Query 047079
Match_columns 296
No_of_seqs 322 out of 1850
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 07:24:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047079.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047079hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2.4E-18 5.3E-23 162.3 8.6 79 75-157 204-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 4.4E-15 9.5E-20 100.5 2.4 43 105-148 2-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 4.4E-13 9.5E-18 121.6 4.9 76 76-152 148-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.3 1.1E-12 2.3E-17 98.5 2.9 46 102-148 18-73 (73)
5 COG5243 HRD1 HRD ubiquitin lig 99.3 1.1E-11 2.4E-16 116.8 8.9 68 80-153 269-346 (491)
6 COG5540 RING-finger-containing 99.3 2.3E-12 4.9E-17 118.5 3.8 51 102-153 322-373 (374)
7 cd00162 RING RING-finger (Real 99.0 4.9E-10 1.1E-14 74.1 3.3 44 105-151 1-45 (45)
8 PF13923 zf-C3HC4_2: Zinc fing 98.9 8.3E-10 1.8E-14 72.7 3.3 39 106-147 1-39 (39)
9 PLN03208 E3 ubiquitin-protein 98.9 7E-10 1.5E-14 97.3 3.7 48 102-153 17-80 (193)
10 PF13920 zf-C3HC4_3: Zinc fing 98.9 1E-09 2.2E-14 76.2 3.5 46 103-152 2-48 (50)
11 KOG0320 Predicted E3 ubiquitin 98.9 9.2E-10 2E-14 94.6 2.7 51 102-154 130-180 (187)
12 PF12861 zf-Apc11: Anaphase-pr 98.8 1.6E-09 3.4E-14 83.1 2.6 50 103-152 21-82 (85)
13 KOG0317 Predicted E3 ubiquitin 98.8 1.9E-09 4.2E-14 99.0 2.7 49 102-154 238-286 (293)
14 PHA02926 zinc finger-like prot 98.8 2.3E-09 5E-14 95.3 3.0 51 102-152 169-230 (242)
15 KOG0823 Predicted E3 ubiquitin 98.8 4.6E-09 1E-13 93.9 3.6 51 100-154 44-97 (230)
16 PF00097 zf-C3HC4: Zinc finger 98.8 5.3E-09 1.2E-13 69.2 2.8 39 106-147 1-41 (41)
17 KOG0802 E3 ubiquitin ligase [P 98.8 3.1E-09 6.8E-14 107.5 2.4 52 102-154 290-343 (543)
18 PF14634 zf-RING_5: zinc-RING 98.7 6.7E-09 1.5E-13 70.2 2.6 44 105-149 1-44 (44)
19 PF15227 zf-C3HC4_4: zinc fing 98.7 7.2E-09 1.6E-13 69.5 2.1 38 106-147 1-42 (42)
20 COG5194 APC11 Component of SCF 98.7 1E-08 2.3E-13 77.0 2.3 50 104-153 21-82 (88)
21 smart00184 RING Ring finger. E 98.7 1.7E-08 3.6E-13 64.4 2.8 38 106-147 1-39 (39)
22 smart00504 Ubox Modified RING 98.7 2.1E-08 4.5E-13 72.2 3.6 45 104-152 2-46 (63)
23 KOG1734 Predicted RING-contain 98.4 4.2E-08 9.1E-13 89.4 0.5 54 100-154 221-283 (328)
24 TIGR00599 rad18 DNA repair pro 98.4 1E-07 2.2E-12 92.5 3.2 48 102-153 25-72 (397)
25 KOG2930 SCF ubiquitin ligase, 98.4 1E-07 2.2E-12 75.0 1.5 50 103-152 46-108 (114)
26 KOG1493 Anaphase-promoting com 98.3 8.5E-08 1.8E-12 71.5 -1.1 51 102-152 19-81 (84)
27 KOG0828 Predicted E3 ubiquitin 98.3 9.7E-07 2.1E-11 86.3 5.2 52 102-153 570-635 (636)
28 smart00744 RINGv The RING-vari 98.3 6.4E-07 1.4E-11 62.1 2.8 42 105-148 1-49 (49)
29 COG5574 PEX10 RING-finger-cont 98.2 5.9E-07 1.3E-11 81.9 1.8 49 102-154 214-264 (271)
30 PF13445 zf-RING_UBOX: RING-ty 98.2 1.2E-06 2.6E-11 59.1 2.7 38 106-145 1-43 (43)
31 KOG2164 Predicted E3 ubiquitin 98.2 9.6E-07 2.1E-11 86.9 2.8 47 103-153 186-237 (513)
32 PF11793 FANCL_C: FANCL C-term 98.1 5.8E-07 1.3E-11 66.9 0.7 50 103-152 2-66 (70)
33 COG5219 Uncharacterized conser 98.1 6E-07 1.3E-11 93.2 0.0 51 102-152 1468-1523(1525)
34 KOG2177 Predicted E3 ubiquitin 98.1 9.5E-07 2.1E-11 79.6 1.3 44 101-148 11-54 (386)
35 PF04564 U-box: U-box domain; 98.1 2.4E-06 5.2E-11 63.9 2.4 47 103-153 4-51 (73)
36 TIGR00570 cdk7 CDK-activating 98.0 4E-06 8.8E-11 78.7 3.5 52 103-154 3-56 (309)
37 COG5432 RAD18 RING-finger-cont 97.9 3E-06 6.6E-11 78.2 1.5 46 102-151 24-69 (391)
38 KOG0827 Predicted E3 ubiquitin 97.9 3.2E-06 6.9E-11 80.7 1.4 45 104-148 5-52 (465)
39 KOG0287 Postreplication repair 97.8 5.6E-06 1.2E-10 77.8 0.4 47 102-152 22-68 (442)
40 PF14835 zf-RING_6: zf-RING of 97.8 9.9E-06 2.1E-10 58.9 1.2 45 103-152 7-51 (65)
41 KOG0804 Cytoplasmic Zn-finger 97.8 9.9E-06 2.2E-10 78.7 1.6 49 102-152 174-222 (493)
42 KOG0825 PHD Zn-finger protein 97.7 5.1E-06 1.1E-10 85.1 -0.8 49 103-152 123-171 (1134)
43 KOG4265 Predicted E3 ubiquitin 97.7 2.8E-05 6E-10 73.8 2.8 48 101-152 288-336 (349)
44 KOG1039 Predicted E3 ubiquitin 97.6 2.3E-05 5.1E-10 74.9 1.7 52 102-153 160-222 (344)
45 KOG1785 Tyrosine kinase negati 97.5 4.1E-05 9E-10 73.5 2.2 48 104-155 370-419 (563)
46 KOG0311 Predicted E3 ubiquitin 97.5 9.7E-06 2.1E-10 76.7 -2.1 49 102-153 42-91 (381)
47 KOG4445 Uncharacterized conser 97.4 3.1E-05 6.7E-10 71.9 0.0 55 102-157 114-191 (368)
48 KOG4172 Predicted E3 ubiquitin 97.4 3E-05 6.5E-10 54.4 -0.1 47 102-152 6-54 (62)
49 KOG3970 Predicted E3 ubiquitin 97.3 0.00022 4.7E-09 63.9 3.2 57 99-157 46-110 (299)
50 PF11789 zf-Nse: Zinc-finger o 97.2 0.00012 2.7E-09 52.3 1.2 42 102-146 10-53 (57)
51 KOG1645 RING-finger-containing 97.1 0.00026 5.6E-09 68.3 2.8 48 103-150 4-54 (463)
52 KOG1941 Acetylcholine receptor 97.1 0.00012 2.5E-09 70.3 0.2 47 102-149 364-413 (518)
53 KOG0297 TNF receptor-associate 97.1 0.00026 5.6E-09 69.2 2.3 51 102-155 20-70 (391)
54 KOG0824 Predicted E3 ubiquitin 97.0 0.00031 6.6E-09 65.4 1.7 47 103-153 7-54 (324)
55 KOG0978 E3 ubiquitin ligase in 96.9 0.00038 8.3E-09 71.7 1.1 48 102-153 642-690 (698)
56 KOG4159 Predicted E3 ubiquitin 96.7 0.00084 1.8E-08 65.5 1.9 48 102-153 83-130 (398)
57 KOG2660 Locus-specific chromos 96.6 0.00056 1.2E-08 64.4 0.2 49 102-153 14-62 (331)
58 KOG1002 Nucleotide excision re 96.4 0.0013 2.7E-08 65.5 1.4 48 102-153 535-587 (791)
59 KOG0826 Predicted E3 ubiquitin 96.2 0.0086 1.9E-07 56.6 5.7 47 102-151 299-345 (357)
60 PF05883 Baculo_RING: Baculovi 96.2 0.0019 4.1E-08 53.8 0.9 45 103-148 26-76 (134)
61 PF12906 RINGv: RING-variant d 96.1 0.0038 8.3E-08 42.7 2.1 40 106-147 1-47 (47)
62 COG5152 Uncharacterized conser 96.0 0.0024 5.2E-08 56.4 1.0 47 102-152 195-241 (259)
63 KOG0801 Predicted E3 ubiquitin 95.9 0.0029 6.4E-08 54.1 1.1 28 103-131 177-204 (205)
64 KOG1952 Transcription factor N 95.9 0.0035 7.7E-08 65.4 1.5 49 102-150 190-245 (950)
65 KOG2879 Predicted E3 ubiquitin 95.8 0.007 1.5E-07 55.9 2.8 48 102-152 238-287 (298)
66 KOG1428 Inhibitor of type V ad 95.6 0.0075 1.6E-07 66.0 2.9 67 84-153 3469-3545(3738)
67 PHA02862 5L protein; Provision 95.6 0.0071 1.5E-07 50.9 2.0 46 103-153 2-54 (156)
68 KOG1814 Predicted E3 ubiquitin 95.6 0.0064 1.4E-07 59.0 1.9 49 102-151 183-239 (445)
69 PF10367 Vps39_2: Vacuolar sor 95.6 0.0069 1.5E-07 47.6 1.8 32 102-135 77-108 (109)
70 KOG1813 Predicted E3 ubiquitin 95.4 0.0057 1.2E-07 57.0 1.1 46 103-152 241-286 (313)
71 KOG3039 Uncharacterized conser 95.4 0.013 2.8E-07 53.4 3.2 50 103-152 221-270 (303)
72 KOG4692 Predicted E3 ubiquitin 95.3 0.0099 2.1E-07 56.7 2.1 47 102-152 421-467 (489)
73 PHA03096 p28-like protein; Pro 95.3 0.0079 1.7E-07 56.4 1.4 46 104-149 179-231 (284)
74 PHA02825 LAP/PHD finger-like p 95.2 0.014 3.1E-07 49.8 2.6 49 102-154 7-61 (162)
75 COG5222 Uncharacterized conser 94.9 0.012 2.7E-07 55.0 1.4 46 104-152 275-322 (427)
76 PF08746 zf-RING-like: RING-li 94.8 0.018 3.8E-07 38.7 1.7 41 106-147 1-43 (43)
77 PF04641 Rtf2: Rtf2 RING-finge 94.6 0.042 9.1E-07 50.8 4.3 51 101-152 111-161 (260)
78 KOG4185 Predicted E3 ubiquitin 94.5 0.028 6E-07 52.5 3.0 49 104-153 4-56 (296)
79 KOG3268 Predicted E3 ubiquitin 94.2 0.023 5E-07 49.5 1.5 30 124-153 189-229 (234)
80 KOG1571 Predicted E3 ubiquitin 94.2 0.028 6E-07 53.8 2.1 44 102-152 304-347 (355)
81 KOG4739 Uncharacterized protei 94.1 0.018 3.8E-07 52.4 0.6 45 105-153 5-49 (233)
82 KOG4275 Predicted E3 ubiquitin 93.8 0.013 2.9E-07 54.6 -0.7 42 103-152 300-342 (350)
83 PF14570 zf-RING_4: RING/Ubox 93.7 0.042 9.1E-07 37.9 1.8 45 106-151 1-47 (48)
84 KOG0827 Predicted E3 ubiquitin 93.2 0.0058 1.3E-07 58.8 -4.2 50 103-153 196-246 (465)
85 KOG2114 Vacuolar assembly/sort 93.1 0.043 9.2E-07 57.7 1.5 41 104-150 841-881 (933)
86 KOG2932 E3 ubiquitin ligase in 92.9 0.042 9.1E-07 51.7 1.0 43 104-151 91-133 (389)
87 PF10272 Tmpp129: Putative tra 92.7 0.15 3.2E-06 49.4 4.5 25 128-152 314-351 (358)
88 PF14447 Prok-RING_4: Prokaryo 92.1 0.1 2.2E-06 36.9 1.9 44 105-154 9-52 (55)
89 COG5236 Uncharacterized conser 91.5 0.23 5.1E-06 47.5 4.1 64 83-152 43-108 (493)
90 KOG0309 Conserved WD40 repeat- 90.6 0.12 2.6E-06 53.8 1.5 23 124-146 1047-1069(1081)
91 KOG1940 Zn-finger protein [Gen 90.6 0.12 2.7E-06 48.1 1.4 47 102-149 157-204 (276)
92 KOG1001 Helicase-like transcri 89.9 0.11 2.3E-06 54.4 0.5 44 104-152 455-500 (674)
93 KOG1100 Predicted E3 ubiquitin 88.9 0.3 6.5E-06 43.8 2.5 39 106-152 161-200 (207)
94 PF12273 RCR: Chitin synthesis 87.8 0.45 9.8E-06 39.2 2.7 10 26-35 4-13 (130)
95 KOG0298 DEAD box-containing he 87.7 0.15 3.2E-06 56.0 -0.3 45 103-150 1153-1197(1394)
96 KOG3161 Predicted E3 ubiquitin 87.2 0.15 3.3E-06 52.2 -0.5 45 103-150 11-55 (861)
97 PF03869 Arc: Arc-like DNA bin 86.8 0.37 8E-06 33.4 1.3 18 238-255 3-20 (50)
98 PF07800 DUF1644: Protein of u 86.1 0.76 1.6E-05 39.4 3.2 37 103-139 2-47 (162)
99 PF14446 Prok-RING_1: Prokaryo 85.7 0.72 1.6E-05 32.5 2.4 40 103-146 5-44 (54)
100 KOG3800 Predicted E3 ubiquitin 85.6 0.61 1.3E-05 43.7 2.5 48 105-152 2-51 (300)
101 KOG1609 Protein involved in mR 85.2 0.4 8.6E-06 44.6 1.2 50 103-153 78-135 (323)
102 PF03854 zf-P11: P-11 zinc fin 84.7 0.45 9.8E-06 32.7 1.0 42 105-152 4-46 (50)
103 KOG3002 Zn finger protein [Gen 84.6 0.69 1.5E-05 43.8 2.5 43 102-152 47-91 (299)
104 COG5175 MOT2 Transcriptional r 84.3 0.6 1.3E-05 44.7 1.9 52 102-153 13-65 (480)
105 KOG1812 Predicted E3 ubiquitin 83.9 0.41 8.8E-06 46.8 0.7 38 102-140 145-183 (384)
106 KOG3053 Uncharacterized conser 83.2 0.4 8.7E-06 44.1 0.3 50 102-152 19-82 (293)
107 KOG2034 Vacuolar sorting prote 83.1 0.52 1.1E-05 50.1 1.1 35 102-138 816-850 (911)
108 KOG0825 PHD Zn-finger protein 81.2 0.79 1.7E-05 48.2 1.5 51 102-152 95-154 (1134)
109 COG5183 SSM4 Protein involved 80.7 1 2.2E-05 47.6 2.1 56 103-159 12-73 (1175)
110 KOG1829 Uncharacterized conser 80.6 0.56 1.2E-05 48.0 0.3 42 102-147 510-556 (580)
111 KOG2817 Predicted E3 ubiquitin 80.4 1.4 3E-05 43.0 2.8 45 102-147 333-380 (394)
112 COG5220 TFB3 Cdk activating ki 80.2 0.84 1.8E-05 41.8 1.2 48 102-149 9-61 (314)
113 KOG3899 Uncharacterized conser 79.8 0.84 1.8E-05 42.9 1.1 29 125-153 325-366 (381)
114 KOG0802 E3 ubiquitin ligase [P 79.7 1.3 2.8E-05 45.2 2.6 45 101-153 477-521 (543)
115 smart00132 LIM Zinc-binding do 78.4 2.4 5.2E-05 26.3 2.7 37 106-152 2-38 (39)
116 KOG4362 Transcriptional regula 77.2 0.59 1.3E-05 48.6 -0.8 46 103-152 21-69 (684)
117 PF02891 zf-MIZ: MIZ/SP-RING z 76.9 0.82 1.8E-05 31.6 0.1 43 104-150 3-50 (50)
118 PF13901 DUF4206: Domain of un 76.8 1.7 3.8E-05 38.6 2.2 41 102-148 151-196 (202)
119 PF02439 Adeno_E3_CR2: Adenovi 74.0 8.2 0.00018 25.2 4.2 25 22-46 5-29 (38)
120 KOG0269 WD40 repeat-containing 73.9 2.2 4.9E-05 44.7 2.4 41 104-146 780-820 (839)
121 KOG4718 Non-SMC (structural ma 73.3 1.8 3.9E-05 38.9 1.3 45 104-151 182-226 (235)
122 PF05290 Baculo_IE-1: Baculovi 72.7 3 6.5E-05 34.8 2.4 51 103-153 80-133 (140)
123 smart00249 PHD PHD zinc finger 72.4 2.2 4.8E-05 27.4 1.3 30 106-136 2-31 (47)
124 PF00628 PHD: PHD-finger; Int 71.2 3.1 6.7E-05 28.1 1.9 42 106-148 2-49 (51)
125 TIGR00622 ssl1 transcription f 70.8 5.6 0.00012 32.3 3.5 69 79-148 32-110 (112)
126 KOG3113 Uncharacterized conser 68.5 5.4 0.00012 36.9 3.3 49 102-152 110-158 (293)
127 PF02060 ISK_Channel: Slow vol 68.1 10 0.00023 31.3 4.6 30 18-47 40-69 (129)
128 PHA02849 putative transmembran 67.8 9.6 0.00021 28.9 3.9 27 23-49 16-42 (82)
129 PF10571 UPF0547: Uncharacteri 65.9 2.8 6.2E-05 25.0 0.7 23 105-129 2-24 (26)
130 PHA01513 mnt Mnt 64.9 3.8 8.3E-05 31.4 1.4 18 238-255 4-21 (82)
131 PF07975 C1_4: TFIIH C1-like d 64.6 4.6 0.0001 28.1 1.6 42 106-148 2-50 (51)
132 PF00412 LIM: LIM domain; Int 64.4 8.5 0.00019 26.3 3.1 38 106-153 1-38 (58)
133 KOG3842 Adaptor protein Pellin 63.7 6.5 0.00014 37.5 2.9 52 102-154 340-416 (429)
134 KOG3005 GIY-YIG type nuclease 63.6 3.1 6.7E-05 38.7 0.8 49 104-152 183-243 (276)
135 PF01102 Glycophorin_A: Glycop 62.6 17 0.00037 30.0 4.9 22 23-45 67-88 (122)
136 KOG2807 RNA polymerase II tran 62.6 7 0.00015 37.4 3.0 69 78-148 306-374 (378)
137 PHA02657 hypothetical protein; 62.3 13 0.00027 28.8 3.7 25 24-48 27-51 (95)
138 KOG1815 Predicted E3 ubiquitin 62.1 3.8 8.1E-05 40.8 1.2 36 102-140 69-104 (444)
139 PF06906 DUF1272: Protein of u 61.3 14 0.00031 26.3 3.6 44 104-152 6-52 (57)
140 KOG3579 Predicted E3 ubiquitin 60.1 5.1 0.00011 37.6 1.6 41 102-142 267-307 (352)
141 PF05393 Hum_adeno_E3A: Human 57.8 9 0.00019 29.7 2.3 33 19-51 27-59 (94)
142 PF15050 SCIMP: SCIMP protein 57.1 15 0.00033 30.1 3.7 28 19-46 4-32 (133)
143 PHA02819 hypothetical protein; 54.8 36 0.00079 25.3 5.0 22 23-44 46-67 (71)
144 KOG4367 Predicted Zn-finger pr 54.5 5.2 0.00011 39.7 0.7 33 102-138 3-35 (699)
145 KOG2066 Vacuolar assembly/sort 53.9 6 0.00013 41.9 1.1 43 103-147 784-830 (846)
146 PF01363 FYVE: FYVE zinc finge 53.0 9.6 0.00021 27.4 1.8 35 103-137 9-43 (69)
147 PF15106 TMEM156: TMEM156 prot 51.1 26 0.00056 31.6 4.4 41 19-60 170-211 (226)
148 KOG2068 MOT2 transcription fac 50.2 15 0.00032 35.2 3.0 49 104-152 250-298 (327)
149 KOG0824 Predicted E3 ubiquitin 49.7 9.4 0.0002 36.1 1.6 49 102-153 104-152 (324)
150 PF11057 Cortexin: Cortexin of 49.4 27 0.00058 26.4 3.6 12 1-12 1-12 (81)
151 PHA02844 putative transmembran 49.3 50 0.0011 24.8 5.0 21 24-44 49-69 (75)
152 PF13717 zinc_ribbon_4: zinc-r 48.1 9.9 0.00021 24.3 1.0 26 104-130 3-36 (36)
153 KOG1812 Predicted E3 ubiquitin 47.8 10 0.00022 37.2 1.5 70 78-147 280-351 (384)
154 PF12606 RELT: Tumour necrosis 47.0 18 0.00039 25.1 2.2 17 30-46 6-22 (50)
155 PF13908 Shisa: Wnt and FGF in 46.7 9.8 0.00021 32.9 1.1 22 24-45 79-100 (179)
156 PF07649 C1_3: C1-like domain; 45.5 13 0.00028 22.5 1.2 29 105-134 2-30 (30)
157 PHA03054 IMV membrane protein; 45.5 65 0.0014 24.0 5.0 21 24-44 49-69 (72)
158 PHA02650 hypothetical protein; 45.3 62 0.0013 24.6 5.0 16 29-44 55-70 (81)
159 KOG2041 WD40 repeat protein [G 45.2 15 0.00032 38.9 2.3 46 102-151 1130-1184(1189)
160 PF06844 DUF1244: Protein of u 45.2 11 0.00025 27.6 1.1 12 128-139 11-22 (68)
161 KOG2979 Protein involved in DN 45.2 11 0.00025 34.8 1.3 46 102-150 175-222 (262)
162 PF13719 zinc_ribbon_5: zinc-r 45.0 14 0.00029 23.7 1.3 25 105-130 4-36 (37)
163 PF15179 Myc_target_1: Myc tar 44.5 67 0.0015 28.4 5.9 38 15-52 13-50 (197)
164 PF04710 Pellino: Pellino; In 43.9 8.7 0.00019 37.7 0.4 46 102-150 276-337 (416)
165 KOG1245 Chromatin remodeling c 43.6 8.9 0.00019 43.6 0.5 50 102-152 1107-1160(1404)
166 PF04216 FdhE: Protein involve 42.5 5.4 0.00012 37.3 -1.2 45 104-148 173-218 (290)
167 KOG4185 Predicted E3 ubiquitin 41.6 5 0.00011 37.3 -1.6 49 103-151 207-266 (296)
168 PHA03240 envelope glycoprotein 41.5 26 0.00056 31.8 2.9 32 23-60 214-245 (258)
169 PF00737 PsbH: Photosystem II 41.4 51 0.0011 23.1 3.7 22 15-36 19-40 (52)
170 COG5627 MMS21 DNA repair prote 40.5 14 0.00029 34.0 1.0 42 102-146 188-231 (275)
171 COG5109 Uncharacterized conser 39.7 19 0.00042 34.4 2.0 44 103-147 336-382 (396)
172 cd00350 rubredoxin_like Rubred 39.6 22 0.00047 22.1 1.6 19 125-149 7-25 (33)
173 PF04710 Pellino: Pellino; In 39.6 9.8 0.00021 37.3 0.0 50 103-153 328-402 (416)
