Query 038034
Match_columns 422
No_of_seqs 363 out of 1753
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 06:52:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038034.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038034hhsearch_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 9.9E-18 2.1E-22 168.8 10.5 77 88-165 203-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 9.3E-14 2E-18 100.4 0.8 44 115-159 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.2 5.3E-12 1.1E-16 122.3 2.8 75 89-163 147-227 (238)
4 COG5540 RING-finger-containing 99.2 6.2E-12 1.3E-16 123.9 1.7 52 112-164 321-373 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.1 3.3E-11 7.1E-16 96.8 2.3 45 114-159 19-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.1 5.6E-11 1.2E-15 119.8 4.2 73 92-167 267-349 (491)
7 KOG0317 Predicted E3 ubiquitin 98.7 2.9E-09 6.3E-14 104.7 1.2 51 113-167 238-288 (293)
8 PF12861 zf-Apc11: Anaphase-pr 98.7 3.1E-09 6.8E-14 87.6 1.2 51 113-163 20-82 (85)
9 cd00162 RING RING-finger (Real 98.7 3.7E-09 8.1E-14 74.1 1.3 44 116-162 1-45 (45)
10 PF13920 zf-C3HC4_3: Zinc fing 98.7 5.5E-09 1.2E-13 77.5 1.6 46 114-163 2-48 (50)
11 PLN03208 E3 ubiquitin-protein 98.7 5.4E-09 1.2E-13 98.2 1.6 52 112-167 16-83 (193)
12 KOG0823 Predicted E3 ubiquitin 98.7 1.7E-08 3.7E-13 96.7 4.5 54 111-168 44-100 (230)
13 PF13923 zf-C3HC4_2: Zinc fing 98.6 1.2E-08 2.5E-13 72.0 1.5 39 117-158 1-39 (39)
14 PHA02926 zinc finger-like prot 98.6 7.7E-09 1.7E-13 98.7 -0.2 53 111-163 167-230 (242)
15 KOG0802 E3 ubiquitin ligase [P 98.6 1.1E-08 2.5E-13 109.9 -0.2 52 113-165 290-343 (543)
16 KOG0320 Predicted E3 ubiquitin 98.5 1.8E-08 3.9E-13 93.2 0.0 52 113-166 130-181 (187)
17 COG5194 APC11 Component of SCF 98.5 2.8E-08 6.1E-13 80.7 -0.1 51 115-165 21-83 (88)
18 PF00097 zf-C3HC4: Zinc finger 98.4 7.2E-08 1.6E-12 68.2 1.4 39 117-158 1-41 (41)
19 smart00504 Ubox Modified RING 98.4 1.1E-07 2.5E-12 72.7 2.2 48 115-166 2-49 (63)
20 PF14634 zf-RING_5: zinc-RING 98.4 8E-08 1.7E-12 69.6 1.0 44 116-160 1-44 (44)
21 PF15227 zf-C3HC4_4: zinc fing 98.4 1.3E-07 2.8E-12 68.2 1.7 38 117-158 1-42 (42)
22 smart00184 RING Ring finger. E 98.4 9.6E-08 2.1E-12 64.5 0.7 38 117-158 1-39 (39)
23 TIGR00599 rad18 DNA repair pro 98.4 1.5E-07 3.3E-12 97.5 2.2 53 109-165 21-73 (397)
24 KOG1493 Anaphase-promoting com 98.2 1E-07 2.2E-12 76.9 -2.0 51 113-163 19-81 (84)
25 COG5219 Uncharacterized conser 98.2 1.7E-07 3.6E-12 103.5 -1.9 69 95-163 1450-1523(1525)
26 KOG0828 Predicted E3 ubiquitin 98.2 1E-06 2.2E-11 92.1 3.2 51 113-164 570-635 (636)
