|-
T Consensus 21 I~~IkRD 27 (122)
T PHA03030 21 IRIIKRD 27 (122)
T ss_pred heeeecc
Confidence 3333333
No 319
>PHA03164 hypothetical protein; Provisional
Probab=20.80 E-value=1.6e+02 Score=19.74 Aligned_cols=11 Identities=36% Similarity=0.664 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q 043554 38 IILAALLCALI 48 (192)
Q Consensus 38 iil~~ll~~~i 48 (192)
++|+.++++.+
T Consensus 61 lvLtgLaIamI 71 (88)
T PHA03164 61 LVLTGLAIAMI 71 (88)
T ss_pred HHHHHHHHHHH
Confidence 34444443333
No 320
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=20.65 E-value=1.7e+02 Score=20.76 Aligned_cols=9 Identities=0% Similarity=0.065 Sum_probs=3.5
Q ss_pred chhHHHHHH
Q 043554 33 DTNMVIILA 41 (192)
Q Consensus 33 ~~~~~iil~ 41 (192)
.+-+|+++.
T Consensus 65 S~~F~L~~~ 73 (103)
T PF12955_consen 65 SVPFWLFAG 73 (103)
T ss_pred cchhhHHHH
Confidence 333444433
No 321
>PF15339 Afaf: Acrosome formation-associated factor
Probab=20.60 E-value=2.9e+02 Score=21.61 Aligned_cols=7 Identities=29% Similarity=0.525 Sum_probs=2.9
Q ss_pred CCCCCCC
Q 043554 14 PPTASGN 20 (192)
Q Consensus 14 ~~~~~~~ 20 (192)
+|+|..+
T Consensus 107 ~pIP~SD 113 (200)
T PF15339_consen 107 HPIPSSD 113 (200)
T ss_pred ccCCchh
Confidence 3444433
No 322
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=20.59 E-value=78 Score=18.74 Aligned_cols=33 Identities=21% Similarity=0.449 Sum_probs=21.4
Q ss_pred CCCCCcccCCc--CCCCceEEcCCCCCcccHhhHHH
Q 043554 105 ATECPICLGEF--VDGEKVRVLPKCNHGFHVRCIDT 138 (192)
Q Consensus 105 ~~~C~ICl~~~--~~~~~v~~l~~C~H~FH~~Ci~~ 138 (192)
...|.+|-+.+ .....++=. .|+-..|++|+..
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~-~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCS-WCGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEET-TTT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEEC-CCCChHhhhhhhh
Confidence 45799999888 233334334 4999999999765
No 323
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=20.55 E-value=60 Score=27.18 Aligned_cols=31 Identities=19% Similarity=0.171 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554 36 MVIILAALLCALICALGLNSIVRCALRCSHR 66 (192)
Q Consensus 36 ~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r 66 (192)
++|-|++-++.++++.++.+++-+.+|++..
T Consensus 230 VlIslAiALG~v~ll~l~Gii~~~~~r~~~~ 260 (281)
T PF12768_consen 230 VLISLAIALGTVFLLVLIGIILAYIRRRRQG 260 (281)
T ss_pred EEEehHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3344444444444444444455544444333
No 324
>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=20.44 E-value=66 Score=27.10 Aligned_cols=23 Identities=22% Similarity=0.164 Sum_probs=11.4
Q ss_pred CCCCcchhHHHHHHHHHHHHHHH
Q 043554 28 NEANFDTNMVIILAALLCALICA 50 (192)
Q Consensus 28 ~~~~~~~~~~iil~~ll~~~i~~ 50 (192)
.+.++..+.+++-++++++++++
T Consensus 273 ~s~~l~piil~IG~vl~i~~Ig~ 295 (305)
T PF04639_consen 273 VSDSLLPIILIIGGVLLIVFIGY 295 (305)
T ss_pred hhhhhhHHHHHHHHHHHHHHhhh
Confidence 34445555666555444444433
No 325
>PRK10633 hypothetical protein; Provisional
Probab=20.29 E-value=2.3e+02 Score=19.09 Aligned_cols=28 Identities=25% Similarity=0.208 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554 35 NMVIILAALLCALICALGLNSIVRCALR 62 (192)
Q Consensus 35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~ 62 (192)
=.|..++.+++.++++++.+.++++..+
T Consensus 43 P~WF~~sCi~~p~lfi~l~~~~Vk~vFk 70 (80)
T PRK10633 43 PHWFEMACLLLPLLFILLCWLMVKFIFR 70 (80)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3566777767666666666666676554
No 326
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.18 E-value=1.3e+02 Score=21.37 Aligned_cols=13 Identities=23% Similarity=0.698 Sum_probs=9.2
Q ss_pred CCCcccCccCcCC
Q 043554 144 SSCPNCRHSLLNN 156 (192)
Q Consensus 144 ~~CP~CR~~l~~~ 156 (192)
..||.|-..+...
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 3599997777555
Done!