174 cd00065 FYVE FYVE domain; Zinc 39.5 19 0.00041 24.7 1.5 34 104-137 3-36 (57)
175 PF02009 Rifin_STEVOR: Rifin/s 39.5 38 0.00083 32.1 4.0 23 24-46 257-279 (299)
176 PHA02975 hypothetical protein; 39.1 86 0.0019 23.2 4.8 15 30-44 51-65 (69)
177 PF12877 DUF3827: Domain of un 37.4 26 0.00055 36.6 2.6 26 23-48 269-294 (684)
178 PF01402 RHH_1: Ribbon-helix-h 37.1 12 0.00027 23.6 0.2 14 241-254 1-14 (39)
179 PHA02692 hypothetical protein; 35.7 1.1E+02 0.0023 22.8 4.9 15 30-44 53-67 (70)
180 KOG3039 Uncharacterized conser 35.6 23 0.0005 32.7 1.8 31 104-138 44-74 (303)
181 PF09723 Zn-ribbon_8: Zinc rib 35.5 12 0.00027 24.6 0.0 25 124-149 10-34 (42)
182 PF15183 MRAP: Melanocortin-2 35.3 40 0.00087 26.0 2.7 23 23-45 38-60 (90)
183 PF10497 zf-4CXXC_R1: Zinc-fin 35.0 42 0.00091 26.7 3.0 48 103-151 7-71 (105)
184 smart00647 IBR In Between Ring 34.9 16 0.00034 25.4 0.5 16 122-137 43-58 (64)
185 smart00064 FYVE Protein presen 34.5 28 0.0006 24.8 1.8 36 103-138 10-45 (68)
186 PF02038 ATP1G1_PLM_MAT8: ATP1 34.2 24 0.00052 24.5 1.2 33 15-47 6-38 (50)
187 PF04423 Rad50_zn_hook: Rad50 34.2 13 0.00027 25.8 -0.1 10 143-152 22-31 (54)
188 PF06676 DUF1178: Protein of u 34.1 14 0.00031 31.4 0.1 21 125-150 10-41 (148)
189 PF12606 RELT: Tumour necrosis 34.1 46 0.00099 23.1 2.6 25 24-48 3-27 (50)
190 PF02009 Rifin_STEVOR: Rifin/s 33.8 42 0.00091 31.9 3.2 30 17-46 253-282 (299)
191 PF14311 DUF4379: Domain of un 33.6 28 0.0006 24.1 1.6 23 124-147 33-55 (55)
192 PF13771 zf-HC5HC2H: PHD-like 32.6 30 0.00064 26.0 1.7 33 102-136 35-68 (90)
193 KOG0860 Synaptobrevin/VAMP-lik 31.8 58 0.0013 26.6 3.3 12 24-35 95-106 (116)
194 PF13832 zf-HC5HC2H_2: PHD-zin 31.7 24 0.00052 27.7 1.1 33 102-136 54-87 (110)
195 PF05534 HicB: HicB family; I 31.6 30 0.00065 23.9 1.4 16 240-255 18-33 (51)
196 PF07438 DUF1514: Protein of u 31.3 46 0.001 24.3 2.4 16 23-38 1-16 (66)
197 COG3813 Uncharacterized protei 31.1 48 0.001 24.9 2.5 46 105-152 7-52 (84)
198 PF07191 zinc-ribbons_6: zinc- 30.6 22 0.00047 26.5 0.6 40 104-152 2-41 (70)
199 PLN02189 cellulose synthase 30.4 49 0.0011 36.6 3.4 51 102-152 33-87 (1040)
200 PRK03564 formate dehydrogenase 30.3 25 0.00055 33.5 1.1 46 103-149 187-234 (309)
201 PF14575 EphA2_TM: Ephrin type 30.2 48 0.001 24.7 2.4 18 25-42 2-19 (75)
202 PF14654 Epiglycanin_C: Mucin, 30.0 1.4E+02 0.0031 23.7 5.1 13 26-38 21-33 (106)
203 PLN00055 photosystem II reacti 30.0 1.2E+02 0.0026 22.7 4.4 22 14-35 33-54 (73)
204 PHA00617 ribbon-helix-helix do 29.9 33 0.00073 26.1 1.5 36 228-263 28-66 (80)
205 PRK05978 hypothetical protein; 29.7 33 0.00071 29.2 1.6 25 126-155 42-66 (148)
206 PF01286 XPA_N: XPA protein N- 29.6 14 0.00031 23.6 -0.5 21 125-149 9-29 (34)
207 PF05605 zf-Di19: Drought indu 29.3 12 0.00026 25.9 -1.0 38 103-149 2-39 (54)
208 PF06750 DiS_P_DiS: Bacterial 29.2 55 0.0012 25.4 2.7 36 104-152 34-69 (92)
209 CHL00066 psbH photosystem II p 28.9 1.3E+02 0.0028 22.6 4.4 21 15-35 34-54 (73)
210 PF05624 LSR: Lipolysis stimul 28.8 34 0.00074 23.3 1.3 19 29-47 8-26 (49)
211 PRK14475 F0F1 ATP synthase sub 28.3 1.2E+02 0.0025 25.9 4.8 7 29-35 16-22 (167)
212 PRK11875 psbT photosystem II r 28.0 85 0.0018 19.6 2.8 19 26-44 5-23 (31)
213 PF15102 TMEM154: TMEM154 prot 27.9 28 0.00061 29.6 0.9 7 134-140 130-136 (146)
214 PF13807 GNVR: G-rich domain o 27.9 1.3E+02 0.0029 22.2 4.6 14 31-44 66-79 (82)
215 PRK02624 psbH photosystem II r 27.8 1.2E+02 0.0025 22.1 3.9 22 14-35 21-42 (64)
216 PF08374 Protocadherin: Protoc 26.5 77 0.0017 28.7 3.5 12 37-48 53-64 (221)
217 PF12729 4HB_MCP_1: Four helix 26.1 83 0.0018 25.4 3.5 25 23-47 8-32 (181)
218 TIGR01562 FdhE formate dehydro 26.1 24 0.00053 33.5 0.3 45 104-149 185-232 (305)
219 KOG4577 Transcription factor L 25.4 19 0.0004 34.0 -0.6 42 102-153 91-132 (383)
220 PF04277 OAD_gamma: Oxaloaceta 25.3 1.1E+02 0.0024 22.4 3.7 22 23-44 8-29 (79)
221 TIGR03068 srtB_sig_NPQTN sorta 25.2 1.5E+02 0.0033 18.7 3.5 12 21-32 8-19 (33)
222 KOG1729 FYVE finger containing 25.0 14 0.0003 34.9 -1.6 38 104-142 215-252 (288)
223 PRK11677 hypothetical protein; 25.0 83 0.0018 26.3 3.2 20 24-43 3-22 (134)
224 PF14979 TMEM52: Transmembrane 24.9 1.5E+02 0.0032 25.3 4.6 12 37-48 35-46 (154)
225 PF13179 DUF4006: Family of un 24.7 1.4E+02 0.003 22.0 3.9 22 23-44 16-37 (66)
226 PF04906 Tweety: Tweety; Inte 24.5 84 0.0018 31.0 3.7 18 7-24 4-21 (406)
227 PF02318 FYVE_2: FYVE-type zin 24.2 64 0.0014 26.0 2.4 46 102-149 53-102 (118)
228 PRK09174 F0F1 ATP synthase sub 24.0 1.1E+02 0.0024 27.2 4.1 12 24-35 56-67 (204)
229 PF09943 DUF2175: Uncharacteri 23.9 58 0.0012 26.0 1.9 31 105-137 4-34 (101)
230 PF01708 Gemini_mov: Geminivir 23.7 1.2E+02 0.0025 23.8 3.5 23 26-48 41-63 (91)
231 TIGR01477 RIFIN variant surfac 23.7 94 0.002 30.2 3.7 25 23-47 310-334 (353)
232 CHL00186 psaI photosystem I su 23.7 1.7E+02 0.0038 18.9 3.7 28 18-45 4-31 (36)
233 COG3905 Predicted transcriptio 23.5 37 0.00081 26.1 0.8 25 241-265 4-31 (83)
234 PLN02436 cellulose synthase A 23.5 78 0.0017 35.2 3.4 51 102-152 35-89 (1094)
235 PHA02662 ORF131 putative membr 23.4 93 0.002 28.3 3.4 24 20-43 184-208 (226)
236 PRK11827 hypothetical protein; 23.2 37 0.00079 24.5 0.7 20 135-154 2-21 (60)
237 KOG1815 Predicted E3 ubiquitin 23.2 30 0.00065 34.4 0.3 38 103-140 226-267 (444)
238 PTZ00046 rifin; Provisional 23.0 92 0.002 30.4 3.5 25 23-47 315-339 (358)
239 CHL00031 psbT photosystem II p 22.9 87 0.0019 19.8 2.2 18 27-44 6-23 (33)
240 PF10857 DUF2701: Protein of u 22.7 31 0.00067 25.0 0.2 19 30-48 4-22 (63)
241 PRK11877 psaI photosystem I re 22.6 1.6E+02 0.0034 19.3 3.4 28 18-45 8-35 (38)
242 COG3492 Uncharacterized protei 22.4 37 0.00079 26.6 0.5 13 128-140 42-54 (104)
243 PF00130 C1_1: Phorbol esters/ 22.3 77 0.0017 21.2 2.2 34 102-136 10-45 (53)
244 PLN02638 cellulose synthase A 22.2 89 0.0019 34.7 3.6 51 102-152 16-70 (1079)
245 PF15069 FAM163: FAM163 family 22.1 38 0.00083 28.6 0.7 7 141-147 91-97 (143)
246 KOG2071 mRNA cleavage and poly 22.1 50 0.0011 34.1 1.6 34 102-137 512-556 (579)
247 PF01102 Glycophorin_A: Glycop 21.8 1.3E+02 0.0027 24.8 3.6 26 23-48 63-88 (122)
248 PF07423 DUF1510: Protein of u 21.5 71 0.0015 28.9 2.3 10 224-233 136-145 (217)
249 TIGR03052 PS_I_psaI photosyste 21.4 1.1E+02 0.0025 19.1 2.5 25 20-44 3-27 (31)
250 PF03107 C1_2: C1 domain; Int 21.4 86 0.0019 18.9 2.0 29 105-134 2-30 (30)
251 PF05510 Sarcoglycan_2: Sarcog 21.3 1E+02 0.0022 30.4 3.5 29 23-51 285-313 (386)
252 COG1592 Rubrerythrin [Energy p 21.3 40 0.00086 29.3 0.6 24 120-150 135-158 (166)
253 smart00531 TFIIE Transcription 21.2 74 0.0016 26.6 2.3 39 102-154 98-136 (147)
254 PF01405 PsbT: Photosystem II 20.9 1.2E+02 0.0025 18.7 2.4 18 27-44 6-23 (29)
255 PF14991 MLANA: Protein melan- 20.7 21 0.00047 29.0 -1.1 23 25-47 27-49 (118)
256 PRK04023 DNA polymerase II lar 20.7 66 0.0014 35.5 2.2 47 102-154 625-676 (1121)
257 PHA03164 hypothetical protein; 20.6 1.2E+02 0.0025 23.1 2.9 18 23-40 60-77 (88)
258 PF12575 DUF3753: Protein of u 20.5 1.2E+02 0.0026 22.7 2.9 12 32-43 57-68 (72)
259 KOG2231 Predicted E3 ubiquitin 20.4 76 0.0016 33.5 2.5 46 105-154 2-54 (669)
260 KOG4430 Topoisomerase I-bindin 20.4 36 0.00078 34.9 0.2 52 102-153 259-310 (553)
261 PF06667 PspB: Phage shock pro 20.3 3E+02 0.0064 20.7 5.0 11 76-86 34-44 (75)
262 COG4847 Uncharacterized protei 20.1 91 0.002 24.7 2.3 33 104-138 7-39 (103)
263 PHA02831 EEV host range protei 20.1 95 0.0021 29.0 2.9 16 32-47 240-255 (268)
264 PF08999 SP_C-Propep: Surfacta 20.1 1.5E+02 0.0034 22.7 3.5 12 29-40 43-54 (93)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=2.4e-18 Score=162.26 Aligned_cols=79 Identities=37% Similarity=0.789 Sum_probs=67.1
Q ss_pred CCCCCHHHHhhCCcccccchhhhhcccCCccccccccccccCceeEEecccCceechhhhHHHHhcCCC-CCCcCcCCCC
Q 047079 75 NPGLHPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKT-CPVCRSDLDL 153 (296)
Q Consensus 75 ~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~t-CP~CR~~~~~ 153 (296)
.+.+.+..+.++|...|....+.... ..|+|||++|..++.+|.|| |+|.||..|||+||..+.+ ||+|++++..
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 35788999999999999876654332 68999999999999999999 9999999999999987755 9999998865
Q ss_pred CCCC
Q 047079 154 PQNS 157 (296)
Q Consensus 154 ~~~~ 157 (296)
+...
T Consensus 280 ~~~~ 283 (348)
T KOG4628|consen 280 DSGS 283 (348)
T ss_pred CCCC
Confidence 5443
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=99.52 E-value=4.4e-15 Score=100.47 Aligned_cols=43 Identities=56% Similarity=1.244 Sum_probs=40.2
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
+|+||++.|..++.+..++ |+|+||.+||..|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999999988899998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.37 E-value=4.4e-13 Score=121.56 Aligned_cols=76 Identities=33% Similarity=0.703 Sum_probs=59.1
Q ss_pred CCCCHHHHhhCCcccccchhhhhcccCCccccccccccccCce----eEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 76 PGLHPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNI----LRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 76 ~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~----~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
.+..+..++.+|.+...-.... ....+.+|+||++.+.++.. +..++.|+|.||..||..|++.+.+||+||..+
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~-~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLY-NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhh-cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 4668889999999875543222 22346799999999876542 345556999999999999999999999999887
Q ss_pred C
Q 047079 152 D 152 (296)
Q Consensus 152 ~ 152 (296)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.30 E-value=1.1e-12 Score=98.53 Aligned_cols=46 Identities=41% Similarity=0.895 Sum_probs=36.1
Q ss_pred CCccccccccccccC----------ceeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 102 YGLECAICLAEFEDD----------NILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~----------~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
.+..|+||++.|.+. -.+... .|+|.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345699999999432 234444 4999999999999999999999998
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=1.1e-11 Score=116.76 Aligned_cols=68 Identities=31% Similarity=0.725 Sum_probs=50.4
Q ss_pred HHHHhhCCcccccchhhhhcccCCccccccccc-cccC---------ceeEEecccCceechhhhHHHHhcCCCCCCcCc
Q 047079 80 PSLIQAFPAFAYSTVKDFRRQKYGLECAICLAE-FEDD---------NILRLLTVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 80 ~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
++.-+.+|+..-.+ ..+++..|+||+++ |+.+ ...+.|| |||+||.+|++.|+++++|||+||.
T Consensus 269 kdl~~~~~t~t~eq-----l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~ 342 (491)
T COG5243 269 KDLNAMYPTATEEQ-----LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRR 342 (491)
T ss_pred hHHHhhcchhhhhh-----hcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccC
Confidence 33444455554332 24467899999999 5544 2345788 9999999999999999999999999
Q ss_pred CCCC
Q 047079 150 DLDL 153 (296)
Q Consensus 150 ~~~~ 153 (296)
++..
T Consensus 343 p~if 346 (491)
T COG5243 343 PVIF 346 (491)
T ss_pred cccc
Confidence 9543
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.3e-12 Score=118.52 Aligned_cols=51 Identities=45% Similarity=1.045 Sum_probs=46.8
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHh-cCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-SHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~~~ 153 (296)
.+.+|+|||+.|...+.++.|| |.|.||..||++|+. -+..||+||.++.+
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 5689999999999999999999 999999999999998 56679999999865
No 7
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.96 E-value=4.9e-10 Score=74.13 Aligned_cols=44 Identities=55% Similarity=1.216 Sum_probs=36.1
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhc-CCCCCCcCcCC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-HKTCPVCRSDL 151 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~~ 151 (296)
+|+||++.+. +.+.+.+ |+|.||..|+..|++. ...||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999983 3344444 9999999999999997 77899998754
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.92 E-value=8.3e-10 Score=72.68 Aligned_cols=39 Identities=46% Similarity=1.087 Sum_probs=32.5
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~C 147 (296)
|+||++.+.++ +..++ |||+||..||.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998873 44565 99999999999999998899998
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.92 E-value=7e-10 Score=97.27 Aligned_cols=48 Identities=35% Similarity=0.825 Sum_probs=39.4
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc----------------CCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES----------------HKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~----------------~~tCP~CR~~~~~ 153 (296)
+..+|+||++.+.++. +++ |||+||..||..|+.. ...||+||..+..
T Consensus 17 ~~~~CpICld~~~dPV---vT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQVRDPV---VTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcCCCcE---EcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 5689999999987763 344 9999999999999852 3479999999864
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=98.91 E-value=1e-09 Score=76.15 Aligned_cols=46 Identities=39% Similarity=0.937 Sum_probs=38.1
Q ss_pred CccccccccccccCceeEEecccCce-echhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHV-FHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
+..|.||++...+ +.++| |||. ||..|+..|++....||+||+++.
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 3579999998543 55667 9999 999999999999999999999874
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=9.2e-10 Score=94.63 Aligned_cols=51 Identities=31% Similarity=0.681 Sum_probs=43.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
....|+|||+.|++...+. .+|||+||..||..-++....||+||+.++.+
T Consensus 130 ~~~~CPiCl~~~sek~~vs--TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVS--TKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhccccc--cccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 4578999999998876542 35999999999999999999999999988643
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.84 E-value=1.6e-09 Score=83.06 Aligned_cols=50 Identities=32% Similarity=0.759 Sum_probs=38.7
Q ss_pred Ccccccccccccc--------Cc-eeEEecccCceechhhhHHHHhc---CCCCCCcCcCCC
Q 047079 103 GLECAICLAEFED--------DN-ILRLLTVCYHVFHQECIDLWLES---HKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~--------~~-~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~~~ 152 (296)
+..|.||...|+. ++ -..++..|+|.||..||.+||.+ +..||+||+...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 5789999999883 11 12234469999999999999985 467999998764
No 13
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=1.9e-09 Score=98.97 Aligned_cols=49 Identities=27% Similarity=0.714 Sum_probs=42.3
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
....|.+||+..+++. .+| |||+||..||..|+..+..||+||..+.+.