27 KOG2930 SCF ubiquitin ligase, 98.0 7.2E-07 1.6E-11 75.9 -0.6 51 113-163 45-108 (114)
28 COG5574 PEX10 RING-finger-cont 98.0 1.3E-06 2.8E-11 85.4 0.6 51 113-167 214-266 (271)
29 KOG0287 Postreplication repair 98.0 1E-06 2.3E-11 88.5 -1.2 56 108-167 17-72 (442)
30 KOG0804 Cytoplasmic Zn-finger 98.0 2.4E-06 5.3E-11 88.5 1.4 51 110-163 171-222 (493)
31 KOG2164 Predicted E3 ubiquitin 97.9 3E-06 6.6E-11 89.2 1.2 55 114-172 186-245 (513)
32 KOG1734 Predicted RING-contain 97.9 2.5E-06 5.4E-11 83.6 0.4 53 112-165 222-283 (328)
33 TIGR00570 cdk7 CDK-activating 97.9 7.1E-06 1.5E-10 82.4 2.5 55 114-169 3-60 (309)
34 KOG2177 Predicted E3 ubiquitin 97.9 3.7E-06 8E-11 79.1 0.3 45 111-159 10-54 (386)
35 smart00744 RINGv The RING-vari 97.8 4E-06 8.8E-11 62.5 0.4 42 116-159 1-49 (49)
36 PF04564 U-box: U-box domain; 97.8 5.9E-06 1.3E-10 66.2 1.3 49 113-165 3-52 (73)
37 COG5432 RAD18 RING-finger-cont 97.8 4.4E-06 9.4E-11 82.7 0.3 52 109-164 20-71 (391)
38 PF11793 FANCL_C: FANCL C-term 97.8 4.4E-06 9.6E-11 66.7 0.2 50 114-163 2-66 (70)
39 PF13445 zf-RING_UBOX: RING-ty 97.7 1E-05 2.2E-10 58.9 0.9 38 117-156 1-43 (43)
40 KOG0827 Predicted E3 ubiquitin 97.5 2E-05 4.4E-10 80.6 0.1 48 115-162 5-55 (465)
41 KOG4265 Predicted E3 ubiquitin 97.5 3.5E-05 7.6E-10 78.3 1.4 49 112-164 288-337 (349)
42 KOG0825 PHD Zn-finger protein 97.5 2E-05 4.3E-10 86.3 -0.8 53 115-168 124-176 (1134)
43 PF14835 zf-RING_6: zf-RING of 97.4 0.00011 2.4E-09 57.9 2.4 49 114-167 7-55 (65)
44 KOG0311 Predicted E3 ubiquitin 97.4 1.2E-05 2.6E-10 81.4 -3.8 52 111-165 40-92 (381)
45 KOG1039 Predicted E3 ubiquitin 97.3 0.00011 2.4E-09 75.1 1.7 53 112-164 159-222 (344)
46 KOG4172 Predicted E3 ubiquitin 97.2 4.1E-05 8.9E-10 58.4 -1.6 47 114-164 7-55 (62)
47 KOG4445 Uncharacterized conser 97.2 6.3E-05 1.4E-09 74.9 -0.9 54 113-167 114-190 (368)
48 KOG0824 Predicted E3 ubiquitin 97.1 0.00016 3.6E-09 72.1 1.4 50 114-167 7-57 (324)
49 KOG1645 RING-finger-containing 97.1 0.00017 3.7E-09 74.4 1.3 50 113-162 3-55 (463)
50 KOG3970 Predicted E3 ubiquitin 97.1 0.00012 2.6E-09 70.4 0.1 65 110-176 46-118 (299)
51 KOG0978 E3 ubiquitin ligase in 96.9 0.00019 4.2E-09 78.8 -0.8 52 113-168 642-694 (698)
52 KOG0801 Predicted E3 ubiquitin 96.6 0.00078 1.7E-08 62.0 1.4 31 112-143 175-205 (205)
53 KOG0297 TNF receptor-associate 96.6 0.0011 2.3E-08 69.2 2.6 54 111-167 18-71 (391)
54 KOG4159 Predicted E3 ubiquitin 96.6 0.00067 1.4E-08 70.8 0.9 49 112-164 82-130 (398)
55 KOG1785 Tyrosine kinase negati 96.5 0.0008 1.7E-08 69.4 0.3 51 115-169 370-422 (563)
56 KOG1941 Acetylcholine receptor 95.9 0.0015 3.3E-08 67.3 -1.2 46 114-160 365-413 (518)
57 PF11789 zf-Nse: Zinc-finger o 95.8 0.0032 7E-08 48.4 0.7 43 112-157 9-53 (57)
58 PF05883 Baculo_RING: Baculovi 95.6 0.0023 5.1E-08 57.3 -1.1 35 114-149 26-66 (134)
59 KOG1428 Inhibitor of type V ad 95.5 0.0049 1.1E-07 71.7 1.1 68 96-164 3467-3545(3738)
60 KOG2660 Locus-specific chromos 95.5 0.0026 5.6E-08 64.4 -1.2 53 111-166 12-64 (331)
61 KOG2879 Predicted E3 ubiquitin 95.4 0.0095 2.1E-07 59.1 2.6 50 112-164 237-288 (298)
62 PF10367 Vps39_2: Vacuolar sor 95.3 0.01 2.2E-07 49.6 2.0 33 112-146 76-108 (109)
63 PF12906 RINGv: RING-variant d 95.2 0.013 2.7E-07 43.4 2.0 40 117-158 1-47 (47)
64 KOG3039 Uncharacterized conser 95.0 0.017 3.6E-07 56.6 2.9 53 115-167 222-274 (303)
65 KOG1571 Predicted E3 ubiquitin 94.8 0.018 4E-07 58.9 2.5 44 113-163 304-347 (355)
66 KOG0826 Predicted E3 ubiquitin 94.7 0.028 6.1E-07 57.0 3.7 49 112-163 298-346 (357)
67 KOG1002 Nucleotide excision re 94.6 0.0076 1.6E-07 64.4 -0.7 51 111-165 533-588 (791)
68 COG5152 Uncharacterized conser 94.5 0.0086 1.9E-07 57.0 -0.5 46 115-164 197-242 (259)
69 PHA02862 5L protein; Provision 94.5 0.013 2.9E-07 53.1 0.7 46 114-164 2-54 (156)
70 PHA03096 p28-like protein; Pro 94.2 0.013 2.7E-07 58.9 -0.1 46 115-160 179-231 (284)
71 KOG1813 Predicted E3 ubiquitin 94.1 0.023 5E-07 56.9 1.5 46 115-164 242-287 (313)
72 KOG1952 Transcription factor N 94.0 0.014 3.1E-07 65.2 -0.1 48 113-160 190-244 (950)
73 KOG1814 Predicted E3 ubiquitin 93.8 0.015 3.3E-07 60.5 -0.4 38 113-151 183-220 (445)
74 PF04641 Rtf2: Rtf2 RING-finge 93.5 0.045 9.8E-07 54.0 2.4 58 112-170 111-168 (260)
75 PF14447 Prok-RING_4: Prokaryo 92.9 0.089 1.9E-06 40.4 2.6 46 115-166 8-53 (55)
76 PHA02825 LAP/PHD finger-like p 92.9 0.048 1E-06 50.3 1.3 50 111-164 5-60 (162)
77 KOG4739 Uncharacterized protei 92.7 0.039 8.5E-07 53.8 0.6 47 116-166 5-51 (233)
78 PF14570 zf-RING_4: RING/Ubox 92.6 0.049 1.1E-06 40.7 0.9 45 117-162 1-47 (48)
79 KOG0827 Predicted E3 ubiquitin 92.5 0.01 2.2E-07 61.3 -3.9 50 114-164 196-246 (465)
80 KOG4275 Predicted E3 ubiquitin 92.4 0.037 8.1E-07 55.5 -0.0 42 114-163 300-342 (350)
81 KOG3268 Predicted E3 ubiquitin 92.4 0.046 9.9E-07 51.4 0.5 30 135-164 189-229 (234)
82 KOG4185 Predicted E3 ubiquitin 91.6 0.084 1.8E-06 52.4 1.4 47 115-162 4-54 (296)
83 PF08746 zf-RING-like: RING-li 91.3 0.073 1.6E-06 38.7 0.5 41 117-158 1-43 (43)
84 PF10272 Tmpp129: Putative tra 89.9 0.13 2.7E-06 53.4 0.9 32 136-167 311-355 (358)
85 KOG4692 Predicted E3 ubiquitin 89.1 0.22 4.8E-06 51.3 1.9 50 112-165 420-469 (489)