T Consensus 238 a~~kC~LCLe~~~~pS---aTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPS---ATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCCCCC---cCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 4478999999987764 455 999999999999999999999999988653
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.80 E-value=2.3e-09 Score=95.34 Aligned_cols=51 Identities=31% Similarity=0.854 Sum_probs=40.1
Q ss_pred CCccccccccccccC-----ceeEEecccCceechhhhHHHHhcC------CCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDD-----NILRLLTVCYHVFHQECIDLWLESH------KTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~-----~~~r~lp~C~H~Fh~~CI~~Wl~~~------~tCP~CR~~~~ 152 (296)
.+.+|+|||+...+. ....+|+.|+|.||..||..|...+ .+||+||..+.
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 457999999987443 1234677799999999999999753 35999998775
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=4.6e-09 Score=93.86 Aligned_cols=51 Identities=31% Similarity=0.791 Sum_probs=40.8
Q ss_pred ccCCccccccccccccCceeEEecccCceechhhhHHHHhc---CCCCCCcCcCCCCC
Q 047079 100 QKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES---HKTCPVCRSDLDLP 154 (296)
Q Consensus 100 ~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~~~~~ 154 (296)
.....+|.|||+.-+++... . |||.||..||.+||.. .+.||+|+..+...
T Consensus 44 ~~~~FdCNICLd~akdPVvT---l-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVT---L-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCCCEEe---e-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 44678999999997776432 2 9999999999999975 34599999988643
No 16
>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=98.75 E-value=5.3e-09 Score=69.20 Aligned_cols=39 Identities=49% Similarity=1.161 Sum_probs=33.5
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHh--cCCCCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE--SHKTCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~--~~~tCP~C 147 (296)
|+||++.+.++. .+++ |+|.||..||..|++ ....||+|
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 899999988775 4555 999999999999998 55679998
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=3.1e-09 Score=107.49 Aligned_cols=52 Identities=37% Similarity=0.804 Sum_probs=45.3
Q ss_pred CCccccccccccccCce--eEEecccCceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNI--LRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~--~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
.+..|+||++++..+.. .+.|| |+|+||..|+..|+++.++||.||..+...
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 46789999999998754 66787 999999999999999999999999965543
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.73 E-value=6.7e-09 Score=70.19 Aligned_cols=44 Identities=30% Similarity=0.883 Sum_probs=37.8
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCc
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
.|.||++.|.+....++++ |||+||..||..+......||+||+
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 4999999996566677776 9999999999999867778999985
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.70 E-value=7.2e-09 Score=69.54 Aligned_cols=38 Identities=37% Similarity=0.885 Sum_probs=29.2
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHhcC----CCCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESH----KTCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~----~tCP~C 147 (296)
|+||++.|.++..+ + |||+|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l---~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL---P-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE----S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc---C-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998654 3 99999999999999753 469988
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.67 E-value=1e-08 Score=76.97 Aligned_cols=50 Identities=36% Similarity=0.733 Sum_probs=38.6
Q ss_pred cccccccccccc------------CceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 104 LECAICLAEFED------------DNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 104 ~~C~ICl~~~~~------------~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
+.|+||...|.+ ++-...-..|.|.||..||.+||.++..||+||+....
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 568888877753 22222333599999999999999999999999988754
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.66 E-value=1.7e-08 Score=64.40 Aligned_cols=38 Identities=45% Similarity=1.117 Sum_probs=31.8
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHh-cCCCCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-SHKTCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~C 147 (296)
|+||++.. .....++ |+|.||..|++.|+. ....||+|
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 3455666 999999999999998 66779988
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.65 E-value=2.1e-08 Score=72.15 Aligned_cols=45 Identities=31% Similarity=0.544 Sum_probs=39.6
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..|+||++.+.++. +++ |||+|+..||.+|++.+.+||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~Pv---~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPV---ILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCE---ECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 57999999999873 345 9999999999999999999999998874
No 23
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=4.2e-08 Score=89.36 Aligned_cols=54 Identities=33% Similarity=0.716 Sum_probs=44.6
Q ss_pred ccCCccccccccccccCc-------eeEEecccCceechhhhHHHH--hcCCCCCCcCcCCCCC
Q 047079 100 QKYGLECAICLAEFEDDN-------ILRLLTVCYHVFHQECIDLWL--ESHKTCPVCRSDLDLP 154 (296)
Q Consensus 100 ~~~~~~C~ICl~~~~~~~-------~~r~lp~C~H~Fh~~CI~~Wl--~~~~tCP~CR~~~~~~ 154 (296)
..++..|+||-..+...+ .+-.|. |+|+||..||.-|. .++++||.|+..++..
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 336779999999987665 566776 99999999999996 5788999998888653
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.45 E-value=1e-07 Score=92.51 Aligned_cols=48 Identities=33% Similarity=0.711 Sum_probs=41.6
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
....|+||++.|..+. +++ |+|.||..||..|+.....||+||..+..
T Consensus 25 ~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 4579999999998774 345 99999999999999988899999998764
No 25
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1e-07 Score=74.99 Aligned_cols=50 Identities=32% Similarity=0.697 Sum_probs=38.4
Q ss_pred Ccccccccccccc-------------CceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFED-------------DNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~-------------~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.+.|+||...+-+ ++-+..-..|+|.||..||.+||++++.||+|-++..
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 4679998876542 2223334459999999999999999999999977654
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=8.5e-08 Score=71.52 Aligned_cols=51 Identities=33% Similarity=0.826 Sum_probs=37.8
Q ss_pred CCcccccccccccc---------CceeEEecccCceechhhhHHHHhc---CCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFED---------DNILRLLTVCYHVFHQECIDLWLES---HKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~---------~~~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~CR~~~~ 152 (296)
.+..|-||.-.|.. ++-.-++..|.|.||..||.+|+.. +.-||+||+...
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 44589999988873 2211234459999999999999964 456999998764
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=9.7e-07 Score=86.32 Aligned_cols=52 Identities=35% Similarity=0.904 Sum_probs=38.6
Q ss_pred CCccccccccccccCc----------ee---EEecccCceechhhhHHHHhcCC-CCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDN----------IL---RLLTVCYHVFHQECIDLWLESHK-TCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~----------~~---r~lp~C~H~Fh~~CI~~Wl~~~~-tCP~CR~~~~~ 153 (296)
...+|+||+..+.--. .+ .++.+|.|+||..|+..|....+ .||+||+++.+
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3468999998876311 11 12334999999999999999554 89999999853
No 28
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.26 E-value=6.4e-07 Score=62.08 Aligned_cols=42 Identities=36% Similarity=0.864 Sum_probs=32.1
Q ss_pred cccccccccccCceeEEecccC-----ceechhhhHHHHhc--CCCCCCcC
Q 047079 105 ECAICLAEFEDDNILRLLTVCY-----HVFHQECIDLWLES--HKTCPVCR 148 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~-----H~Fh~~CI~~Wl~~--~~tCP~CR 148 (296)
.|.||++.. +++....+| |. |.+|..|+..|+.. ..+||+|.
T Consensus 1 ~CrIC~~~~-~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-CCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 499999943 344444677 85 99999999999964 44799994
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=5.9e-07 Score=81.87 Aligned_cols=49 Identities=29% Similarity=0.705 Sum_probs=40.3
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHH-HHhcCCC-CCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDL-WLESHKT-CPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~-Wl~~~~t-CP~CR~~~~~~ 154 (296)
.+..|+||++..+.+ ..++ |||+||..||-. |-..+.- ||+||+.+.+.
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 467899999997665 3455 999999999999 9877665 99999988654
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.18 E-value=1.2e-06 Score=59.09 Aligned_cols=38 Identities=32% Similarity=0.784 Sum_probs=22.3
Q ss_pred ccccccccccCc-eeEEecccCceechhhhHHHHhcC----CCCC
Q 047079 106 CAICLAEFEDDN-ILRLLTVCYHVFHQECIDLWLESH----KTCP 145 (296)
Q Consensus 106 C~ICl~~~~~~~-~~r~lp~C~H~Fh~~CI~~Wl~~~----~tCP 145 (296)
|+||++ |..++ .-.+|+ |||+|+.+||.+|+++. ..||
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 86644 446677 99999999999999843 3577
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=9.6e-07 Score=86.90 Aligned_cols=47 Identities=32% Similarity=0.697 Sum_probs=38.2
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhc-----CCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-----HKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-----~~tCP~CR~~~~~ 153 (296)
+..|+|||+....+..+ .|||+||..||-++|.. ...||+||..+.+
T Consensus 186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 67899999997665433 39999999999999864 3469999998875
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.15 E-value=5.8e-07 Score=66.86 Aligned_cols=50 Identities=34% Similarity=0.706 Sum_probs=23.6
Q ss_pred Cccccccccccc-cCce-eEEe--cccCceechhhhHHHHhc----C-------CCCCCcCcCCC
Q 047079 103 GLECAICLAEFE-DDNI-LRLL--TVCYHVFHQECIDLWLES----H-------KTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~-~~~~-~r~l--p~C~H~Fh~~CI~~Wl~~----~-------~tCP~CR~~~~ 152 (296)
+.+|.||+..+. .+.. ..+- +.|++.||..||.+||.. + .+||.|+.++.
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 358999999876 3322 1222 369999999999999963 1 15999998875
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.10 E-value=6e-07 Score=93.19 Aligned_cols=51 Identities=31% Similarity=0.758 Sum_probs=39.1
Q ss_pred CCccccccccccccCc---eeEEecccCceechhhhHHHHhc--CCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDN---ILRLLTVCYHVFHQECIDLWLES--HKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~---~~r~lp~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~~~ 152 (296)
+-.+||||+..+..-+ .-...++|.|.||..|+-+|+++ +.+||+||..+.
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 5679999999887322 11233469999999999999985 567999997764
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=9.5e-07 Score=79.58 Aligned_cols=44 Identities=41% Similarity=0.860 Sum_probs=38.8
Q ss_pred cCCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 101 KYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 101 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
.....|+||++.|.++ .+++ |+|.||..||..|+.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 3568999999999998 5666 999999999999998556799999
No 35
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.05 E-value=2.4e-06 Score=63.90 Aligned_cols=47 Identities=30% Similarity=0.459 Sum_probs=36.3
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhc-CCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-HKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~~~~ 153 (296)
.+.|+||.+.|.++.. ++ |||+|...||..||.. +.+||+|+..+..
T Consensus 4 ~f~CpIt~~lM~dPVi---~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRDPVI---LP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SSEEE---ET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhCcee---CC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 4689999999998853 45 9999999999999998 8899999988863
No 36
>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=98.01 E-value=4e-06 Score=78.69 Aligned_cols=52 Identities=27% Similarity=0.622 Sum_probs=36.7
Q ss_pred CccccccccccccCceeEEe-cccCceechhhhHHHHh-cCCCCCCcCcCCCCC
Q 047079 103 GLECAICLAEFEDDNILRLL-TVCYHVFHQECIDLWLE-SHKTCPVCRSDLDLP 154 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~l-p~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~~~~ 154 (296)
+..|+||...-...-.++++ ..|||.||..||+..+. ....||.|+..+...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 35799999863332222222 24999999999999664 456799999887643
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.95 E-value=3e-06 Score=78.15 Aligned_cols=46 Identities=37% Similarity=0.655 Sum_probs=39.4
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
.-+.|-||-+-|..+ ++..|||.||.-||...|..+..||+||.+.
T Consensus 24 s~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 24 SMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred hHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccH
Confidence 456899998888765 3445999999999999999999999999864
No 38
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=3.2e-06 Score=80.68 Aligned_cols=45 Identities=36% Similarity=0.998 Sum_probs=35.8
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhc---CCCCCCcC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES---HKTCPVCR 148 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~CR 148 (296)
.+|.||.+-+-....+.-+..|||+||..|+.+|++. +.+||+|+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 4799995555555566656569999999999999985 35799998
No 39
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.79 E-value=5.6e-06 Score=77.84 Aligned_cols=47 Identities=30% Similarity=0.665 Sum_probs=40.6
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.-+.|.||.+-|..+. ++| |+|.||.-||..+|..+..||.|+..+.
T Consensus 22 ~lLRC~IC~eyf~ip~---itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPM---ITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhcCce---ecc-ccchHHHHHHHHHhccCCCCCceecccc
Confidence 4478999999998763 334 9999999999999999999999998775
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.76 E-value=9.9e-06 Score=58.87 Aligned_cols=45 Identities=33% Similarity=0.711 Sum_probs=24.1
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
...|++|.+.+..+..+. .|.|+||..||..-+.. -||+|+.+..
T Consensus 7 lLrCs~C~~~l~~pv~l~---~CeH~fCs~Ci~~~~~~--~CPvC~~Paw 51 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLG---GCEHIFCSSCIRDCIGS--ECPVCHTPAW 51 (65)
T ss_dssp TTS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S
T ss_pred hcCCcHHHHHhcCCceec---cCccHHHHHHhHHhcCC--CCCCcCChHH
Confidence 467999999998875443 69999999999886554 3999987764
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.76 E-value=9.9e-06 Score=78.65 Aligned_cols=49 Identities=31% Similarity=0.726 Sum_probs=38.4
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
+...|+|||+-+.....-.+...|.|.||..|+..|. ..+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 4568999999998766322223499999999999995 457999998776
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.73 E-value=5.1e-06 Score=85.05 Aligned_cols=49 Identities=29% Similarity=0.577 Sum_probs=41.7
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
...|++|+..+.++......+ |+|+||..||+.|-+..+|||+||..+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 356889988888776655555 9999999999999999999999998764
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.8e-05 Score=73.82 Aligned_cols=48 Identities=31% Similarity=0.731 Sum_probs=40.2
Q ss_pred cCCccccccccccccCceeEEecccCce-echhhhHHHHhcCCCCCCcCcCCC
Q 047079 101 KYGLECAICLAEFEDDNILRLLTVCYHV-FHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 101 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
+.+.+|.|||.+- ..+.+|| |.|. .|..|.+.---.++.||+||+++.
T Consensus 288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence 3467999999984 3466788 9998 999999987667888999999885
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=2.3e-05 Score=74.87 Aligned_cols=52 Identities=31% Similarity=0.787 Sum_probs=40.8
Q ss_pred CCccccccccccccCc----eeEEecccCceechhhhHHHHh--c-----CCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDN----ILRLLTVCYHVFHQECIDLWLE--S-----HKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~----~~r~lp~C~H~Fh~~CI~~Wl~--~-----~~tCP~CR~~~~~ 153 (296)
.+.+|.||++...+.. ...+||+|.|.||..||+.|=. . ...||.||.....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 4678999999877654 2446788999999999999973 3 4679999987653
No 45
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.53 E-value=4.1e-05 Score=73.49 Aligned_cols=48 Identities=29% Similarity=0.798 Sum_probs=39.0
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhc--CCCCCCcCcCCCCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--HKTCPVCRSDLDLPQ 155 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~~~~~~ 155 (296)
.-|-||-+. +..+++-| |||..|..|+..|-.. .++||.||..+...+
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 469999776 55677777 9999999999999854 578999999886533
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=9.7e-06 Score=76.67 Aligned_cols=49 Identities=31% Similarity=0.628 Sum_probs=40.5
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHh-cCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-SHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~~~ 153 (296)
.++.|+|||+.+..... .+.|.|.||.+||..-++ .+++||-||+.+..
T Consensus 42 ~~v~c~icl~llk~tmt---tkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMT---TKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHhhcc---cHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 56789999999876543 347999999999999987 46789999998864
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.44 E-value=3.1e-05 Score=71.90 Aligned_cols=55 Identities=31% Similarity=0.742 Sum_probs=44.5
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc-----------------------CCCCCCcCcCCCCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-----------------------HKTCPVCRSDLDLPQNS 157 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-----------------------~~tCP~CR~~~~~~~~~ 157 (296)
...+|.|||.-|.+.+....++ |.|+||..|+.++|.- ...||+||..+......
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 3468999999999999888887 9999999999988721 23599999988765443
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=3e-05 Score=54.44 Aligned_cols=47 Identities=30% Similarity=0.617 Sum_probs=34.3
Q ss_pred CCccccccccccccCceeEEecccCce-echhhhHH-HHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHV-FHQECIDL-WLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~-Fh~~CI~~-Wl~~~~tCP~CR~~~~ 152 (296)
.+.+|.||++.-.+. .+. .|||. .|.+|-.+ |-..+..||+||+++.
T Consensus 6 ~~dECTICye~pvds---VlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDS---VLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchH---HHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 347999999874433 223 49997 88899554 5458899999999863
No 49
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00022 Score=63.93 Aligned_cols=57 Identities=30% Similarity=0.749 Sum_probs=46.9
Q ss_pred cccCCccccccccccccCceeEEecccCceechhhhHHHHhc--------CCCCCCcCcCCCCCCCC
Q 047079 99 RQKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--------HKTCPVCRSDLDLPQNS 157 (296)
Q Consensus 99 ~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--------~~tCP~CR~~~~~~~~~ 157 (296)
..+....|..|--.+..++.+|+ .|-|+||.+|+++|-.. ...||.|-.+++++...
T Consensus 46 DsDY~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl 110 (299)
T KOG3970|consen 46 DSDYNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL 110 (299)
T ss_pred hcCCCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence 34466789999999999999986 39999999999999753 23599999999987543
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.23 E-value=0.00012 Score=52.25 Aligned_cols=42 Identities=38% Similarity=0.725 Sum_probs=28.0
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc--CCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--HKTCPV 146 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--~~tCP~ 146 (296)
....|+|.+..|.++..-+ .|+|+|-.+.|.+||++ ...||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~---~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSK---KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEES---SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcC---CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4578999999999885433 49999999999999944 445998
No 51
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00026 Score=68.29 Aligned_cols=48 Identities=33% Similarity=0.882 Sum_probs=36.4
Q ss_pred CccccccccccccCceeE-EecccCceechhhhHHHHhc--CCCCCCcCcC
Q 047079 103 GLECAICLAEFEDDNILR-LLTVCYHVFHQECIDLWLES--HKTCPVCRSD 150 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r-~lp~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~ 150 (296)
+..|+|||+.+......+ ..+.|+|.|...||..||.+ ...||.|...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 468999999998654332 34459999999999999952 2349999654
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.13 E-value=0.00012 Score=70.32 Aligned_cols=47 Identities=34% Similarity=0.815 Sum_probs=39.7
Q ss_pred CCccccccccccc-cCceeEEecccCceechhhhHHHHhcCC--CCCCcCc
Q 047079 102 YGLECAICLAEFE-DDNILRLLTVCYHVFHQECIDLWLESHK--TCPVCRS 149 (296)
Q Consensus 102 ~~~~C~ICl~~~~-~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~--tCP~CR~ 149 (296)
.++-|..|-+.+- .++.+.-|| |.|+||..|+...|.++. +||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4678999998885 456788898 999999999999998654 6999984
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.09 E-value=0.00026 Score=69.19 Aligned_cols=51 Identities=33% Similarity=0.699 Sum_probs=43.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQ 155 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~~ 155 (296)
..+.|++|...+.++... . .|||.||..||..|+..+..||.|+..+....
T Consensus 20 ~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred ccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhh
Confidence 557899999999988654 2 49999999999999999999999998876543
No 54
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00031 Score=65.45 Aligned_cols=47 Identities=36% Similarity=0.617 Sum_probs=37.3
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhc-CCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-HKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~~~~ 153 (296)
..+|+||+....-+ ..|+ |+|.||..||.--.++ ..+|++||.+++.
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 35899999986665 3345 9999999999976654 5569999999864
No 55
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00038 Score=71.73 Aligned_cols=48 Identities=31% Similarity=0.782 Sum_probs=37.3
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHh-cCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-SHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~~~ 153 (296)
+-+.|++|-.-..+-. +++|+|+||..||..-+. ++..||.|-+.+.+
T Consensus 642 ~~LkCs~Cn~R~Kd~v----I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAV----ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhHH----HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 4578999986655432 335999999999999997 45679999887753
No 56
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.00084 Score=65.54 Aligned_cols=48 Identities=31% Similarity=0.722 Sum_probs=41.1
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
.+++|.||+..+..+... | |||.||..||++-+....-||.||..+..
T Consensus 83 sef~c~vc~~~l~~pv~t---p-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVT---P-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCCCccc---c-ccccccHHHHHHHhccCCCCccccccccc
Confidence 568999999998887543 5 99999999999977777779999998864
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.60 E-value=0.00056 Score=64.43 Aligned_cols=49 Identities=29% Similarity=0.655 Sum_probs=41.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
....|.+|-.-|.+...+. .|-|.||..||...|....+||.|...+-.
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 4568999999888876654 599999999999999999999999876643
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.42 E-value=0.0013 Score=65.55 Aligned_cols=48 Identities=35% Similarity=0.718 Sum_probs=38.5
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHh-----cCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-----SHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-----~~~tCP~CR~~~~~ 153 (296)
+..+|.+|-+.-++....+ |.|.||.-||.++.. .+.+||.|...|..
T Consensus 535 ~~~~C~lc~d~aed~i~s~----ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIESS----CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred CceeecccCChhhhhHhhh----hhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 6689999998866654443 999999999999974 35689999887754
No 59
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0086 Score=56.56 Aligned_cols=47 Identities=26% Similarity=0.443 Sum_probs=38.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
....|+||+.....+..+. .-|-+||..||..++.+++.||+=..+.
T Consensus 299 ~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 4568999999988776554 2699999999999999999999865544
No 60
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.16 E-value=0.0019 Score=53.78 Aligned_cols=45 Identities=22% Similarity=0.545 Sum_probs=32.0
Q ss_pred CccccccccccccCceeEEecccC------ceechhhhHHHHhcCCCCCCcC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCY------HVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~------H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
..+|+||++.+...+-+..++ |+ |.||.+|+.+|-+.+..=|.=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR 76 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRERNRDPFNR 76 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence 579999999999833344444 54 8999999999954444444433
No 61
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.12 E-value=0.0038 Score=42.72 Aligned_cols=40 Identities=33% Similarity=0.948 Sum_probs=26.9
Q ss_pred ccccccccccCceeEEecccC-----ceechhhhHHHHh--cCCCCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCY-----HVFHQECIDLWLE--SHKTCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~-----H~Fh~~CI~~Wl~--~~~tCP~C 147 (296)
|-||++.-.++..+. .| |. -..|..|+..|+. ...+|++|
T Consensus 1 CrIC~~~~~~~~~li-~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLI-SP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE--S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCcee-cc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789999877766332 33 63 3789999999997 45669988
No 62
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.03 E-value=0.0024 Score=56.35 Aligned_cols=47 Identities=23% Similarity=0.482 Sum_probs=40.0
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
-.+.|.||-.+|..+... .|||.||..|...-++...+|-+|.+...
T Consensus 195 IPF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 195 IPFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred Cceeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchhhc
Confidence 346899999999988654 39999999999998888999999987653
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.94 E-value=0.0029 Score=54.13 Aligned_cols=28 Identities=32% Similarity=0.820 Sum_probs=26.0
Q ss_pred CccccccccccccCceeEEecccCceech
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQ 131 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~ 131 (296)
.-+|.|||++++.++.+..|| |-.+||+
T Consensus 177 kGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 368999999999999999999 9999996
No 64
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.87 E-value=0.0035 Score=65.40 Aligned_cols=49 Identities=37% Similarity=0.809 Sum_probs=40.3
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcC-------CCCCCcCcC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESH-------KTCPVCRSD 150 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~-------~tCP~CR~~ 150 (296)
...+|.||++.+.....+.--..|-|+||..||..|-.+. -.||.|...
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 5689999999999888777666799999999999998541 249999843
No 65
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.007 Score=55.90 Aligned_cols=48 Identities=23% Similarity=0.488 Sum_probs=36.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc--CCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--HKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~~~ 152 (296)
.+.+|++|-+.=..+-. +. +|+|+||..||..=+.. ..+||.|-.++.
T Consensus 238 ~~~~C~~Cg~~PtiP~~--~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPPTIPHV--IG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCCCCCee--ec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 56899999887555433 33 49999999999987654 478999987765
No 66
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.63 E-value=0.0075 Score=66.03 Aligned_cols=67 Identities=25% Similarity=0.594 Sum_probs=46.1
Q ss_pred hhCCcccccchhhhhcccCCccccccccccccCceeEEecccCceechhhhHHHHhc-----C-----CCCCCcCcCCCC
Q 047079 84 QAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-----H-----KTCPVCRSDLDL 153 (296)
Q Consensus 84 ~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-----~-----~tCP~CR~~~~~ 153 (296)
.-||-+...... .+++.++.|-||.-+--.......|. |+|+||..|...-|++ + ..||+|..++..
T Consensus 3469 ~CLPCl~Cdks~--tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSA--TKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccccccChhh--hhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 446666644322 24557789999987655444455565 9999999999866554 2 269999988754
No 67
>PHA02862 5L protein; Provisional
Probab=95.59 E-value=0.0071 Score=50.89 Aligned_cols=46 Identities=28% Similarity=0.789 Sum_probs=34.0
Q ss_pred CccccccccccccCceeEEeccc-----CceechhhhHHHHhc--CCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVC-----YHVFHQECIDLWLES--HKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C-----~H~Fh~~CI~~Wl~~--~~tCP~CR~~~~~ 153 (296)
+..|-||+++-.++ + -| | ....|.+|+.+|+.. +.+|++|+.+...
T Consensus 2 ~diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 35799999985433 2 23 5 457999999999964 4569999987653
No 68
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0064 Score=58.98 Aligned_cols=49 Identities=24% Similarity=0.618 Sum_probs=39.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc--------CCCCCCcCcCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--------HKTCPVCRSDL 151 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--------~~tCP~CR~~~ 151 (296)
.-..|.||+++..-..-...+| |+|+||..|+..++.. .-.||-|...=
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~ 239 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGS 239 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcc
Confidence 4578999999988778888898 9999999999999853 22588775543
No 69
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=95.57 E-value=0.0069 Score=47.58 Aligned_cols=32 Identities=25% Similarity=0.707 Sum_probs=26.1
Q ss_pred CCccccccccccccCceeEEecccCceechhhhH
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECID 135 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~ 135 (296)
.+..|++|-..+... ...+.| |||+||..|++
T Consensus 77 ~~~~C~vC~k~l~~~-~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS-VFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc-eEEEeC-CCeEEeccccc
Confidence 456799999999874 455667 99999999975
No 70
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.45 E-value=0.0057 Score=56.99 Aligned_cols=46 Identities=24% Similarity=0.501 Sum_probs=39.7
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.+.|-||...|..+.... |+|.||..|.-.-++....|++|-++..
T Consensus 241 Pf~c~icr~~f~~pVvt~----c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTK----CGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Cccccccccccccchhhc----CCceeehhhhccccccCCcceecccccc
Confidence 456999999999986553 9999999999998888899999977664
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.43 E-value=0.013 Score=53.45 Aligned_cols=50 Identities=18% Similarity=0.334 Sum_probs=45.7
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
...|+||.+.+........|.+|||+|+.+|+...+.....||+|-.++.
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 47899999999998888888889999999999999999999999988875
No 72
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.28 E-value=0.0099 Score=56.73 Aligned_cols=47 Identities=26% Similarity=0.413 Sum_probs=38.5
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
++..|+||+.. +......| |+|.-|..||.+.|.+.+.|=.|+..+.
T Consensus 421 Ed~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred ccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence 67789999865 33344556 9999999999999999999999976653
No 73
>PHA03096 p28-like protein; Provisional
Probab=95.25 E-value=0.0079 Score=56.39 Aligned_cols=46 Identities=28% Similarity=0.596 Sum_probs=33.9
Q ss_pred ccccccccccccCc----eeEEecccCceechhhhHHHHhc---CCCCCCcCc
Q 047079 104 LECAICLAEFEDDN----ILRLLTVCYHVFHQECIDLWLES---HKTCPVCRS 149 (296)
Q Consensus 104 ~~C~ICl~~~~~~~----~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~CR~ 149 (296)
..|.||++...... .-..|+.|.|.||..||..|-.. ..+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 57999999876532 34478889999999999999743 234555543
No 74
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.17 E-value=0.014 Score=49.85 Aligned_cols=49 Identities=24% Similarity=0.771 Sum_probs=34.6
Q ss_pred CCccccccccccccCceeEEec-ccCc---eechhhhHHHHhc--CCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLT-VCYH---VFHQECIDLWLES--HKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp-~C~H---~Fh~~CI~~Wl~~--~~tCP~CR~~~~~~ 154 (296)
.+..|-||.++-.+ .. .| .|.. ..|.+|+..|+.. ..+|++|..+....
T Consensus 7 ~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 45689999988432 22 23 2444 5699999999974 45699998876543
No 75
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.86 E-value=0.012 Score=54.96 Aligned_cols=46 Identities=35% Similarity=0.737 Sum_probs=36.9
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHH-hcCCCCCCc-CcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWL-ESHKTCPVC-RSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl-~~~~tCP~C-R~~~~ 152 (296)
+.|+.|...+..+... |-|+|.||.+||..-| ...+.||+| |+++.
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl 322 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSRKDVL 322 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCcccccch
Confidence 7899999988877554 4599999999999765 578889999 44543
No 76
>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=94.80 E-value=0.018 Score=38.72 Aligned_cols=41 Identities=20% Similarity=0.594 Sum_probs=24.0
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHhcCC--CCCCc
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHK--TCPVC 147 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~--tCP~C 147 (296)
|.+|.+....++.-.- +.|+=.+|..|+..+++.+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~-~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSN-RDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCC-CccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6788888777754321 24888999999999998766 79988
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.59 E-value=0.042 Score=50.78 Aligned_cols=51 Identities=24% Similarity=0.502 Sum_probs=41.7
Q ss_pred cCCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 101 KYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 101 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.....|+|...+|........+-+|||+|...+|.+- .....||+|-.++.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 3568999999999766666666669999999999996 33567999988886
No 78
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.53 E-value=0.028 Score=52.52 Aligned_cols=49 Identities=33% Similarity=0.798 Sum_probs=38.7
Q ss_pred ccccccccccccCc---eeEEecccCceechhhhHHHHhc-CCCCCCcCcCCCC
Q 047079 104 LECAICLAEFEDDN---ILRLLTVCYHVFHQECIDLWLES-HKTCPVCRSDLDL 153 (296)
Q Consensus 104 ~~C~ICl~~~~~~~---~~r~lp~C~H~Fh~~CI~~Wl~~-~~tCP~CR~~~~~ 153 (296)
.+|-||-++|+..+ ..+.|. |||.|+..|+..-+.. ...||.||.....
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~ 56 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETTEI 56 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcccC
Confidence 57999999998764 345555 9999999999887764 4469999998643
No 79
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.19 E-value=0.023 Score=49.49 Aligned_cols=30 Identities=37% Similarity=0.912 Sum_probs=24.4
Q ss_pred ccCceechhhhHHHHhc----C-------CCCCCcCcCCCC
Q 047079 124 VCYHVFHQECIDLWLES----H-------KTCPVCRSDLDL 153 (296)
Q Consensus 124 ~C~H~Fh~~CI~~Wl~~----~-------~tCP~CR~~~~~ 153 (296)
.||.-||.-|+..||+. + ..||.|-.++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 39999999999999963 1 259999888764
No 80
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.16 E-value=0.028 Score=53.80 Aligned_cols=44 Identities=30% Similarity=0.575 Sum_probs=31.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
....|.||+++..+ ...+| |||+-| |..--.. ..+||+||..+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 34679999999766 45566 999966 7665433 334999998764
No 81
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.10 E-value=0.018 Score=52.37 Aligned_cols=45 Identities=24% Similarity=0.687 Sum_probs=32.6
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
.|-.|..-=. ++...++- |.|+||..|...-... .||+|++.+..
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~~~--~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASSPD--VCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccCCcc--ccccccceeee
Confidence 5776755433 66777776 9999999997653222 89999998653
No 82
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.82 E-value=0.013 Score=54.55 Aligned_cols=42 Identities=29% Similarity=0.614 Sum_probs=31.5
Q ss_pred CccccccccccccCceeEEecccCce-echhhhHHHHhcCCCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHV-FHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..-|+||++. +.....|+ |||. -|.+|-.. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence 4679999987 55567787 9995 67888543 347999998653
No 83
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.73 E-value=0.042 Score=37.85 Aligned_cols=45 Identities=24% Similarity=0.528 Sum_probs=21.2
Q ss_pred ccccccccccCc-eeEEecccCceechhhhHHHHh-cCCCCCCcCcCC
Q 047079 106 CAICLAEFEDDN-ILRLLTVCYHVFHQECIDLWLE-SHKTCPVCRSDL 151 (296)
Q Consensus 106 C~ICl~~~~~~~-~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~ 151 (296)
|++|.+++...+ .+.-- .|++.++..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984433 33222 3799999999777765 467899999764
No 84
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.23 E-value=0.0058 Score=58.85 Aligned_cols=50 Identities=22% Similarity=0.634 Sum_probs=42.2
Q ss_pred CccccccccccccC-ceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDD-NILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~-~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
...|+||...+... +.+..+. |||.+|..||.+||.....||-|+..|..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 35799999998876 4555554 99999999999999998899999998864
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.12 E-value=0.043 Score=57.67 Aligned_cols=41 Identities=24% Similarity=0.764 Sum_probs=32.9
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 150 (296)
..|..|--.+.-+..-- .|+|.||..|+. .+...||-|+..
T Consensus 841 skCs~C~~~LdlP~VhF---~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHF---LCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccccceeee---ecccHHHHHhhc---cCcccCCccchh
Confidence 47999998888775433 299999999998 556779999763
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.89 E-value=0.042 Score=51.70 Aligned_cols=43 Identities=35% Similarity=0.715 Sum_probs=30.0
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
-.|--|- |-....=|++| |.|+||.+|... ...+.||.|-..+
T Consensus 91 HfCd~Cd--~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCD--FPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccC--Ccceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 3566673 33344567888 999999999654 4466899996543
No 87
>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=92.71 E-value=0.15 Score=49.38 Aligned_cols=25 Identities=32% Similarity=0.931 Sum_probs=19.4
Q ss_pred eechhhhHHHHhc-------------CCCCCCcCcCCC
Q 047079 128 VFHQECIDLWLES-------------HKTCPVCRSDLD 152 (296)
Q Consensus 128 ~Fh~~CI~~Wl~~-------------~~tCP~CR~~~~ 152 (296)
..|.+|+.+|+.+ +.+||.||+.+-
T Consensus 314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 3578999999854 337999999864
No 88
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.12 E-value=0.1 Score=36.88 Aligned_cols=44 Identities=23% Similarity=0.579 Sum_probs=29.9
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
.|-.|... +..-.++| |+|+.+..|.+- ++-+-||+|..++...
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEFD 52 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccCh--hhccCCCCCCCcccCC
Confidence 45555433 22334566 999999999665 4566799999888643
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.47 E-value=0.23 Score=47.50 Aligned_cols=64 Identities=25% Similarity=0.532 Sum_probs=43.5
Q ss_pred HhhCCcccccchhhhhcccCCccccccccccccCceeEEecccCceechhhhHHH--HhcCCCCCCcCcCCC
Q 047079 83 IQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLW--LESHKTCPVCRSDLD 152 (296)
Q Consensus 83 i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~W--l~~~~tCP~CR~~~~ 152 (296)
+..-|...-+..++. ..+...|.||-..+. ...++| |+|..|.-|...- |...+.||+||....
T Consensus 43 lsaEPnlttsSaddt--DEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 43 LSAEPNLTTSSADDT--DEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccCCcccccccccc--ccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 333455544443332 234568999987753 345667 9999999997754 667889999998653
No 90
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.64 E-value=0.12 Score=53.83 Aligned_cols=23 Identities=35% Similarity=0.889 Sum_probs=21.3
Q ss_pred ccCceechhhhHHHHhcCCCCCC
Q 047079 124 VCYHVFHQECIDLWLESHKTCPV 146 (296)
Q Consensus 124 ~C~H~Fh~~CI~~Wl~~~~tCP~ 146 (296)
.|+|+.|..|...|++....||-
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 39999999999999999999984
No 91
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.56 E-value=0.12 Score=48.11 Aligned_cols=47 Identities=26% Similarity=0.559 Sum_probs=38.3
Q ss_pred CCccccccccccccCc-eeEEecccCceechhhhHHHHhcCCCCCCcCc
Q 047079 102 YGLECAICLAEFEDDN-ILRLLTVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~-~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
....|+||.+.+.... .+..++ |||.-|..|.......+-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 4456999999887665 344555 9999999999999887789999977
No 92
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=89.94 E-value=0.11 Score=54.37 Aligned_cols=44 Identities=30% Similarity=0.665 Sum_probs=33.1
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhc--CCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES--HKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~--~~tCP~CR~~~~ 152 (296)
..|.||++ .+.....+ |+|.||..|+..-+.. ..-||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 68999999 23333444 9999999999887753 235999998765
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.94 E-value=0.3 Score=43.78 Aligned_cols=39 Identities=31% Similarity=0.740 Sum_probs=28.7
Q ss_pred ccccccccccCceeEEecccCce-echhhhHHHHhcCCCCCCcCcCCC
Q 047079 106 CAICLAEFEDDNILRLLTVCYHV-FHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~-Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
|-.|.+. ...+-++| |.|. +|..|=.. -.+||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 7777655 56677888 9985 88999443 456999987654
No 94
>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=87.80 E-value=0.45 Score=39.23 Aligned_cols=10 Identities=0% Similarity=0.521 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 047079 26 ILTVTLLVFF 35 (296)
Q Consensus 26 vl~vli~v~~ 35 (296)
+++|+|++||
T Consensus 4 l~~iii~~i~ 13 (130)
T PF12273_consen 4 LFAIIIVAIL 13 (130)
T ss_pred eHHHHHHHHH
Confidence 3333333333
No 95
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=87.71 E-value=0.15 Score=55.96 Aligned_cols=45 Identities=31% Similarity=0.719 Sum_probs=37.5
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 150 (296)
...|.||++.+.....+. .|+|.+|..|+..|+..+..||.|...
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 458999999988443333 399999999999999999999999743
No 96
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.25 E-value=0.15 Score=52.20 Aligned_cols=45 Identities=29% Similarity=0.603 Sum_probs=32.5
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 150 (296)
-+.|.||+..|......-.-+.|||+.|..|+..- -+.+|| |..+
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~D 55 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKRD 55 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCcc
Confidence 35799999998765543333459999999998863 456788 6443
No 97
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=86.78 E-value=0.37 Score=33.37 Aligned_cols=18 Identities=39% Similarity=0.606 Sum_probs=15.1
Q ss_pred ccccccccccHHHHHHHh
Q 047079 238 LEDRHTLRLPENVKLKIL 255 (296)
Q Consensus 238 ~~er~tlrLpe~v~~~~~ 255 (296)
..++|+||||++++++|.
T Consensus 3 ~~~~f~lRlP~~l~~~lk 20 (50)
T PF03869_consen 3 KDPQFNLRLPEELKEKLK 20 (50)
T ss_dssp CSEEEEEECEHHHHHHHH
T ss_pred CCCceeeECCHHHHHHHH
Confidence 367999999999987664
No 98
>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=86.09 E-value=0.76 Score=39.44 Aligned_cols=37 Identities=22% Similarity=0.533 Sum_probs=23.4
Q ss_pred CccccccccccccCceeEEec---c-----cCc-eechhhhHHHHh
Q 047079 103 GLECAICLAEFEDDNILRLLT---V-----CYH-VFHQECIDLWLE 139 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp---~-----C~H-~Fh~~CI~~Wl~ 139 (296)
+..|+|||+-=.....+...- + |+- .=|..|++++-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 467999999866554433110 1 443 347899999853
No 99
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=85.66 E-value=0.72 Score=32.55 Aligned_cols=40 Identities=23% Similarity=0.617 Sum_probs=31.3
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~ 146 (296)
...|.+|-+.|.+++.+.+-|.|+-.+|++|-+. ...|-+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 4579999999997777777888999999999433 445544
No 100
>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=85.57 E-value=0.61 Score=43.65 Aligned_cols=48 Identities=21% Similarity=0.589 Sum_probs=34.5
Q ss_pred cccccccc-cccCceeEEecccCceechhhhHHHHhcC-CCCCCcCcCCC
Q 047079 105 ECAICLAE-FEDDNILRLLTVCYHVFHQECIDLWLESH-KTCPVCRSDLD 152 (296)
Q Consensus 105 ~C~ICl~~-~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~-~tCP~CR~~~~ 152 (296)
.|++|-.. |..++..-+...|+|..|..|++.-+... .-||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 48888754 44555444444599999999999988754 46999966553
No 101
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.19 E-value=0.4 Score=44.64 Aligned_cols=50 Identities=32% Similarity=0.693 Sum_probs=35.5
Q ss_pred CccccccccccccCce-eEEecccC-----ceechhhhHHHHh--cCCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNI-LRLLTVCY-----HVFHQECIDLWLE--SHKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~-~r~lp~C~-----H~Fh~~CI~~Wl~--~~~tCP~CR~~~~~ 153 (296)
+..|-||..+...... .-..| |. +..|..|++.|+. ...+|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4689999997765432 22233 63 6679999999997 55679999876543
No 102
>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=84.72 E-value=0.45 Score=32.65 Aligned_cols=42 Identities=29% Similarity=0.871 Sum_probs=25.6
Q ss_pred cccccccccccCceeEEeccc-CceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 105 ECAICLAEFEDDNILRLLTVC-YHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C-~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.|--|. |.....++ | .|..|..|+..-|.....||+|..++.
T Consensus 4 nCKsCW--f~~k~Li~----C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 4 NCKSCW--FANKGLIK----CSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp ---SS---S--SSEEE-----SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred cChhhh--hcCCCeee----ecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 355553 44444444 6 599999999999999999999998874
No 103
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=84.61 E-value=0.69 Score=43.79 Aligned_cols=43 Identities=23% Similarity=0.636 Sum_probs=34.0
Q ss_pred CCccccccccccccCceeEEeccc--CceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVC--YHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C--~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.-++|+||.+.+..+..- | ||.-|..|=. +..+.||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~Q-----C~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQ-----CDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCccccee-----cCCCcEehhhhhh---hhcccCCccccccc
Confidence 347899999999888432 5 7999998854 45778999999886
No 104
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=84.34 E-value=0.6 Score=44.66 Aligned_cols=52 Identities=19% Similarity=0.349 Sum_probs=35.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHh-cCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE-SHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~-~~~tCP~CR~~~~~ 153 (296)
+++-|+.|++.+...+.-..--.||...|.-|-..--+ -+..||-||...+.