86 COG5236 Uncharacterized conser 89.0 0.21 4.6E-06 51.3 1.7 66 94-163 40-108 (493)
87 KOG1001 Helicase-like transcri 88.8 0.11 2.3E-06 58.0 -0.5 49 115-168 455-505 (674)
88 KOG2114 Vacuolar assembly/sort 88.2 0.15 3.3E-06 57.4 0.1 40 115-160 841-880 (933)
89 COG5222 Uncharacterized conser 88.1 0.23 5E-06 50.1 1.3 43 115-160 275-318 (427)
90 PF14446 Prok-RING_1: Prokaryo 87.9 0.3 6.5E-06 37.4 1.5 41 113-157 4-44 (54)
91 PF02439 Adeno_E3_CR2: Adenovi 87.7 1.1 2.3E-05 32.0 4.1 29 37-66 5-33 (38)
92 PF07800 DUF1644: Protein of u 87.2 0.36 7.9E-06 44.6 1.9 37 113-150 1-47 (162)
93 KOG1940 Zn-finger protein [Gen 86.9 0.26 5.7E-06 49.3 1.0 46 114-160 158-204 (276)
94 KOG2932 E3 ubiquitin ligase in 86.6 0.26 5.7E-06 50.0 0.7 42 116-162 92-133 (389)
95 KOG0298 DEAD box-containing he 84.7 0.23 4.9E-06 58.3 -0.9 45 113-160 1152-1196(1394)
96 COG5175 MOT2 Transcriptional r 84.3 0.36 7.9E-06 49.5 0.5 55 112-167 12-68 (480)
97 KOG2034 Vacuolar sorting prote 84.2 0.27 5.8E-06 55.8 -0.6 37 111-149 814-850 (911)
98 KOG3002 Zn finger protein [Gen 82.2 0.7 1.5E-05 46.9 1.6 46 112-163 46-91 (299)
99 PF07213 DAP10: DAP10 membrane 80.7 4.9 0.00011 33.1 5.7 60 1-65 1-60 (79)
100 KOG0309 Conserved WD40 repeat- 80.5 0.63 1.4E-05 52.1 0.6 23 135-157 1047-1069(1081)
101 KOG3161 Predicted E3 ubiquitin 80.5 0.37 8.1E-06 53.0 -1.1 45 113-160 10-54 (861)
102 KOG2817 Predicted E3 ubiquitin 78.9 4.2 9E-05 42.6 5.9 45 113-158 333-380 (394)
103 KOG3053 Uncharacterized conser 78.7 0.51 1.1E-05 46.8 -0.7 53 111-164 17-83 (293)
104 COG5183 SSM4 Protein involved 77.9 1 2.3E-05 50.8 1.3 59 111-170 9-73 (1175)
105 KOG4362 Transcriptional regula 76.4 0.69 1.5E-05 51.5 -0.6 47 114-164 21-70 (684)
106 KOG0802 E3 ubiquitin ligase [P 76.2 1.5 3.2E-05 47.7 1.9 48 113-168 478-525 (543)
107 KOG1609 Protein involved in mR 74.6 0.83 1.8E-05 45.1 -0.5 50 114-164 78-135 (323)
108 KOG0269 WD40 repeat-containing 74.5 1.5 3.3E-05 49.1 1.4 41 115-157 780-820 (839)
109 PF01102 Glycophorin_A: Glycop 74.3 4.7 0.0001 35.9 4.2 19 36-54 65-83 (122)
110 KOG1812 Predicted E3 ubiquitin 72.4 1.3 2.7E-05 46.5 0.2 38 113-151 145-183 (384)
111 KOG0825 PHD Zn-finger protein 72.1 1.3 2.7E-05 50.0 0.1 53 113-165 95-156 (1134)
112 KOG1100 Predicted E3 ubiquitin 72.1 2.5 5.3E-05 40.7 2.1 39 117-163 161-200 (207)
113 KOG3899 Uncharacterized conser 72.0 0.89 1.9E-05 45.9 -1.0 32 136-167 325-369 (381)
114 COG5220 TFB3 Cdk activating ki 71.5 0.82 1.8E-05 45.0 -1.3 53 113-165 9-66 (314)
115 PHA02680 ORF090 IMV phosphoryl 69.4 9.3 0.0002 32.1 4.6 59 4-65 17-75 (91)