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 34559999999987664433334999888888443322 35679999987764
No 105
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.89 E-value=0.41 Score=46.85 Aligned_cols=38 Identities=26% Similarity=0.632 Sum_probs=28.2
Q ss_pred CCccccccccccccC-ceeEEecccCceechhhhHHHHhc
Q 047079 102 YGLECAICLAEFEDD-NILRLLTVCYHVFHQECIDLWLES 140 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~-~~~r~lp~C~H~Fh~~CI~~Wl~~ 140 (296)
...+|.||..++... +... ...|+|.||.+|+.+.++.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence 356899999555444 4444 4459999999999998863
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.18 E-value=0.4 Score=44.14 Aligned_cols=50 Identities=28% Similarity=0.717 Sum_probs=35.0
Q ss_pred CCccccccccccccCcee-EEeccc-----CceechhhhHHHHhc--------CCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNIL-RLLTVC-----YHVFHQECIDLWLES--------HKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~-r~lp~C-----~H~Fh~~CI~~Wl~~--------~~tCP~CR~~~~ 152 (296)
.+..|=||+..=++.-.- .+.| | .|..|..|+..|+.. ..+||.|+....
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 456799998875554322 2334 6 588999999999943 225999987643
No 107
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.08 E-value=0.52 Score=50.06 Aligned_cols=35 Identities=20% Similarity=0.441 Sum_probs=26.3
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHH
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWL 138 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl 138 (296)
.+..|.+|...+...- ..+-| |||.||.+||..-.
T Consensus 816 p~d~C~~C~~~ll~~p-F~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKP-FYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcCc-ceeee-ccchHHHHHHHHHH
Confidence 4578999988776542 23345 99999999998764
No 108
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.25 E-value=0.79 Score=48.25 Aligned_cols=51 Identities=12% Similarity=0.163 Sum_probs=36.7
Q ss_pred CCccccccccccccCce---eEEecccCceechhhhHHHHhc------CCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNI---LRLLTVCYHVFHQECIDLWLES------HKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~---~r~lp~C~H~Fh~~CI~~Wl~~------~~tCP~CR~~~~ 152 (296)
....|.||.-++..++. +-.+..|+|.||..||..|+.. +-.|++|...|.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 45678888888887442 2222359999999999999843 445899977664
No 109
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=80.66 E-value=1 Score=47.57 Aligned_cols=56 Identities=29% Similarity=0.591 Sum_probs=39.1
Q ss_pred CccccccccccccCceeEEec-ccC---ceechhhhHHHHhc--CCCCCCcCcCCCCCCCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLT-VCY---HVFHQECIDLWLES--HKTCPVCRSDLDLPQNSLE 159 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp-~C~---H~Fh~~CI~~Wl~~--~~tCP~CR~~~~~~~~~~~ 159 (296)
...|.||..+=..++.+- .| +|. ...|.+|+.+|+.- ...|-+|+.++....-..+
T Consensus 12 ~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e 73 (1175)
T COG5183 12 KRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE 73 (1175)
T ss_pred chhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence 367999998866666553 33 233 35899999999974 4459999988765544333
No 110
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.58 E-value=0.56 Score=48.04 Aligned_cols=42 Identities=38% Similarity=0.866 Sum_probs=28.2
Q ss_pred CCccccccc-----cccccCceeEEecccCceechhhhHHHHhcCCCCCCc
Q 047079 102 YGLECAICL-----AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147 (296)
Q Consensus 102 ~~~~C~ICl-----~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~C 147 (296)
.+..|.+|- ..|+.....++.. |+++||.+|... ....||-|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCch
Confidence 457788883 2344444556665 999999999443 34449999
No 111
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.43 E-value=1.4 Score=42.97 Aligned_cols=45 Identities=22% Similarity=0.485 Sum_probs=36.5
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcC---CCCCCc
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESH---KTCPVC 147 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~---~tCP~C 147 (296)
..+.|+|=.+.=.+......|. |||+...+-|.+-.++. ..||.|
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 3468999888877777777777 99999999999987654 469999
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=80.18 E-value=0.84 Score=41.75 Aligned_cols=48 Identities=21% Similarity=0.592 Sum_probs=35.6
Q ss_pred CCccccccccccc-cCc-eeEEecccCceechhhhHHHHhcCC-CCC--CcCc
Q 047079 102 YGLECAICLAEFE-DDN-ILRLLTVCYHVFHQECIDLWLESHK-TCP--VCRS 149 (296)
Q Consensus 102 ~~~~C~ICl~~~~-~~~-~~r~lp~C~H~Fh~~CI~~Wl~~~~-tCP--~CR~ 149 (296)
.+..|+||-.+.. .++ .+-+-|.|-|..|..|++.-|.... .|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 3457999987643 344 4445566999999999999997655 599 7844
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.80 E-value=0.84 Score=42.86 Aligned_cols=29 Identities=21% Similarity=0.728 Sum_probs=22.3
Q ss_pred cCceechhhhHHHHh-------------cCCCCCCcCcCCCC
Q 047079 125 CYHVFHQECIDLWLE-------------SHKTCPVCRSDLDL 153 (296)
Q Consensus 125 C~H~Fh~~CI~~Wl~-------------~~~tCP~CR~~~~~ 153 (296)
|.-..|.+|+.+|+. .+.+||.||+++-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 456678999999984 24579999998753
No 114
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.73 E-value=1.3 Score=45.22 Aligned_cols=45 Identities=31% Similarity=0.769 Sum_probs=37.2
Q ss_pred cCCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 101 KYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 101 ~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
+....|+||+.+. ..+..+ |. |..|+..|+..+.+||+|+..+..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKE 521 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhc
Confidence 3567899999998 345555 88 999999999999999999987754
No 115
>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=78.42 E-value=2.4 Score=26.29 Aligned_cols=37 Identities=27% Similarity=0.551 Sum_probs=25.5
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
|+.|-+.+...+..... =+..||..| ..|..|...|.
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcCc
Confidence 88898888776333222 378899877 56888877663
No 116
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=77.23 E-value=0.59 Score=48.60 Aligned_cols=46 Identities=37% Similarity=0.904 Sum_probs=35.7
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcC---CCCCCcCcCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESH---KTCPVCRSDLD 152 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~---~tCP~CR~~~~ 152 (296)
..+|.||+..+..+.. -+|.|.|+.-|+..-|... ..||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p~~----~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSL----LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeeccch----hhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 4789999999988822 2499999999988666543 35999997664
No 117
>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=76.90 E-value=0.82 Score=31.56 Aligned_cols=43 Identities=26% Similarity=0.617 Sum_probs=20.6
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhc-----CCCCCCcCcC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES-----HKTCPVCRSD 150 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~-----~~tCP~CR~~ 150 (296)
+.|+|....+..+ +|... |.|.-+.+ +..||.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4689988888766 55554 99985433 4556643 2259999763
No 118
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=76.82 E-value=1.7 Score=38.63 Aligned_cols=41 Identities=39% Similarity=0.955 Sum_probs=28.9
Q ss_pred CCccccccccc-----cccCceeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 102 YGLECAICLAE-----FEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 102 ~~~~C~ICl~~-----~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
.+..|.||-+. |..+..++. +.|+-+||..|.. ...||-|-
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C-~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRC-PKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeC-CcCccccchhhcC-----CCCCCCcH
Confidence 45789999752 333344444 4599999999965 26799993
No 119
>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=74.00 E-value=8.2 Score=25.24 Aligned_cols=25 Identities=24% Similarity=0.368 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 047079 22 PITIILTVTLLVFFFVGFFSVYFCR 46 (296)
Q Consensus 22 ~~~Ivl~vli~v~~~l~~~~i~~~~ 46 (296)
.+.|+..+++.+.++++.+.+|.|+
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCc 29 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACC 29 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555444444444444444
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=73.87 E-value=2.2 Score=44.75 Aligned_cols=41 Identities=20% Similarity=0.417 Sum_probs=31.6
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~ 146 (296)
..|.+|-..+. +..+. -+.|+|.-|..|+.+|+..+.-||.
T Consensus 780 ~~CtVC~~vi~-G~~~~-c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GVDVW-CQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee-eeEee-cccccccccHHHHHHHHhcCCCCcc
Confidence 46999966543 33333 3459999999999999999988877
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=73.35 E-value=1.8 Score=38.90 Aligned_cols=45 Identities=24% Similarity=0.655 Sum_probs=36.8
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
..|.+|......+ +|+-. |+-.+|..|+..++++...||.|..-+
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCchhccc
Confidence 5799999887766 44444 899999999999999999999995433
No 122
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=72.75 E-value=3 Score=34.84 Aligned_cols=51 Identities=22% Similarity=0.492 Sum_probs=35.4
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHh---cCCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE---SHKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~---~~~tCP~CR~~~~~ 153 (296)
-.+|-||.+.-.+..-+.--.-||-..|.-|-..-++ .+..||+|+..+..
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 4689999987655433332223899999888665444 46789999988754
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 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=71.21 E-value=3.1 Score=28.06 Aligned_cols=42 Identities=29% Similarity=0.713 Sum_probs=30.5
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHh------cCCCCCCcC
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLE------SHKTCPVCR 148 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~------~~~tCP~CR 148 (296)
|.||...-..+..+..-. |+-.||..|+..=.. ..-.||.|+
T Consensus 2 C~vC~~~~~~~~~i~C~~-C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDS-CNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTSSEEEBST-TSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCCCCCeEEcCC-CChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 889999666666666654 999999999875432 244688775
No 125
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=70.82 E-value=5.6 Score=32.27 Aligned_cols=69 Identities=25% Similarity=0.342 Sum_probs=43.8
Q ss_pred CHHHHhhCCcccccchhhhhcccCCccccccccccccCc----------eeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 79 HPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDN----------ILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 79 ~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
...--.-+|...|.++...+ ......|--|+..|.... ....-+.|.+.|+.+|=.-|-+.-..||-|-
T Consensus 32 ARSyHHLfPl~~f~ev~~~~-~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 32 ARSYHHLFPLKAFQEIPLEE-YNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred HHhhhccCCCcccccccccc-cCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 33334445666565443221 112356999999987531 1122456999999999777777777899995
No 126
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.46 E-value=5.4 Score=36.85 Aligned_cols=49 Identities=18% Similarity=0.364 Sum_probs=38.6
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
....|+|---+|........+-.|||+|-..-+.+. ...+|++|.+.+.
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 457899999888877766666679999988777763 4667999988775
No 127
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=68.11 E-value=10 Score=31.32 Aligned_cols=30 Identities=20% Similarity=0.322 Sum_probs=21.6
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047079 18 YASPPITIILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 18 ~~~~~~~Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
.....+.|++++.+..|+++++++-|++-.
T Consensus 40 ~~~~~lYIL~vmgfFgff~~gImlsyvRSK 69 (129)
T PF02060_consen 40 DDNEYLYILVVMGFFGFFTVGIMLSYVRSK 69 (129)
T ss_dssp -SSTT-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCceeehHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334467888888888888888888887654
No 128
>PHA02849 putative transmembrane protein; Provisional
Probab=67.80 E-value=9.6 Score=28.88 Aligned_cols=27 Identities=22% Similarity=0.455 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRCFM 49 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~~~ 49 (296)
++.++.++++++.|+.|+++|+.+|..
T Consensus 16 ~v~vi~v~v~vI~i~~flLlyLvkws~ 42 (82)
T PHA02849 16 AVTVILVFVLVISFLAFMLLYLIKWSY 42 (82)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666777778888888998888754
No 129
>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=65.94 E-value=2.8 Score=25.02 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=12.8
Q ss_pred cccccccccccCceeEEecccCcee
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVF 129 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~F 129 (296)
.|+-|...+... .+.-|.|||.|
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 466666665433 33345567766
No 130
>PHA01513 mnt Mnt
Probab=64.93 E-value=3.8 Score=31.38 Aligned_cols=18 Identities=33% Similarity=0.455 Sum_probs=14.7
Q ss_pred ccccccccccHHHHHHHh
Q 047079 238 LEDRHTLRLPENVKLKIL 255 (296)
Q Consensus 238 ~~er~tlrLpe~v~~~~~ 255 (296)
...+|+||||++.+.+|.
T Consensus 4 ~~~qf~LRLP~eLk~rL~ 21 (82)
T PHA01513 4 DDPQFNLRLPYELKEKLK 21 (82)
T ss_pred CCcceeeeCCHHHHHHHH
Confidence 356899999999986664
No 131
>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=64.55 E-value=4.6 Score=28.15 Aligned_cols=42 Identities=29% Similarity=0.671 Sum_probs=21.7
Q ss_pred ccccccccccCc------eeEEecccCceechhhhHHHH-hcCCCCCCcC
Q 047079 106 CAICLAEFEDDN------ILRLLTVCYHVFHQECIDLWL-ESHKTCPVCR 148 (296)
Q Consensus 106 C~ICl~~~~~~~------~~r~lp~C~H~Fh~~CI~~Wl-~~~~tCP~CR 148 (296)
|--|+..|.... ....-|.|++.|+.+| |.++ +.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 666777777652 3344567999999888 3332 3445699883
No 132
>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=64.38 E-value=8.5 Score=26.30 Aligned_cols=38 Identities=26% Similarity=0.496 Sum_probs=27.9
Q ss_pred ccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 106 C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
|+.|-..+...+.+... -+..||..| .+|-.|+..|..
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCC
Confidence 77888888866655222 588999877 568899888864
No 133
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=63.74 E-value=6.5 Score=37.51 Aligned_cols=52 Identities=23% Similarity=0.505 Sum_probs=34.8
Q ss_pred CCcccccccccccc---------------Cc-eeEEecccCceechhhhHHHHhc---------CCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFED---------------DN-ILRLLTVCYHVFHQECIDLWLES---------HKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~---------------~~-~~r~lp~C~H~Fh~~CI~~Wl~~---------~~tCP~CR~~~~~~ 154 (296)
...+|++|+..=.- +. .-...| |||+--.+-..-|-+. +..||.|-..|...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 46799999865210 00 111345 9999888888889753 45699998877644
No 134
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=63.65 E-value=3.1 Score=38.66 Aligned_cols=49 Identities=27% Similarity=0.521 Sum_probs=36.3
Q ss_pred ccccccccccccCceeEE---ecccCceechhhhHHHHhc---------CCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRL---LTVCYHVFHQECIDLWLES---------HKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~---lp~C~H~Fh~~CI~~Wl~~---------~~tCP~CR~~~~ 152 (296)
.+|.+|.+++.+.+..+. -+.|.-.+|..|+..-+.. ..-||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 699999999965554443 3458889999999995432 346999988653
No 135
>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=62.64 E-value=17 Score=29.96 Aligned_cols=22 Identities=27% Similarity=0.295 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFC 45 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~ 45 (296)
.+|++.++..+++++ +|+.|++
T Consensus 67 ~~Ii~gv~aGvIg~I-lli~y~i 88 (122)
T PF01102_consen 67 IGIIFGVMAGVIGII-LLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHH-HHHHHHH
T ss_pred eehhHHHHHHHHHHH-HHHHHHH
Confidence 455555555555544 3444433
No 136
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=62.64 E-value=7 Score=37.39 Aligned_cols=69 Identities=25% Similarity=0.428 Sum_probs=47.0
Q ss_pred CCHHHHhhCCcccccchhhhhcccCCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcC
Q 047079 78 LHPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 78 l~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
|.++.-.-+|...|.++...... +...|-.|..+.......++-. |.|+||.+|=.---++-..||-|.
T Consensus 306 LARSyhhL~PL~~F~Eip~~~~~-~~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 306 LARSYHHLFPLKPFVEIPETEYN-GSRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred HHHHHHhhcCCcchhhccccccC-CCcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcC
Confidence 44555556787777765544322 3456999977777776676655 999999999444334555699995
No 137
>PHA02657 hypothetical protein; Provisional
Probab=62.34 E-value=13 Score=28.79 Aligned_cols=25 Identities=12% Similarity=0.405 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 047079 24 TIILTVTLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~~~~~ 48 (296)
+.++++.++++.|+.|+++|+.++-
T Consensus 27 imVitvfv~vI~il~flLLYLvkWS 51 (95)
T PHA02657 27 ILVFTIFIFVVCILIYLLIYLVDWS 51 (95)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566677777888888888887764
No 138
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.14 E-value=3.8 Score=40.80 Aligned_cols=36 Identities=25% Similarity=0.593 Sum_probs=29.1
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhc
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES 140 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~ 140 (296)
...+|-||.+.+.. .+..+. |+|.|+..|...++.+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 45789999999876 344455 9999999999999864
No 139
>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=61.28 E-value=14 Score=26.26 Aligned_cols=44 Identities=25% Similarity=0.658 Sum_probs=33.1
Q ss_pred ccccccccccccCc-eeEEecccCc--eechhhhHHHHhcCCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDN-ILRLLTVCYH--VFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~-~~r~lp~C~H--~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..|-.|-.++..+. ..++ |++ .||.+|.+.-| +..||.|.-.|.
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 35888888887666 3332 654 69999999976 778999987765
No 140
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.07 E-value=5.1 Score=37.61 Aligned_cols=41 Identities=22% Similarity=0.395 Sum_probs=31.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHK 142 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~ 142 (296)
..+.|.+|.+-+++.--+.+-..=.|.||..|-.+-++.+.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 45889999999998877763322389999999999887543
No 141
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=57.79 E-value=9 Score=29.74 Aligned_cols=33 Identities=9% Similarity=0.148 Sum_probs=18.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047079 19 ASPPITIILTVTLLVFFFVGFFSVYFCRCFMEN 51 (296)
Q Consensus 19 ~~~~~~Ivl~vli~v~~~l~~~~i~~~~~~~~~ 51 (296)
..+...+-+.+++++.+|+.+.++|+.+|..+.
T Consensus 27 ~n~~~~Lgm~~lvI~~iFil~VilwfvCC~kRk 59 (94)
T PF05393_consen 27 VNNWPNLGMWFLVICGIFILLVILWFVCCKKRK 59 (94)
T ss_pred cCCCCccchhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 333333334455556666666777777766543
No 142
>PF15050 SCIMP: SCIMP protein
Probab=57.05 E-value=15 Score=30.13 Aligned_cols=28 Identities=25% Similarity=0.447 Sum_probs=12.6
Q ss_pred CCchHHHHHHHHHHH-HHHHHHHHHHHHH
Q 047079 19 ASPPITIILTVTLLV-FFFVGFFSVYFCR 46 (296)
Q Consensus 19 ~~~~~~Ivl~vli~v-~~~l~~~~i~~~~ 46 (296)
.-+-++|++++.+++ -+.+++++.++|+
T Consensus 4 Wr~nFWiiLAVaII~vS~~lglIlyCvcR 32 (133)
T PF15050_consen 4 WRDNFWIILAVAIILVSVVLGLILYCVCR 32 (133)
T ss_pred HHhchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456666555433 3333444433443
No 143
>PHA02819 hypothetical protein; Provisional
Probab=54.77 E-value=36 Score=25.28 Aligned_cols=22 Identities=14% Similarity=0.318 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~ 44 (296)
..+++.++++++++++|+.+|+
T Consensus 46 ~~~~ii~l~~~~~~~~~~flYL 67 (71)
T PHA02819 46 RYYLIIGLVTIVFVIIFIIFYL 67 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333444444444445554
No 144
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=54.46 E-value=5.2 Score=39.67 Aligned_cols=33 Identities=27% Similarity=0.595 Sum_probs=26.1
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHH
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWL 138 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl 138 (296)
+++.|+||..-|.++. +|| |+|..|..|...-+
T Consensus 3 eelkc~vc~~f~~epi---il~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPI---ILP-CSHNLCQACARNIL 35 (699)
T ss_pred ccccCceehhhccCce---Eee-cccHHHHHHHHhhc
Confidence 4578999999998873 455 99999999977543
No 145
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.88 E-value=6 Score=41.86 Aligned_cols=43 Identities=19% Similarity=0.510 Sum_probs=30.9
Q ss_pred CccccccccccccC----ceeEEecccCceechhhhHHHHhcCCCCCCc
Q 047079 103 GLECAICLAEFEDD----NILRLLTVCYHVFHQECIDLWLESHKTCPVC 147 (296)
Q Consensus 103 ~~~C~ICl~~~~~~----~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~C 147 (296)
...|.-|.+..... +.+..+. |+|+||..|+.--..+++ |-.|
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 45799998876522 3455554 999999999988776665 6555
No 146
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=53.04 E-value=9.6 Score=27.39 Aligned_cols=35 Identities=20% Similarity=0.277 Sum_probs=17.2
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHH
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLW 137 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~W 137 (296)
...|.+|...|..-..-.--..||++|+..|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 45799999999654322223359999999997543
No 147
>PF15106 TMEM156: TMEM156 protein family
Probab=51.14 E-value=26 Score=31.61 Aligned_cols=41 Identities=24% Similarity=0.357 Sum_probs=19.4
Q ss_pred CCchHHHHHHHHH-HHHHHHHHHHHHHHHhhhhhhhhhhhccc
Q 047079 19 ASPPITIILTVTL-LVFFFVGFFSVYFCRCFMENIVNTWQLRQ 60 (296)
Q Consensus 19 ~~~~~~Ivl~vli-~v~~~l~~~~i~~~~~~~~~~~~~~~~r~ 60 (296)
.+..|=|.|.+++ +||+|+++++||- ..-..++...|+.++
T Consensus 170 ~~CsmKITWYvLVllVfiflii~iI~K-Ile~hrrvqkwq~hk 211 (226)
T PF15106_consen 170 STCSMKITWYVLVLLVFIFLIILIIYK-ILEGHRRVQKWQSHK 211 (226)
T ss_pred ceeehhhHHHHHHHHHHHHHHHHHHHH-HHHhhhhHhHHhhcC
Confidence 3445555555444 4455555555542 222333445665543
No 148
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=50.20 E-value=15 Score=35.21 Aligned_cols=49 Identities=20% Similarity=0.434 Sum_probs=35.5
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..|+||.+.....+...+--+|+|..|..|...-...+.+||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 6899999987544433322247888788887777788999999995543
No 149
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.73 E-value=9.4 Score=36.14 Aligned_cols=49 Identities=22% Similarity=0.499 Sum_probs=40.7
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
....|-||...+..+.... +|.|.|+..|...|......||.|+....+
T Consensus 104 ~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 4467999998887776554 599999999999999999999999876543
No 150
>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=49.44 E-value=27 Score=26.36 Aligned_cols=12 Identities=50% Similarity=0.476 Sum_probs=6.2
Q ss_pred CCCCCCCCCCCC
Q 047079 1 MSSTTYPSSSYP 12 (296)
Q Consensus 1 mss~~~~~~s~~ 12 (296)
||+....++..+
T Consensus 1 M~s~~~~~s~~~ 12 (81)
T PF11057_consen 1 MSSTYCLPSPLP 12 (81)
T ss_pred CCCcccCCCCcc
Confidence 666655544333
No 151
>PHA02844 putative transmembrane protein; Provisional
Probab=49.29 E-value=50 Score=24.83 Aligned_cols=21 Identities=19% Similarity=0.312 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~ 44 (296)
.+++.++++++++++|+.+|+
T Consensus 49 ~~~ii~i~~v~~~~~~~flYL 69 (75)
T PHA02844 49 KIWILTIIFVVFATFLTFLYL 69 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444445554
No 152
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=48.13 E-value=9.9 Score=24.31 Aligned_cols=26 Identities=38% Similarity=0.760 Sum_probs=16.2
Q ss_pred ccccccccccccCce--------eEEecccCceec
Q 047079 104 LECAICLAEFEDDNI--------LRLLTVCYHVFH 130 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~--------~r~lp~C~H~Fh 130 (296)
.+|+=|...|..++. ++.. .|+|+|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~-~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCS-KCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECC-CCCCEeC
Confidence 367888877775543 4433 3777774
No 153
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.75 E-value=10 Score=37.23 Aligned_cols=70 Identities=19% Similarity=0.269 Sum_probs=42.0
Q ss_pred CCHHHHhhCCcccccchhhhh-cccCCccccccccccccCc-eeEEecccCceechhhhHHHHhcCCCCCCc
Q 047079 78 LHPSLIQAFPAFAYSTVKDFR-RQKYGLECAICLAEFEDDN-ILRLLTVCYHVFHQECIDLWLESHKTCPVC 147 (296)
Q Consensus 78 l~~~~i~~lp~~~~~~~~~~~-~~~~~~~C~ICl~~~~~~~-~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~C 147 (296)
++=+..+++....+.+....+ ..+.-..|++|.-.++... -..+.-.|+|.||..|...|...+..|..|
T Consensus 280 ~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 280 LSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 555666666554443321111 1134567999887665433 111111299999999999998888877555
No 154
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=46.98 E-value=18 Score=25.11 Aligned_cols=17 Identities=18% Similarity=0.688 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 047079 30 TLLVFFFVGFFSVYFCR 46 (296)
Q Consensus 30 li~v~~~l~~~~i~~~~ 46 (296)
++.+|++++++.+.+|.
T Consensus 6 iV~i~iv~~lLg~~I~~ 22 (50)
T PF12606_consen 6 IVSIFIVMGLLGLSICT 22 (50)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444443
No 155
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=46.71 E-value=9.8 Score=32.86 Aligned_cols=22 Identities=27% Similarity=0.387 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFFFVGFFSVYFC 45 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~~ 45 (296)
+|++.|+++|+++++++++++|
T Consensus 79 ~iivgvi~~Vi~Iv~~Iv~~~C 100 (179)
T PF13908_consen 79 GIIVGVICGVIAIVVLIVCFCC 100 (179)
T ss_pred eeeeehhhHHHHHHHhHhhhee
Confidence 3444444444444555554443
No 156
>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=45.50 E-value=13 Score=22.51 Aligned_cols=29 Identities=24% Similarity=0.564 Sum_probs=11.1
Q ss_pred cccccccccccCceeEEecccCceechhhh
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECI 134 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI 134 (296)
.|.+|-.....+....... |.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSE-CDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TT-T-----HHHH
T ss_pred cCCcCCCcCCCCceEECcc-CCCccChhcC
Confidence 5888888877644555554 9999999985
No 157
>PHA03054 IMV membrane protein; Provisional
Probab=45.50 E-value=65 Score=23.99 Aligned_cols=21 Identities=10% Similarity=0.406 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~ 44 (296)
.+++.++++++++++|+.+|+
T Consensus 49 ~~~ii~l~~v~~~~l~~flYL 69 (72)
T PHA03054 49 YWLIIIFFIVLILLLLIYLYL 69 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333444444444444443
No 158
>PHA02650 hypothetical protein; Provisional
Probab=45.32 E-value=62 Score=24.63 Aligned_cols=16 Identities=13% Similarity=0.170 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 047079 29 VTLLVFFFVGFFSVYF 44 (296)
Q Consensus 29 vli~v~~~l~~~~i~~ 44 (296)
++++++++++|+.+|+
T Consensus 55 ~i~~v~i~~l~~flYL 70 (81)
T PHA02650 55 LIFSLIIVALFSFFVF 70 (81)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444444
No 159
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=45.25 E-value=15 Score=38.91 Aligned_cols=46 Identities=39% Similarity=0.720 Sum_probs=30.7
Q ss_pred CCcccccccccccc---------CceeEEecccCceechhhhHHHHhcCCCCCCcCcCC
Q 047079 102 YGLECAICLAEFED---------DNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDL 151 (296)
Q Consensus 102 ~~~~C~ICl~~~~~---------~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~ 151 (296)
.+..|+-|-..|-. +....+.|.|.|--|..=|.. ...||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 45667666655542 224556777999888776544 67899997654
No 160
>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=45.22 E-value=11 Score=27.63 Aligned_cols=12 Identities=25% Similarity=0.891 Sum_probs=8.6
Q ss_pred eechhhhHHHHh
Q 047079 128 VFHQECIDLWLE 139 (296)
Q Consensus 128 ~Fh~~CI~~Wl~ 139 (296)
-||..|+.+|+.
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 161
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=45.16 E-value=11 Score=34.79 Aligned_cols=46 Identities=22% Similarity=0.357 Sum_probs=35.2
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCC--CCCCcCcC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHK--TCPVCRSD 150 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~--tCP~CR~~ 150 (296)
-...|+|=...+..+..-+ +|||+|-.+-|...+.... .||+=-+.
T Consensus 175 fs~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeecccccCC
Confidence 3578999988888875544 5999999999999997644 48775433
No 162
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=45.03 E-value=14 Score=23.74 Aligned_cols=25 Identities=32% Similarity=0.688 Sum_probs=15.3
Q ss_pred cccccccccccCc--------eeEEecccCceec
Q 047079 105 ECAICLAEFEDDN--------ILRLLTVCYHVFH 130 (296)
Q Consensus 105 ~C~ICl~~~~~~~--------~~r~lp~C~H~Fh 130 (296)
.|+-|-..|..++ .++. +.|+|+|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC-~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRC-PKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEEC-CCCCcEee
Confidence 5777777776544 2333 34777774
No 163
>PF15179 Myc_target_1: Myc target protein 1
Probab=44.48 E-value=67 Score=28.38 Aligned_cols=38 Identities=11% Similarity=0.175 Sum_probs=25.7
Q ss_pred CCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 047079 15 AENYASPPITIILTVTLLVFFFVGFFSVYFCRCFMENI 52 (296)
Q Consensus 15 ~~~~~~~~~~Ivl~vli~v~~~l~~~~i~~~~~~~~~~ 52 (296)
+..|+...+++.+.|-+++-++||.++..+..|+.++.
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34565666788888877777777777666666655443
No 164
>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=43.90 E-value=8.7 Score=37.66 Aligned_cols=46 Identities=24% Similarity=0.449 Sum_probs=0.0
Q ss_pred CCccccccccccccCce----------eEEecccCceechhhhHHHHh------cCCCCCCcCcC
Q 047079 102 YGLECAICLAEFEDDNI----------LRLLTVCYHVFHQECIDLWLE------SHKTCPVCRSD 150 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~----------~r~lp~C~H~Fh~~CI~~Wl~------~~~tCP~CR~~ 150 (296)
.-.+|+|=|..+.-+.. ..+..+|||++. ...|-. ...+||+||..
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeeccccceee---ecccccccccccccccCCCcccc
Confidence 45689887766553221 112235999986 456853 24579999864
No 165
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=43.57 E-value=8.9 Score=43.60 Aligned_cols=50 Identities=28% Similarity=0.576 Sum_probs=39.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCC----CCCCcCcCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHK----TCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~----tCP~CR~~~~ 152 (296)
....|-||+....+...+-+.- |.-.||..|+..-+..-. .||-||..-.
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 4568999999988766666665 899999999999886533 6999987663
No 166
>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=42.51 E-value=5.4 Score=37.27 Aligned_cols=45 Identities=16% Similarity=0.168 Sum_probs=22.0
Q ss_pred ccccccccccccCceeEEec-ccCceechhhhHHHHhcCCCCCCcC
Q 047079 104 LECAICLAEFEDDNILRLLT-VCYHVFHQECIDLWLESHKTCPVCR 148 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp-~C~H~Fh~~CI~~Wl~~~~tCP~CR 148 (296)
..|+||-..-.-......-. +-.|.+|.-|-..|-..+..||.|-
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg 218 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCG 218 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT-
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCC
Confidence 58999976633222111100 1368889999999988899999994
No 167
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.63 E-value=5 Score=37.35 Aligned_cols=49 Identities=27% Similarity=0.522 Sum_probs=36.5
Q ss_pred CccccccccccccC--ceeEEecc--------cCceechhhhHHHHhcC-CCCCCcCcCC
Q 047079 103 GLECAICLAEFEDD--NILRLLTV--------CYHVFHQECIDLWLESH-KTCPVCRSDL 151 (296)
Q Consensus 103 ~~~C~ICl~~~~~~--~~~r~lp~--------C~H~Fh~~CI~~Wl~~~-~tCP~CR~~~ 151 (296)
...|.||...|... ..+..... |+|..+..|++.-+... ..||.|+...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 35799999999843 22222334 99999999999997654 5799998753
No 168
>PHA03240 envelope glycoprotein M; Provisional
Probab=41.48 E-value=26 Score=31.76 Aligned_cols=32 Identities=16% Similarity=0.524 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccc
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRCFMENIVNTWQLRQ 60 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~~~~~~~~~~~~r~ 60 (296)
++|+++|++++++++.|| .+-++....|..+.
T Consensus 214 ~WIiilIIiIiIIIL~cf------KiPQKl~dKw~~~k 245 (258)
T PHA03240 214 AWIFIAIIIIIVIILFFF------KIPQKLFDKWDLHG 245 (258)
T ss_pred hHHHHHHHHHHHHHHHHH------hccHHHHHHHhhhc
Confidence 455555544444433333 23334445555443
No 169
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=41.44 E-value=51 Score=23.07 Aligned_cols=22 Identities=18% Similarity=0.490 Sum_probs=12.4
Q ss_pred CCCCCCchHHHHHHHHHHHHHH
Q 047079 15 AENYASPPITIILTVTLLVFFF 36 (296)
Q Consensus 15 ~~~~~~~~~~Ivl~vli~v~~~ 36 (296)
.+.|-+-++..++.+++++|++
T Consensus 19 aPGWGTtplM~~~m~lf~vfl~ 40 (52)
T PF00737_consen 19 APGWGTTPLMGVFMALFAVFLL 40 (52)
T ss_dssp BSTTTTHHHHHHHHHHHHHHHH
T ss_pred CCCccchHHHHHHHHHHHHHHH
Confidence 4567766655555555555543
No 170
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=40.46 E-value=14 Score=33.96 Aligned_cols=42 Identities=24% Similarity=0.272 Sum_probs=33.0
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCC--CCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKT--CPV 146 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~t--CP~ 146 (296)
-+..|+|-+..+..+-.-+ +|+|.|-.+-|...|+...| ||.
T Consensus 188 ~~nrCpitl~p~~~pils~---kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYPILSS---KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhHHHHh---hhcccccHHHHHHHhcCCceeecch
Confidence 3578999999887765444 69999999999999986555 653
No 171
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=39.66 E-value=19 Score=34.36 Aligned_cols=44 Identities=25% Similarity=0.514 Sum_probs=31.4
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhc---CCCCCCc
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLES---HKTCPVC 147 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~---~~tCP~C 147 (296)
-..|++=-+.-.+.....+|. |||+.-.+-++.--++ .+.||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 367887655555555555665 9999999998886554 3469999
No 172
>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=39.63 E-value=22 Score=22.13 Aligned_cols=19 Identities=32% Similarity=0.774 Sum_probs=12.0
Q ss_pred cCceechhhhHHHHhcCCCCCCcCc
Q 047079 125 CYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 125 C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666665432 3447999965
No 173
>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=39.59 E-value=9.8 Score=37.35 Aligned_cols=50 Identities=26% Similarity=0.563 Sum_probs=0.0
Q ss_pred Ccccccccccccc-------------Cc---eeEEecccCceechhhhHHHHhc---------CCCCCCcCcCCCC
Q 047079 103 GLECAICLAEFED-------------DN---ILRLLTVCYHVFHQECIDLWLES---------HKTCPVCRSDLDL 153 (296)
Q Consensus 103 ~~~C~ICl~~~~~-------------~~---~~r~lp~C~H~Fh~~CI~~Wl~~---------~~tCP~CR~~~~~ 153 (296)
..+|++|+..=.- +. ....-| |||+--.+...-|-+. +..||.|-..|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 5789999865221 10 122455 9999999999999642 3469999888864
No 174
>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=39.47 E-value=19 Score=24.67 Aligned_cols=34 Identities=18% Similarity=0.275 Sum_probs=23.1
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHH
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLW 137 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~W 137 (296)
..|.+|-..|..-..-.--..||++|+..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 4689998888764322222359999999886654
No 175
>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=39.46 E-value=38 Score=32.11 Aligned_cols=23 Identities=13% Similarity=0.345 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFFFVGFFSVYFCR 46 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~~~ 46 (296)
.|+..+++++++++..++||+.-
T Consensus 257 ~I~aSiiaIliIVLIMvIIYLIL 279 (299)
T PF02009_consen 257 AIIASIIAILIIVLIMVIIYLIL 279 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444555443
No 176
>PHA02975 hypothetical protein; Provisional
Probab=39.10 E-value=86 Score=23.20 Aligned_cols=15 Identities=13% Similarity=0.350 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHH
Q 047079 30 TLLVFFFVGFFSVYF 44 (296)
Q Consensus 30 li~v~~~l~~~~i~~ 44 (296)
++++++++.|..+|+
T Consensus 51 i~~v~~~~~~~flYL 65 (69)
T PHA02975 51 IIFITCIAVFTFLYL 65 (69)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444443
No 177
>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=37.44 E-value=26 Score=36.59 Aligned_cols=26 Identities=15% Similarity=0.225 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~~ 48 (296)
+||+++|++-+++++++++|++++|+
T Consensus 269 lWII~gVlvPv~vV~~Iiiil~~~LC 294 (684)
T PF12877_consen 269 LWIIAGVLVPVLVVLLIIIILYWKLC 294 (684)
T ss_pred eEEEehHhHHHHHHHHHHHHHHHHHh
Confidence 55655555555554444444444443
No 178
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=37.11 E-value=12 Score=23.63 Aligned_cols=14 Identities=36% Similarity=0.717 Sum_probs=11.2
Q ss_pred cccccccHHHHHHH
Q 047079 241 RHTLRLPENVKLKI 254 (296)
Q Consensus 241 r~tlrLpe~v~~~~ 254 (296)
|.|++||++..+++
T Consensus 1 Riti~l~~~~~~~l 14 (39)
T PF01402_consen 1 RITIRLPDELYERL 14 (39)
T ss_dssp EEEEEEEHHHHHHH
T ss_pred CeEEEeCHHHHHHH
Confidence 67999999996443
No 179
>PHA02692 hypothetical protein; Provisional
Probab=35.73 E-value=1.1e+02 Score=22.80 Aligned_cols=15 Identities=13% Similarity=-0.018 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHH
Q 047079 30 TLLVFFFVGFFSVYF 44 (296)
Q Consensus 30 li~v~~~l~~~~i~~ 44 (296)
++++.+++.|+.+|+
T Consensus 53 ~~~~~~~vll~flYL 67 (70)
T PHA02692 53 LIAAAIGVLLCFHYL 67 (70)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444455555554
No 180
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.64 E-value=23 Score=32.74 Aligned_cols=31 Identities=23% Similarity=0.269 Sum_probs=26.1
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHH
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWL 138 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl 138 (296)
..|+.||..+.++... | =||+|+.+||-+++
T Consensus 44 dcCsLtLqPc~dPvit---~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVIT---P-DGYLFDREAILEYI 74 (303)
T ss_pred ceeeeecccccCCccC---C-CCeeeeHHHHHHHH
Confidence 5799999999988532 2 69999999999986
No 181
>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=35.45 E-value=12 Score=24.58 Aligned_cols=25 Identities=28% Similarity=0.385 Sum_probs=14.5
Q ss_pred ccCceechhhhHHHHhcCCCCCCcCc
Q 047079 124 VCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 124 ~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
.|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 38888764331111 23456999976
No 182
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=35.30 E-value=40 Score=25.98 Aligned_cols=23 Identities=26% Similarity=0.430 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFC 45 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~ 45 (296)
++|.+-+.+++|++..|+++.+.
T Consensus 38 IVI~FWv~LA~FV~~lF~iL~~m 60 (90)
T PF15183_consen 38 IVIAFWVSLAAFVVFLFLILLYM 60 (90)
T ss_pred eehhHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666665543
No 183
>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=35.02 E-value=42 Score=26.74 Aligned_cols=48 Identities=23% Similarity=0.401 Sum_probs=30.1
Q ss_pred CccccccccccccCceeEE-----eccc---CceechhhhHHHHhc---------CCCCCCcCcCC
Q 047079 103 GLECAICLAEFEDDNILRL-----LTVC---YHVFHQECIDLWLES---------HKTCPVCRSDL 151 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~-----lp~C---~H~Fh~~CI~~Wl~~---------~~tCP~CR~~~ 151 (296)
+..|..|...-.+.. +.. .+.| .=.||..||..++.. +-.||.||.--
T Consensus 7 g~~CHqCrqKt~~~~-~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFK-TICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCchhhcCCCCCCc-eEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 346777776433222 221 2346 778999999988742 33599998743
No 184
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=34.91 E-value=16 Score=25.35 Aligned_cols=16 Identities=25% Similarity=0.526 Sum_probs=13.4
Q ss_pred ecccCceechhhhHHH
Q 047079 122 LTVCYHVFHQECIDLW 137 (296)
Q Consensus 122 lp~C~H~Fh~~CI~~W 137 (296)
-+.|+|.||..|...|
T Consensus 43 C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 43 CPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCeECCCCCCcC
Confidence 3358999999998888
No 185
>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 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=34.24 E-value=24 Score=24.53 Aligned_cols=33 Identities=18% Similarity=0.278 Sum_probs=21.6
Q ss_pred CCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047079 15 AENYASPPITIILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 15 ~~~~~~~~~~Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
+..|+...+-|.-+++.+++|+++++++...+|
T Consensus 6 pF~YDy~tLrigGLi~A~vlfi~Gi~iils~kc 38 (50)
T PF02038_consen 6 PFYYDYETLRIGGLIFAGVLFILGILIILSGKC 38 (50)
T ss_dssp GGGGCHHHHHHHHHHHHHHHHHHHHHHHCTTHH
T ss_pred CCccchhHhhccchHHHHHHHHHHHHHHHcCcc
Confidence 445666666666667777777777777765444
No 187
>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=34.19 E-value=13 Score=25.76 Aligned_cols=10 Identities=50% Similarity=1.288 Sum_probs=5.4
Q ss_pred CCCCcCcCCC
Q 047079 143 TCPVCRSDLD 152 (296)
Q Consensus 143 tCP~CR~~~~ 152 (296)
.||+|..+|+
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 7999998885
No 188
>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=34.09 E-value=14 Score=31.43 Aligned_cols=21 Identities=43% Similarity=0.880 Sum_probs=15.3
Q ss_pred cCceechhhhHHHHhc-----------CCCCCCcCcC
Q 047079 125 CYHVFHQECIDLWLES-----------HKTCPVCRSD 150 (296)
Q Consensus 125 C~H~Fh~~CI~~Wl~~-----------~~tCP~CR~~ 150 (296)
|+|.| +.||.+ -.+||+|-..