116 smart00249 PHD PHD zinc finger 68.1 3.8 8.2E-05 28.3 1.8 31 116-147 1-31 (47)
117 PF03854 zf-P11: P-11 zinc fin 65.5 1.9 4.1E-05 32.4 -0.2 29 136-164 18-47 (50)
118 smart00132 LIM Zinc-binding do 63.4 5.9 0.00013 26.4 2.0 38 116-163 1-38 (39)
119 PF05290 Baculo_IE-1: Baculovi 62.5 2.9 6.4E-05 37.7 0.5 52 114-165 80-134 (140)
120 PF00628 PHD: PHD-finger; Int 62.5 7.5 0.00016 28.2 2.6 44 116-160 1-50 (51)
121 KOG4718 Non-SMC (structural ma 62.4 3 6.5E-05 40.4 0.5 43 115-160 182-224 (235)
122 PF15102 TMEM154: TMEM154 prot 62.0 4.9 0.00011 36.8 1.8 8 144-151 129-136 (146)
123 PF13901 DUF4206: Domain of un 59.8 5.9 0.00013 37.8 2.0 41 114-160 152-197 (202)
124 KOG3800 Predicted E3 ubiquitin 58.5 4.4 9.6E-05 40.9 1.0 52 116-168 2-56 (300)
125 KOG1829 Uncharacterized conser 57.8 2.6 5.6E-05 46.4 -0.9 44 113-160 510-558 (580)
126 KOG2066 Vacuolar assembly/sort 55.3 4.6 9.9E-05 45.7 0.5 45 114-160 784-832 (846)
127 KOG4367 Predicted Zn-finger pr 55.2 3.1 6.7E-05 44.2 -0.8 35 112-150 2-36 (699)
128 PF00412 LIM: LIM domain; Int 54.3 13 0.00028 27.4 2.7 40 117-166 1-40 (58)
129 PF12877 DUF3827: Domain of un 54.3 13 0.00029 41.3 3.8 15 297-311 497-514 (684)
130 KOG3005 GIY-YIG type nuclease 54.2 5.1 0.00011 40.1 0.6 48 115-162 183-242 (276)
131 TIGR00622 ssl1 transcription f 53.3 16 0.00035 32.1 3.4 46 114-159 55-110 (112)
132 PF01363 FYVE: FYVE zinc finge 51.8 10 0.00023 29.3 1.9 39 112-150 7-45 (69)
133 PF15050 SCIMP: SCIMP protein 50.0 23 0.0005 31.6 3.9 28 33-62 7-34 (133)
134 PF07975 C1_4: TFIIH C1-like d 49.6 8.7 0.00019 29.1 1.1 42 117-159 2-50 (51)
135 KOG2807 RNA polymerase II tran 48.5 13 0.00029 38.3 2.5 59 100-160 314-375 (378)
136 PF06024 DUF912: Nucleopolyhed 45.8 17 0.00037 31.0 2.4 23 37-59 61-83 (101)
137 KOG1812 Predicted E3 ubiquitin 45.7 11 0.00023 39.6 1.4 45 114-159 306-352 (384)
138 PF13719 zinc_ribbon_5: zinc-r 45.6 14 0.00031 25.7 1.6 27 115-141 3-36 (37)
139 KOG1815 Predicted E3 ubiquitin 44.8 6.8 0.00015 41.6 -0.2 54 111-167 67-130 (444)
140 PHA02819 hypothetical protein; 44.8 49 0.0011 26.8 4.7 8 1-8 1-8 (71)
141 PF01708 Gemini_mov: Geminivir 44.5 17 0.00036 30.8 2.1 30 31-60 31-60 (91)
142 PHA03048 IMV membrane protein; 44.1 48 0.001 28.1 4.7 57 4-65 17-74 (93)
143 PF08693 SKG6: Transmembrane a 43.8 3.7 7.9E-05 29.7 -1.6 21 34-54 11-31 (40)
144 PRK14750 kdpF potassium-transp 43.2 41 0.0009 22.6 3.3 20 38-57 3-22 (29)
145 PF15176 LRR19-TM: Leucine-ric 42.9 54 0.0012 28.4 5.0 23 39-61 18-40 (102)
146 PRK14748 kdpF potassium-transp 42.5 45 0.00099 22.4 3.4 22 38-59 3-24 (29)