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 68888 679854 3479999653
No 189
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=34.08 E-value=46 Score=23.11 Aligned_cols=25 Identities=8% Similarity=0.277 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 047079 24 TIILTVTLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~~~~~~ 48 (296)
+++++-+++++.+++++++-+.+..
T Consensus 3 ~~~iV~i~iv~~lLg~~I~~~~K~y 27 (50)
T PF12606_consen 3 AFLIVSIFIVMGLLGLSICTTLKAY 27 (50)
T ss_pred ehHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4555555566666666666666644
No 190
>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=33.81 E-value=42 Score=31.86 Aligned_cols=30 Identities=17% Similarity=0.371 Sum_probs=15.5
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 047079 17 NYASPPITIILTVTLLVFFFVGFFSVYFCR 46 (296)
Q Consensus 17 ~~~~~~~~Ivl~vli~v~~~l~~~~i~~~~ 46 (296)
.+.+++...+++++++|++.+.+.+|+..+
T Consensus 253 ~~~t~I~aSiiaIliIVLIMvIIYLILRYR 282 (299)
T PF02009_consen 253 SLTTAIIASIIAILIIVLIMVIIYLILRYR 282 (299)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566665555555555555544444333
No 191
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=33.60 E-value=28 Score=24.05 Aligned_cols=23 Identities=26% Similarity=0.577 Sum_probs=12.8
Q ss_pred ccCceechhhhHHHHhcCCCCCCc
Q 047079 124 VCYHVFHQECIDLWLESHKTCPVC 147 (296)
Q Consensus 124 ~C~H~Fh~~CI~~Wl~~~~tCP~C 147 (296)
.|+|.|...= ..-......||.|
T Consensus 33 ~Cgh~w~~~v-~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASV-NDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccH-hhhccCCCCCCCC
Confidence 4666665432 2222456669988
No 192
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=32.63 E-value=30 Score=26.00 Aligned_cols=33 Identities=24% Similarity=0.516 Sum_probs=22.7
Q ss_pred CCccccccccccccCceeE-EecccCceechhhhHH
Q 047079 102 YGLECAICLAEFEDDNILR-LLTVCYHVFHQECIDL 136 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r-~lp~C~H~Fh~~CI~~ 136 (296)
....|.+|... .+..+. ..++|.-.||..|...
T Consensus 35 ~~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 45689999866 243333 2346999999999654
No 193
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.84 E-value=58 Score=26.59 Aligned_cols=12 Identities=25% Similarity=0.700 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFF 35 (296)
Q Consensus 24 ~Ivl~vli~v~~ 35 (296)
.+++++++++++
T Consensus 95 ~~il~~v~~i~l 106 (116)
T KOG0860|consen 95 RIILGLVIIILL 106 (116)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 194
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.73 E-value=24 Score=27.69 Aligned_cols=33 Identities=24% Similarity=0.615 Sum_probs=22.8
Q ss_pred CCccccccccccccCceeEE-ecccCceechhhhHH
Q 047079 102 YGLECAICLAEFEDDNILRL-LTVCYHVFHQECIDL 136 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~-lp~C~H~Fh~~CI~~ 136 (296)
....|.||... .+..++. -+.|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 35689999887 4444442 123788999999765
No 195
>PF05534 HicB: HicB family; InterPro: IPR008651 This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches [].
Probab=31.59 E-value=30 Score=23.86 Aligned_cols=16 Identities=19% Similarity=0.503 Sum_probs=12.9
Q ss_pred ccccccccHHHHHHHh
Q 047079 240 DRHTLRLPENVKLKIL 255 (296)
Q Consensus 240 er~tlrLpe~v~~~~~ 255 (296)
-.||||||++..+++.
T Consensus 18 g~~~lRi~~~Lh~~l~ 33 (51)
T PF05534_consen 18 GKFNLRIPPELHRALA 33 (51)
T ss_pred CceeeeCCHHHHHHHH
Confidence 3799999999976554
No 196
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=31.31 E-value=46 Score=24.31 Aligned_cols=16 Identities=19% Similarity=0.532 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVG 38 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~ 38 (296)
|||++.+++++++++.
T Consensus 1 MWIiiSIvLai~lLI~ 16 (66)
T PF07438_consen 1 MWIIISIVLAIALLIS 16 (66)
T ss_pred ChhhHHHHHHHHHHHH
Confidence 4666666665555443
No 197
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.10 E-value=48 Score=24.90 Aligned_cols=46 Identities=22% Similarity=0.490 Sum_probs=28.9
Q ss_pred cccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
.|--|-.++-.+..-.++-.-.|.||.+|...- -+..||.|--.|.
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhh
Confidence 355566665443321111124789999998874 3678999977764
No 198
>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=30.65 E-value=22 Score=26.50 Aligned_cols=40 Identities=25% Similarity=0.488 Sum_probs=21.3
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..|+.|-.++... =+|.+|..|-.. +.....||-|..+|.
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 4699997774432 267777777554 355667999988875
No 199
>PLN02189 cellulose synthase
Probab=30.43 E-value=49 Score=36.55 Aligned_cols=51 Identities=24% Similarity=0.548 Sum_probs=35.1
Q ss_pred CCccccccccccc---cCceeEEecccCceechhhhHHHH-hcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFE---DDNILRLLTVCYHVFHQECIDLWL-ESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~---~~~~~r~lp~C~H~Fh~~CI~~Wl-~~~~tCP~CR~~~~ 152 (296)
....|.||-+++. +++.......|+--.|..|.+-=- +.++.||.|+....
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 3458999999975 344333333488889999984322 34678999987765
No 200
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.27 E-value=25 Score=33.50 Aligned_cols=46 Identities=13% Similarity=0.320 Sum_probs=30.9
Q ss_pred CccccccccccccCceeEE--ecccCceechhhhHHHHhcCCCCCCcCc
Q 047079 103 GLECAICLAEFEDDNILRL--LTVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~--lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
...|+||-..=... .++. -.+=.|.+|.-|-..|-..+..||.|..
T Consensus 187 ~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 46899997662211 1111 0113477888999999999999999964
No 201
>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A ....
Probab=30.17 E-value=48 Score=24.73 Aligned_cols=18 Identities=17% Similarity=0.362 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 047079 25 IILTVTLLVFFFVGFFSV 42 (296)
Q Consensus 25 Ivl~vli~v~~~l~~~~i 42 (296)
|+++++++++++++++++
T Consensus 2 ii~~~~~g~~~ll~~v~~ 19 (75)
T PF14575_consen 2 IIASIIVGVLLLLVLVII 19 (75)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred EEehHHHHHHHHHHhhee
Confidence 344444444444443333
No 202
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=30.05 E-value=1.4e+02 Score=23.68 Aligned_cols=13 Identities=31% Similarity=0.286 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q 047079 26 ILTVTLLVFFFVG 38 (296)
Q Consensus 26 vl~vli~v~~~l~ 38 (296)
+++-++.++..++
T Consensus 21 fLItLasVvvavG 33 (106)
T PF14654_consen 21 FLITLASVVVAVG 33 (106)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 203
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=30.04 E-value=1.2e+02 Score=22.73 Aligned_cols=22 Identities=18% Similarity=0.381 Sum_probs=11.7
Q ss_pred CCCCCCCchHHHHHHHHHHHHH
Q 047079 14 HAENYASPPITIILTVTLLVFF 35 (296)
Q Consensus 14 ~~~~~~~~~~~Ivl~vli~v~~ 35 (296)
-++.|-+-++..++.+++++|+
T Consensus 33 vapgWGTtp~Mg~~m~lf~vfl 54 (73)
T PLN00055 33 VAPGWGTTPLMGVAMALFAVFL 54 (73)
T ss_pred ccCCccchhHHHHHHHHHHHHH
Confidence 3455666555555555555544
No 204
>PHA00617 ribbon-helix-helix domain containing protein
Probab=29.94 E-value=33 Score=26.14 Aligned_cols=36 Identities=22% Similarity=0.294 Sum_probs=23.3
Q ss_pred CCccccccccccccccccccHHHHHH---HhccCccccc
Q 047079 228 GHSMHTTKNELEDRHTLRLPENVKLK---ILRGHNWTGS 263 (296)
Q Consensus 228 ghs~~~~~~e~~er~tlrLpe~v~~~---~~~~~~~~~s 263 (296)
||-+--..++....+++|||++...+ +....+|++|
T Consensus 28 ~~~~~~~~~~~m~~iSVrLp~eL~erLD~LA~~~GrsRS 66 (80)
T PHA00617 28 GDTIELTLTETMDVISFKLPPELNAKLEQVAIKMKKSKS 66 (80)
T ss_pred CCccccccCCCceEEEEECCHHHHHHHHHHHHHhCcCHH
Confidence 66654223456789999999999643 3444455555
No 205
>PRK05978 hypothetical protein; Provisional
Probab=29.69 E-value=33 Score=29.22 Aligned_cols=25 Identities=20% Similarity=0.534 Sum_probs=20.2
Q ss_pred CceechhhhHHHHhcCCCCCCcCcCCCCCC
Q 047079 126 YHVFHQECIDLWLESHKTCPVCRSDLDLPQ 155 (296)
Q Consensus 126 ~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~~ 155 (296)
||.|+ .+|+-+.+||.|-.++...+
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCC
Confidence 67775 78899999999988886543
No 206
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=29.61 E-value=14 Score=23.56 Aligned_cols=21 Identities=33% Similarity=0.687 Sum_probs=12.0
Q ss_pred cCceechhhhHHHHhcCCCCCCcCc
Q 047079 125 CYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 125 C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
|+..| .+.||.++..+++|..
T Consensus 9 C~~~f----~dSyL~~~F~~~VCD~ 29 (34)
T PF01286_consen 9 CGKPF----MDSYLLNNFDLPVCDK 29 (34)
T ss_dssp T--EE----S-SSCCCCTS-S--TT
T ss_pred hCCHH----HHHHHHHhCCcccccc
Confidence 88888 7889998888888743
No 207
>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=29.31 E-value=12 Score=25.86 Aligned_cols=38 Identities=21% Similarity=0.610 Sum_probs=20.7
Q ss_pred CccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCc
Q 047079 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
...|+.|-+.|..... +.|+.-...-+ .+...||+|..
T Consensus 2 ~f~CP~C~~~~~~~~L------~~H~~~~H~~~---~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSL------VEHCEDEHRSE---SKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHHHH------HHHHHhHCcCC---CCCccCCCchh
Confidence 3579999886554322 34532111111 12456999975
No 208
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=29.20 E-value=55 Score=25.37 Aligned_cols=36 Identities=17% Similarity=0.338 Sum_probs=29.7
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~ 152 (296)
..|.-|...+.--+. .| |-.|+..+..|..|++++.
T Consensus 34 S~C~~C~~~L~~~~l---IP----------i~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDL---IP----------ILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CcCcCCCCcCccccc---ch----------HHHHHHhCCCCcccCCCCC
Confidence 579999888776554 45 8899999999999999885
No 209
>CHL00066 psbH photosystem II protein H
Probab=28.90 E-value=1.3e+02 Score=22.55 Aligned_cols=21 Identities=19% Similarity=0.431 Sum_probs=10.5
Q ss_pred CCCCCCchHHHHHHHHHHHHH
Q 047079 15 AENYASPPITIILTVTLLVFF 35 (296)
Q Consensus 15 ~~~~~~~~~~Ivl~vli~v~~ 35 (296)
++.|-+-++..++.+++++|+
T Consensus 34 apgWGTtp~Mgv~m~lf~vfl 54 (73)
T CHL00066 34 APGWGTTPLMGVAMALFAVFL 54 (73)
T ss_pred cCCccchHHHHHHHHHHHHHH
Confidence 345555555555545554444
No 210
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=28.81 E-value=34 Score=23.34 Aligned_cols=19 Identities=16% Similarity=0.696 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 047079 29 VTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 29 vli~v~~~l~~~~i~~~~~ 47 (296)
+++.+|+++.++.+.-++|
T Consensus 8 iilg~~ll~~LigiCwCQc 26 (49)
T PF05624_consen 8 IILGALLLLLLIGICWCQC 26 (49)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3344444444444444444
No 211
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=28.32 E-value=1.2e+02 Score=25.92 Aligned_cols=7 Identities=57% Similarity=1.146 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 047079 29 VTLLVFF 35 (296)
Q Consensus 29 vli~v~~ 35 (296)
+.+++++
T Consensus 16 i~f~il~ 22 (167)
T PRK14475 16 AGLLIFF 22 (167)
T ss_pred HHHHHHH
Confidence 3333333
No 212
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=27.99 E-value=85 Score=19.58 Aligned_cols=19 Identities=21% Similarity=0.399 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 047079 26 ILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 26 vl~vli~v~~~l~~~~i~~ 44 (296)
+.++++...+.++||.+++
T Consensus 5 ~Ytfll~~tlgiiFFAIfF 23 (31)
T PRK11875 5 AYILILTLALVTLFFAIAF 23 (31)
T ss_pred HHHHHHHHHHHHHHHhhhc
Confidence 3344444444455555554
No 213
>PF15102 TMEM154: TMEM154 protein family
Probab=27.95 E-value=28 Score=29.55 Aligned_cols=7 Identities=43% Similarity=1.213 Sum_probs=4.0
Q ss_pred hHHHHhc
Q 047079 134 IDLWLES 140 (296)
Q Consensus 134 I~~Wl~~ 140 (296)
||+|..+
T Consensus 130 ldkwm~s 136 (146)
T PF15102_consen 130 LDKWMNS 136 (146)
T ss_pred HHhHHHh
Confidence 6666543
No 214
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=27.86 E-value=1.3e+02 Score=22.23 Aligned_cols=14 Identities=14% Similarity=0.356 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHH
Q 047079 31 LLVFFFVGFFSVYF 44 (296)
Q Consensus 31 i~v~~~l~~~~i~~ 44 (296)
+++-+++++..+++
T Consensus 66 ~~~Gl~lgi~~~~~ 79 (82)
T PF13807_consen 66 LFLGLILGIGLAFL 79 (82)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444444444
No 215
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=27.78 E-value=1.2e+02 Score=22.12 Aligned_cols=22 Identities=23% Similarity=0.584 Sum_probs=12.8
Q ss_pred CCCCCCCchHHHHHHHHHHHHH
Q 047079 14 HAENYASPPITIILTVTLLVFF 35 (296)
Q Consensus 14 ~~~~~~~~~~~Ivl~vli~v~~ 35 (296)
-+|.|-+-++..++.+++++|+
T Consensus 21 VaPGWGTTplMgv~m~Lf~vFl 42 (64)
T PRK02624 21 VVPGWGTTPVMAVFMVLFLVFL 42 (64)
T ss_pred ccCCccchHHHHHHHHHHHHHH
Confidence 3556766665555555555554
No 216
>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=26.47 E-value=77 Score=28.69 Aligned_cols=12 Identities=33% Similarity=0.382 Sum_probs=5.2
Q ss_pred HHHHHHHHHHhh
Q 047079 37 VGFFSVYFCRCF 48 (296)
Q Consensus 37 l~~~~i~~~~~~ 48 (296)
++|+..++++|.
T Consensus 53 VI~i~v~vR~CR 64 (221)
T PF08374_consen 53 VIFIVVLVRYCR 64 (221)
T ss_pred HHHHHHHHHHHh
Confidence 333344445454
No 217
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=26.12 E-value=83 Score=25.40 Aligned_cols=25 Identities=16% Similarity=0.406 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
+++.++++++++++++++.++...-
T Consensus 8 L~~~f~~~~~l~~~~~~~~~~~l~~ 32 (181)
T PF12729_consen 8 LILGFGLIILLLLIVGIVGLYSLSQ 32 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666666665443
No 218
>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=26.11 E-value=24 Score=33.52 Aligned_cols=45 Identities=18% Similarity=0.251 Sum_probs=30.1
Q ss_pred ccccccccccccCceeEEe---cccCceechhhhHHHHhcCCCCCCcCc
Q 047079 104 LECAICLAEFEDDNILRLL---TVCYHVFHQECIDLWLESHKTCPVCRS 149 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~l---p~C~H~Fh~~CI~~Wl~~~~tCP~CR~ 149 (296)
..|+||-..=.... ++.- .+=.|.+|.-|-..|-..+..||.|..
T Consensus 185 ~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 185 TLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 48999976632111 1110 112467888899999888999999964
No 219
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=25.42 E-value=19 Score=34.04 Aligned_cols=42 Identities=24% Similarity=0.721 Sum_probs=32.4
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
.+..|+-|-+-+-..+.+|.-. .|+||..|. .|-+|...|..
T Consensus 91 fGTKCsaC~~GIpPtqVVRkAq--d~VYHl~CF--------~C~iC~R~L~T 132 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKAQ--DFVYHLHCF--------ACFICKRQLAT 132 (383)
T ss_pred hCCcchhhcCCCChHHHHHHhh--cceeehhhh--------hhHhhhccccc
Confidence 3567999999988888888654 899999995 37778776653
No 220
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=25.33 E-value=1.1e+02 Score=22.41 Aligned_cols=22 Identities=14% Similarity=0.286 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~ 44 (296)
+++-+.+++++++++.+++..+
T Consensus 8 ~i~Gm~iVF~~L~lL~~~i~l~ 29 (79)
T PF04277_consen 8 MIIGMGIVFLVLILLILVISLM 29 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555544444444333
No 221
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=25.18 E-value=1.5e+02 Score=18.73 Aligned_cols=12 Identities=17% Similarity=0.041 Sum_probs=5.5
Q ss_pred chHHHHHHHHHH
Q 047079 21 PPITIILTVTLL 32 (296)
Q Consensus 21 ~~~~Ivl~vli~ 32 (296)
.++++.++.++.
T Consensus 8 tp~y~y~Ip~v~ 19 (33)
T TIGR03068 8 TPAYIYAIPVAS 19 (33)
T ss_pred CcchhhHHHHHH
Confidence 344444444444
No 222
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=24.97 E-value=14 Score=34.91 Aligned_cols=38 Identities=29% Similarity=0.549 Sum_probs=25.4
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHHhcCC
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHK 142 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~ 142 (296)
.+|.+|+++|..+......- |.-+||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 37888888887543333332 444888888888876544
No 223
>PRK11677 hypothetical protein; Provisional
Probab=24.96 E-value=83 Score=26.32 Aligned_cols=20 Identities=15% Similarity=0.119 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFFFVGFFSVY 43 (296)
Q Consensus 24 ~Ivl~vli~v~~~l~~~~i~ 43 (296)
|+++++.++|-+++||++..
T Consensus 3 W~~a~i~livG~iiG~~~~R 22 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMR 22 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444555555555555543
No 224
>PF14979 TMEM52: Transmembrane 52
Probab=24.89 E-value=1.5e+02 Score=25.34 Aligned_cols=12 Identities=17% Similarity=0.318 Sum_probs=5.5
Q ss_pred HHHHHHHHHHhh
Q 047079 37 VGFFSVYFCRCF 48 (296)
Q Consensus 37 l~~~~i~~~~~~ 48 (296)
-|+....++.|+
T Consensus 35 CG~ta~C~rfCC 46 (154)
T PF14979_consen 35 CGLTASCVRFCC 46 (154)
T ss_pred HHHHHHHHHHHH
Confidence 344455555343
No 225
>PF13179 DUF4006: Family of unknown function (DUF4006)
Probab=24.75 E-value=1.4e+02 Score=21.97 Aligned_cols=22 Identities=14% Similarity=0.455 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~ 44 (296)
++|+.++++.++.++++..+-+
T Consensus 16 ~LIAvvLLLsIl~~lt~~ai~~ 37 (66)
T PF13179_consen 16 MLIAVVLLLSILAFLTYWAIKV 37 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555444443
No 226
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=24.50 E-value=84 Score=31.00 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCCCCchHH
Q 047079 7 PSSSYPPHAENYASPPIT 24 (296)
Q Consensus 7 ~~~s~~p~~~~~~~~~~~ 24 (296)
.++.+.|..+.|.-..++
T Consensus 4 ~~~~F~p~~~~Y~qsL~~ 21 (406)
T PF04906_consen 4 VSSTFNPQDEEYQQSLLI 21 (406)
T ss_pred CCCCCCCCCHHHHHHHHH
Confidence 455677766666654433
No 227
>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=24.24 E-value=64 Score=25.97 Aligned_cols=46 Identities=22% Similarity=0.364 Sum_probs=27.1
Q ss_pred CCcccccccccccc--CceeEEecccCceechhhhHHHHhcCC--CCCCcCc
Q 047079 102 YGLECAICLAEFED--DNILRLLTVCYHVFHQECIDLWLESHK--TCPVCRS 149 (296)
Q Consensus 102 ~~~~C~ICl~~~~~--~~~~r~lp~C~H~Fh~~CI~~Wl~~~~--tCP~CR~ 149 (296)
+...|++|...|.. +... .-..|.|.+|..|-.. ..+.. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~-~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGR-VCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCE-EETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCC-cCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 45689999987643 2233 3345999999999554 11122 2777743
No 228
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=24.01 E-value=1.1e+02 Score=27.19 Aligned_cols=12 Identities=25% Similarity=0.595 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q 047079 24 TIILTVTLLVFF 35 (296)
Q Consensus 24 ~Ivl~vli~v~~ 35 (296)
+++++|.|++|+
T Consensus 56 l~w~~I~FliL~ 67 (204)
T PRK09174 56 LLWLAITFGLFY 67 (204)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 229
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=23.92 E-value=58 Score=25.98 Aligned_cols=31 Identities=19% Similarity=0.394 Sum_probs=27.1
Q ss_pred cccccccccccCceeEEecccCceechhhhHHH
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLW 137 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~W 137 (296)
.|.||-+++..|+....+. +-..|..|+..=
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~ 34 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREK 34 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHH
Confidence 5999999999999888887 488999998874
No 230
>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=23.73 E-value=1.2e+02 Score=23.78 Aligned_cols=23 Identities=4% Similarity=-0.024 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 047079 26 ILTVTLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 26 vl~vli~v~~~l~~~~i~~~~~~ 48 (296)
++.+++++.++.+....+++-|+
T Consensus 41 ~i~~lvaVg~~YL~y~~fLkDlI 63 (91)
T PF01708_consen 41 AIFTLVAVGCLYLAYTWFLKDLI 63 (91)
T ss_pred eehHHHHHHHHHHHHHHHHHHHh
Confidence 33334444444444444444443
No 231
>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=23.72 E-value=94 Score=30.20 Aligned_cols=25 Identities=12% Similarity=0.273 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
..|+..++.++++++..++||+.-+
T Consensus 310 t~IiaSiIAIvvIVLIMvIIYLILR 334 (353)
T TIGR01477 310 TPIIASIIAILIIVLIMVIIYLILR 334 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555566665443
No 232
>CHL00186 psaI photosystem I subunit VIII; Validated
Probab=23.66 E-value=1.7e+02 Score=18.89 Aligned_cols=28 Identities=14% Similarity=0.138 Sum_probs=19.6
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 047079 18 YASPPITIILTVTLLVFFFVGFFSVYFC 45 (296)
Q Consensus 18 ~~~~~~~Ivl~vli~v~~~l~~~~i~~~ 45 (296)
...|++++=++.++.-.++++++.+|+.
T Consensus 4 s~LPsI~VPlVGlvfPai~Ma~lf~yIe 31 (36)
T CHL00186 4 SNLPSILVPLVGLVFPAIAMASLFLYIQ 31 (36)
T ss_pred ccCchhHHhHHHHHHHHHHHHHHHHHhh
Confidence 3456677777777777777777777764
No 233
>COG3905 Predicted transcriptional regulator [Transcription]
Probab=23.55 E-value=37 Score=26.06 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=18.7
Q ss_pred cccccccHHHH---HHHhccCcccccee
Q 047079 241 RHTLRLPENVK---LKILRGHNWTGSCI 265 (296)
Q Consensus 241 r~tlrLpe~v~---~~~~~~~~~~~s~~ 265 (296)
-||+||+++++ .+|....+|++|.+
T Consensus 4 a~tirl~del~~rLd~lAe~~~rsrs~i 31 (83)
T COG3905 4 AFTIRLDDELKRRLDELAEATDRSRSYI 31 (83)
T ss_pred ceEEecCHHHHHHHHHHHHHhccChhhh
Confidence 37999999995 34556678888765
No 234
>PLN02436 cellulose synthase A
Probab=23.49 E-value=78 Score=35.16 Aligned_cols=51 Identities=25% Similarity=0.571 Sum_probs=34.9
Q ss_pred CCccccccccccc---cCceeEEecccCceechhhhHHHH-hcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFE---DDNILRLLTVCYHVFHQECIDLWL-ESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~---~~~~~r~lp~C~H~Fh~~CI~~Wl-~~~~tCP~CR~~~~ 152 (296)
....|.||-+++. +++...-...|+--.|..|.+-=- ..++.||.|+....
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 444443333488889999984322 24677999987765
No 235
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=23.41 E-value=93 Score=28.28 Aligned_cols=24 Identities=29% Similarity=0.438 Sum_probs=13.2
Q ss_pred CchHHHHHHHH-HHHHHHHHHHHHH
Q 047079 20 SPPITIILTVT-LLVFFFVGFFSVY 43 (296)
Q Consensus 20 ~~~~~Ivl~vl-i~v~~~l~~~~i~ 43 (296)
+++++|+++++ +++++++++-+++
T Consensus 184 ~~~W~i~~~v~~i~~i~vv~i~~ir 208 (226)
T PHA02662 184 TPPWTLLLAVAAVTVLGVVAVSLLR 208 (226)
T ss_pred CCcchhHHHHHHHHHHHHHHHHHHH
Confidence 34666666666 5555555454444
No 236
>PRK11827 hypothetical protein; Provisional
Probab=23.23 E-value=37 Score=24.49 Aligned_cols=20 Identities=35% Similarity=0.534 Sum_probs=15.5
Q ss_pred HHHHhcCCCCCCcCcCCCCC
Q 047079 135 DLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 135 ~~Wl~~~~tCP~CR~~~~~~ 154 (296)
++||..--.||+|+.+|...
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 56777777899999888653
No 237
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.22 E-value=30 Score=34.44 Aligned_cols=38 Identities=24% Similarity=0.439 Sum_probs=27.3
Q ss_pred CccccccccccccCc----eeEEecccCceechhhhHHHHhc
Q 047079 103 GLECAICLAEFEDDN----ILRLLTVCYHVFHQECIDLWLES 140 (296)
Q Consensus 103 ~~~C~ICl~~~~~~~----~~r~lp~C~H~Fh~~CI~~Wl~~ 140 (296)
...|+.|...++.+. .......|.|.||..|+..|-..
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 345999999888765 12222249999999998888654
No 238
>PTZ00046 rifin; Provisional
Probab=23.05 E-value=92 Score=30.35 Aligned_cols=25 Identities=16% Similarity=0.297 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
..|+..++.++++++..++||+.-+
T Consensus 315 taIiaSiiAIvVIVLIMvIIYLILR 339 (358)
T PTZ00046 315 TAIIASIVAIVVIVLIMVIIYLILR 339 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555566665443
No 239
>CHL00031 psbT photosystem II protein T
Probab=22.92 E-value=87 Score=19.82 Aligned_cols=18 Identities=28% Similarity=0.549 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 047079 27 LTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 27 l~vli~v~~~l~~~~i~~ 44 (296)
.++++...+.++||.|++
T Consensus 6 Ytfll~~tlgilFFAI~F 23 (33)
T CHL00031 6 YTFLLVSTLGIIFFAIFF 23 (33)
T ss_pred HHHHHHHHHHHHHHhhee
Confidence 333444444455555544
No 240
>PF10857 DUF2701: Protein of unknown function (DUF2701); InterPro: IPR022586 This entry represents viral proteins with unknown function. The entry contains ORF C51 from Swinepox virus (strain Kasza).
Probab=22.65 E-value=31 Score=25.04 Aligned_cols=19 Identities=11% Similarity=0.434 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 047079 30 TLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 30 li~v~~~l~~~~i~~~~~~ 48 (296)
+++++.|+.++++|+.+|.
T Consensus 4 ~~vvi~i~~~lllyLvkws 22 (63)
T PF10857_consen 4 FVVVIVILAYLLLYLVKWS 22 (63)
T ss_pred EeeHHHHHHHHHHHHHHHH
Confidence 3445555666666666654
No 241
>PRK11877 psaI photosystem I reaction center subunit VIII; Reviewed
Probab=22.63 E-value=1.6e+02 Score=19.34 Aligned_cols=28 Identities=18% Similarity=0.125 Sum_probs=19.3
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 047079 18 YASPPITIILTVTLLVFFFVGFFSVYFC 45 (296)
Q Consensus 18 ~~~~~~~Ivl~vli~v~~~l~~~~i~~~ 45 (296)
...|++++=++.++.-.++++++.+|+-
T Consensus 8 s~LPsI~VPlVGlvfPai~Mallf~yIe 35 (38)
T PRK11877 8 SWLPWIFVPLVGWVFPAVFMVLLGRYIT 35 (38)
T ss_pred HhCchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3456677777777767777777777763
No 242
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.36 E-value=37 Score=26.62 Aligned_cols=13 Identities=23% Similarity=0.805 Sum_probs=11.0
Q ss_pred eechhhhHHHHhc
Q 047079 128 VFHQECIDLWLES 140 (296)
Q Consensus 128 ~Fh~~CI~~Wl~~ 140 (296)
-||..|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999853
No 243
>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=22.30 E-value=77 Score=21.22 Aligned_cols=34 Identities=21% Similarity=0.311 Sum_probs=24.0
Q ss_pred CCcccccccccc--ccCceeEEecccCceechhhhHH
Q 047079 102 YGLECAICLAEF--EDDNILRLLTVCYHVFHQECIDL 136 (296)
Q Consensus 102 ~~~~C~ICl~~~--~~~~~~r~lp~C~H~Fh~~CI~~ 136 (296)
....|.+|.+.+ .....++..- |+-+.|.+|++.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 345799999988 4455566665 999999999764
No 244
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=22.16 E-value=89 Score=34.73 Aligned_cols=51 Identities=20% Similarity=0.521 Sum_probs=33.9
Q ss_pred CCcccccccccccc---CceeEEecccCceechhhhHH-HHhcCCCCCCcCcCCC
Q 047079 102 YGLECAICLAEFED---DNILRLLTVCYHVFHQECIDL-WLESHKTCPVCRSDLD 152 (296)
Q Consensus 102 ~~~~C~ICl~~~~~---~~~~r~lp~C~H~Fh~~CI~~-Wl~~~~tCP~CR~~~~ 152 (296)
....|.||-+++.. ++.......|+-=.|+.|-+- .=+.++.||.|+....
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 34589999998753 333332234777799999842 1235678999987654
No 245
>PF15069 FAM163: FAM163 family
Probab=22.14 E-value=38 Score=28.63 Aligned_cols=7 Identities=43% Similarity=1.398 Sum_probs=4.6
Q ss_pred CCCCCCc
Q 047079 141 HKTCPVC 147 (296)
Q Consensus 141 ~~tCP~C 147 (296)
+..||.|
T Consensus 91 ~~~CptC 97 (143)
T PF15069_consen 91 RSYCPTC 97 (143)
T ss_pred CCcCCCC
Confidence 3448888
No 246
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=22.09 E-value=50 Score=34.08 Aligned_cols=34 Identities=26% Similarity=0.547 Sum_probs=24.0
Q ss_pred CCcccccccccccc-----------CceeEEecccCceechhhhHHH
Q 047079 102 YGLECAICLAEFED-----------DNILRLLTVCYHVFHQECIDLW 137 (296)
Q Consensus 102 ~~~~C~ICl~~~~~-----------~~~~r~lp~C~H~Fh~~CI~~W 137 (296)
....|+||-+.|+. .+.+.+. =|-+||..|+..-
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 45689999999874 1223332 4889999998764
No 247
>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=21.80 E-value=1.3e+02 Score=24.83 Aligned_cols=26 Identities=15% Similarity=0.084 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRCF 48 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~~ 48 (296)
-..++++++.+++-++.+++++..|+
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCI 88 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666555444
No 248
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=21.46 E-value=71 Score=28.92 Aligned_cols=10 Identities=20% Similarity=0.272 Sum_probs=4.4
Q ss_pred CCCCCCcccc
Q 047079 224 SHSTGHSMHT 233 (296)
Q Consensus 224 ShStghs~~~ 233 (296)
.++.-|....
T Consensus 136 ~Q~g~h~~~y 145 (217)
T PF07423_consen 136 EQTGEHVMTY 145 (217)
T ss_pred ccCCCccccc
Confidence 3444444443
No 249
>TIGR03052 PS_I_psaI photosystem I reaction center subunit VIII. Members of this protein family are PsaI, subunit VIII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen.
Probab=21.44 E-value=1.1e+02 Score=19.07 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=15.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHH
Q 047079 20 SPPITIILTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 20 ~~~~~Ivl~vli~v~~~l~~~~i~~ 44 (296)
.|++++=++.++.-.++++++.+|+
T Consensus 3 LPsI~VPlVglvfPai~Ma~lf~yI 27 (31)
T TIGR03052 3 LPSIFVPLVGLVFPAVFMALLFRYI 27 (31)
T ss_pred CceeehhHHHHHHHHHHHHHHHHhe
Confidence 4555665666666666666666665
No 250
>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=21.40 E-value=86 Score=18.90 Aligned_cols=29 Identities=17% Similarity=0.488 Sum_probs=19.5
Q ss_pred cccccccccccCceeEEecccCceechhhh
Q 047079 105 ECAICLAEFEDDNILRLLTVCYHVFHQECI 134 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI 134 (296)
.|.||............. .|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~-~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCS-ECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeC-CCCCeEcCccC
Confidence 588997776554344443 48888888874
No 251
>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=21.31 E-value=1e+02 Score=30.40 Aligned_cols=29 Identities=17% Similarity=0.417 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047079 23 ITIILTVTLLVFFFVGFFSVYFCRCFMEN 51 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~~i~~~~~~~~~ 51 (296)
+++.++|-+++++++++++.|+.+|.+.+
T Consensus 285 ~~vtl~iPl~i~llL~llLs~Imc~rREG 313 (386)
T PF05510_consen 285 FLVTLAIPLIIALLLLLLLSYIMCCRREG 313 (386)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHheechHH
Confidence 44555555555555666666666554433
No 252
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.29 E-value=40 Score=29.27 Aligned_cols=24 Identities=25% Similarity=0.621 Sum_probs=13.2
Q ss_pred EEecccCceechhhhHHHHhcCCCCCCcCcC
Q 047079 120 RLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150 (296)
Q Consensus 120 r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~ 150 (296)
.+-+.|||++-. ..-..||+|.++
T Consensus 135 ~vC~vCGy~~~g-------e~P~~CPiCga~ 158 (166)
T COG1592 135 WVCPVCGYTHEG-------EAPEVCPICGAP 158 (166)
T ss_pred EEcCCCCCcccC-------CCCCcCCCCCCh
Confidence 334447776632 123459999643
No 253
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.23 E-value=74 Score=26.59 Aligned_cols=39 Identities=23% Similarity=0.485 Sum_probs=22.2
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
....|+-|-..|...+.....-. .....||.|...|...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d~--------------~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLDM--------------DGTFTCPRCGEELEED 136 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcCC--------------CCcEECCCCCCEEEEc
Confidence 34567777666665443321100 1236799999988643
No 254
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=20.89 E-value=1.2e+02 Score=18.74 Aligned_cols=18 Identities=28% Similarity=0.526 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 047079 27 LTVTLLVFFFVGFFSVYF 44 (296)
Q Consensus 27 l~vli~v~~~l~~~~i~~ 44 (296)
.+++++..+.++||.+++
T Consensus 6 Y~~ll~~tlgilffAI~F 23 (29)
T PF01405_consen 6 YTFLLIGTLGILFFAIFF 23 (29)
T ss_dssp HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHhhhhc
Confidence 333333333444444443
No 255
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=20.72 E-value=21 Score=28.99 Aligned_cols=23 Identities=4% Similarity=0.374 Sum_probs=1.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 047079 25 IILTVTLLVFFFVGFFSVYFCRC 47 (296)
Q Consensus 25 Ivl~vli~v~~~l~~~~i~~~~~ 47 (296)
+-|.++++++.++++|.+|+|++
T Consensus 27 aGIGiL~VILgiLLliGCWYckR 49 (118)
T PF14991_consen 27 AGIGILIVILGILLLIGCWYCKR 49 (118)
T ss_dssp -SSS-------------------
T ss_pred ccceeHHHHHHHHHHHhheeeee
Confidence 33445555555566667777654
No 256
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.66 E-value=66 Score=35.48 Aligned_cols=47 Identities=17% Similarity=0.219 Sum_probs=32.3
Q ss_pred CCccccccccccccCceeEEecccC-----ceechhhhHHHHhcCCCCCCcCcCCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCY-----HVFHQECIDLWLESHKTCPVCRSDLDLP 154 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~-----H~Fh~~CI~~Wl~~~~tCP~CR~~~~~~ 154 (296)
....|+-|-... .....|.|| ..||..| .+......||.|...+...
T Consensus 625 g~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 625 GRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPY 676 (1121)
T ss_pred cCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCcc
Confidence 556899997774 223445687 4699999 4445556799998877643
No 257
>PHA03164 hypothetical protein; Provisional
Probab=20.64 E-value=1.2e+02 Score=23.06 Aligned_cols=18 Identities=11% Similarity=0.455 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 047079 23 ITIILTVTLLVFFFVGFF 40 (296)
Q Consensus 23 ~~Ivl~vli~v~~~l~~~ 40 (296)
++|+..+++++++|++|+
T Consensus 60 FlvLtgLaIamILfiifv 77 (88)
T PHA03164 60 FLVLTGLAIAMILFIIFV 77 (88)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 334444444444444443
No 258
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=20.50 E-value=1.2e+02 Score=22.71 Aligned_cols=12 Identities=25% Similarity=0.417 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHH
Q 047079 32 LVFFFVGFFSVY 43 (296)
Q Consensus 32 ~v~~~l~~~~i~ 43 (296)
++++++.+..+|
T Consensus 57 ~v~ii~~l~flY 68 (72)
T PF12575_consen 57 FVLIIVLLTFLY 68 (72)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 259
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.45 E-value=76 Score=33.47 Aligned_cols=46 Identities=26% Similarity=0.494 Sum_probs=33.1
Q ss_pred cccccccccccCceeEEecccCc-eechhhhHHHHh--c----CCCCCCcCcCCCCC
Q 047079 105 ECAICLAEFEDDNILRLLTVCYH-VFHQECIDLWLE--S----HKTCPVCRSDLDLP 154 (296)
Q Consensus 105 ~C~ICl~~~~~~~~~r~lp~C~H-~Fh~~CI~~Wl~--~----~~tCP~CR~~~~~~ 154 (296)
.|+||-....- .....|+| ..+..|...... . ...||+||..+...
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 49999766432 34456999 899999887742 3 45689999877643
No 260
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=20.44 E-value=36 Score=34.88 Aligned_cols=52 Identities=13% Similarity=0.156 Sum_probs=45.9
Q ss_pred CCccccccccccccCceeEEecccCceechhhhHHHHhcCCCCCCcCcCCCC
Q 047079 102 YGLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDL 153 (296)
Q Consensus 102 ~~~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl~~~~tCP~CR~~~~~ 153 (296)
....|.+|+.........+++-.|.|.++..|+..|=.....|+.|.+.+..
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~ 310 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRT 310 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccc
Confidence 4568999999998888888888899999999999998888999999887754
No 261
>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=20.26 E-value=3e+02 Score=20.70 Aligned_cols=11 Identities=27% Similarity=0.223 Sum_probs=5.1
Q ss_pred CCCCHHHHhhC
Q 047079 76 PGLHPSLIQAF 86 (296)
Q Consensus 76 ~gl~~~~i~~l 86 (296)
.|++.+..+.|
T Consensus 34 ~gLs~~d~~~L 44 (75)
T PF06667_consen 34 QGLSEEDEQRL 44 (75)
T ss_pred CCCCHHHHHHH
Confidence 45555444443
No 262
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.15 E-value=91 Score=24.65 Aligned_cols=33 Identities=15% Similarity=0.325 Sum_probs=28.2
Q ss_pred ccccccccccccCceeEEecccCceechhhhHHHH
Q 047079 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWL 138 (296)
Q Consensus 104 ~~C~ICl~~~~~~~~~r~lp~C~H~Fh~~CI~~Wl 138 (296)
..|.||-..+..++.....+ .-..|.+|+..=.
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~ 39 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESK 39 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHH
Confidence 57999999999999888877 6788999988743
No 263
>PHA02831 EEV host range protein; Provisional
Probab=20.13 E-value=95 Score=28.99 Aligned_cols=16 Identities=31% Similarity=0.598 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHh
Q 047079 32 LVFFFVGFFSVYFCRC 47 (296)
Q Consensus 32 ~v~~~l~~~~i~~~~~ 47 (296)
+.|+|++-++.+++-|
T Consensus 240 ~~~~~~~~~~~~~~~~ 255 (268)
T PHA02831 240 ICFIFVLGLIALFLSC 255 (268)
T ss_pred HHHHHHHHHHHHhhcc
Confidence 3333333334445555
No 264
>PF08999 SP_C-Propep: Surfactant protein C, N terminal propeptide; InterPro: IPR015091 The N-terminal propeptide of surfactant protein C adopts an alpha-helical structure, with turn and extended regions. Its main function is the stabilisation of metastable surfactant protein C (SP-C), since the latter can irreversibly transform from its native alpha-helical structure to beta-sheet aggregates and form amyloid-like fibrils. The correct intracellular trafficking of proSP-C has also been reported to depend on the propeptide []. ; PDB: 1SPF_A 2YAD_F.
Probab=20.13 E-value=1.5e+02 Score=22.70 Aligned_cols=12 Identities=42% Similarity=0.653 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 047079 29 VTLLVFFFVGFF 40 (296)
Q Consensus 29 vli~v~~~l~~~ 40 (296)
++++++.+++++
T Consensus 43 vVlvVvvivg~L 54 (93)
T PF08999_consen 43 VVLVVVVIVGAL 54 (93)
T ss_dssp HHHHHHHHHHHH
T ss_pred eehhHHHHHHHH
Confidence 333333334443
Done!