147 KOG2068 MOT2 transcription fac 42.2 15 0.00032 37.9 1.7 47 115-162 250-297 (327)
148 KOG2041 WD40 repeat protein [G 42.1 16 0.00035 41.4 2.1 28 131-162 1157-1184(1189)
149 PF04216 FdhE: Protein involve 41.6 10 0.00022 37.9 0.5 47 114-160 172-219 (290)
150 KOG3113 Uncharacterized conser 41.5 11 0.00025 37.5 0.8 55 114-170 111-165 (293)
151 PF02009 Rifin_STEVOR: Rifin/s 41.4 27 0.00058 35.6 3.5 27 36-63 257-283 (299)
152 PF05510 Sarcoglycan_2: Sarcog 41.1 36 0.00077 36.0 4.4 34 33-66 280-313 (386)
153 PF01102 Glycophorin_A: Glycop 40.2 39 0.00084 30.1 3.9 30 37-66 63-92 (122)
154 PF08374 Protocadherin: Protoc 39.4 19 0.00042 35.0 1.9 31 32-64 35-65 (221)
155 PF05767 Pox_A14: Poxvirus vir 39.2 59 0.0013 27.6 4.5 57 4-64 17-74 (92)
156 TIGR00540 hemY_coli hemY prote 38.3 28 0.00062 36.0 3.2 14 1-14 1-14 (409)
157 PF07010 Endomucin: Endomucin; 38.0 83 0.0018 31.1 6.0 24 43-66 195-218 (259)
158 PRK05978 hypothetical protein; 37.7 25 0.00055 32.3 2.4 27 137-168 42-68 (148)
159 PF13209 DUF4017: Protein of u 36.8 42 0.00091 26.0 3.0 36 1-38 1-36 (60)
160 COG5109 Uncharacterized conser 36.6 81 0.0017 32.7 5.9 47 111-158 333-382 (396)
161 PRK10747 putative protoheme IX 35.6 34 0.00073 35.4 3.2 14 1-14 1-14 (398)
162 KOG0824 Predicted E3 ubiquitin 34.9 21 0.00046 36.4 1.6 51 112-165 103-153 (324)
163 KOG3579 Predicted E3 ubiquitin 34.5 24 0.00052 35.8 1.8 39 113-151 267-305 (352)
164 smart00647 IBR In Between Ring 34.5 28 0.00061 25.9 1.9 21 128-148 38-58 (64)
165 PF10717 ODV-E18: Occlusion-de 34.5 60 0.0013 27.2 3.8 21 30-50 18-38 (85)
166 PF02656 DUF202: Domain of unk 33.9 78 0.0017 24.7 4.4 29 36-64 42-70 (73)
167 PF07423 DUF1510: Protein of u 33.0 26 0.00056 34.1 1.7 9 37-45 17-25 (217)
168 PF08114 PMP1_2: ATPase proteo 32.9 35 0.00076 24.9 1.9 29 36-64 8-36 (43)
169 PF10577 UPF0560: Uncharacteri 32.2 63 0.0014 37.1 4.8 78 286-363 659-750 (807)
170 PHA02692 hypothetical protein; 32.1 99 0.0021 25.0 4.6 8 1-8 1-8 (70)
171 COG5416 Uncharacterized integr 30.4 55 0.0012 28.1 3.0 45 10-55 34-79 (98)
172 PF01034 Syndecan: Syndecan do 30.3 17 0.00037 28.9 0.0 18 38-55 12-29 (64)
173 PLN02189 cellulose synthase 30.2 36 0.00077 40.2 2.5 51 113-163 33-87 (1040)
174 KOG4482 Sarcoglycan complex, a 29.9 74 0.0016 33.6 4.5 34 33-66 292-325 (449)
175 PHA02898 virion envelope prote 29.9 1.1E+02 0.0024 25.9 4.7 59 4-66 17-76 (92)
176 KOG3039 Uncharacterized conser 29.5 27 0.00059 34.8 1.3 36 111-150 40-75 (303)
177 PF04689 S1FA: DNA binding pro 29.4 38 0.00083 27.0 1.8 32 33-64 9-40 (69)
178 PF14311 DUF4379: Domain of un 29.2 45 0.00097 24.9 2.1 23 135-158 33-55 (55)
179 KOG4323 Polycomb-like PHD Zn-f 29.1 24 0.00052 38.0 0.9 51 113-163 167-226 (464)
180 KOG3842 Adaptor protein Pellin 29.0 33 0.00071 35.4 1.7 51 114-165 341-416 (429)
181 PRK14584 hmsS hemin storage sy 28.9 1.4E+02 0.003 27.7 5.7 21 46-66 68-88 (153)
182 KOG1729 FYVE finger containing 28.6 19 0.00041 36.5 -0.0 37 116-153 216-252 (288)
183 smart00064 FYVE Protein presen 28.4 30 0.00065 26.6 1.1 37 114-150 10-46 (68)
184 PF04423 Rad50_zn_hook: Rad50 28.0 21 0.00045 26.7 0.1 12 153-164 21-32 (54)
185 PF07330 DUF1467: Protein of u 27.7 2.2E+02 0.0047 23.8 6.1 35 8-42 16-55 (85)
186 PF05393 Hum_adeno_E3A: Human 27.1 94 0.002 26.4 3.8 27 37-65 32-58 (94)
187 PHA02849 putative transmembran 27.0 1.2E+02 0.0026 25.2 4.3 20 34-53 12-31 (82)
188 PF07191 zinc-ribbons_6: zinc- 27.0 22 0.00049 28.7 0.2 40 115-163 2-41 (70)
189 PF09723 Zn-ribbon_8: Zinc rib 26.8 37 0.0008 24.3 1.3 25 135-160 10-34 (42)
190 cd00350 rubredoxin_like Rubred 26.5 53 0.0011 22.2 1.9 19 136-160 7-25 (33)
191 PF12877 DUF3827: Domain of un 25.6 76 0.0016 35.7 3.9 14 53-66 285-298 (684)
192 PF14914 LRRC37AB_C: LRRC37A/B 25.4 1E+02 0.0022 28.5 4.1 15 52-66 135-149 (154)
193 PHA02902 putative IMV membrane 24.9 1.7E+02 0.0036 23.5 4.6 10 91-100 53-62 (70)
194 cd00065 FYVE FYVE domain; Zinc 24.6 38 0.00081 25.0 1.0 35 115-149 3-37 (57)
195 PF01299 Lamp: Lysosome-associ 24.3 49 0.0011 33.3 2.1 15 37-51 272-286 (306)
196 PF04710 Pellino: Pellino; In 24.1 26 0.00055 37.1 0.0 51 114-165 328-403 (416)
197 PF13717 zinc_ribbon_4: zinc-r 24.0 45 0.00097 23.2 1.2 27 115-141 3-36 (36)
198 PHA02650 hypothetical protein; 23.8 1.8E+02 0.0038 24.2 4.7 17 49-65 60-76 (81)
199 PTZ00046 rifin; Provisional 23.8 79 0.0017 33.1 3.4 29 35-64 315-343 (358)
200 TIGR01477 RIFIN variant surfac 23.6 84 0.0018 32.8 3.6 29 35-64 310-338 (353)
201 PLN02638 cellulose synthase A 23.6 54 0.0012 38.9 2.4 51 113-163 16-70 (1079)
202 KOG0860 Synaptobrevin/VAMP-lik 23.5 95 0.0021 27.5 3.4 15 40-54 96-110 (116)
203 PRK00523 hypothetical protein; 23.5 1.3E+02 0.0029 24.4 4.0 8 38-45 6-13 (72)
204 KOG2113 Predicted RNA binding 23.4 48 0.001 34.2 1.8 43 113-161 342-385 (394)
205 KOG4577 Transcription factor L 23.4 25 0.00054 35.8 -0.2 42 113-164 91-132 (383)
206 cd04718 BAH_plant_2 BAH, or Br 23.2 60 0.0013 29.9 2.2 25 140-164 2-30 (148)
207 PF04710 Pellino: Pellino; In 23.2 27 0.00059 36.9 0.0 44 114-161 277-337 (416)
208 PF02891 zf-MIZ: MIZ/SP-RING z 23.1 21 0.00046 26.6 -0.6 41 115-161 3-50 (50)
209 PF06906 DUF1272: Protein of u 23.0 54 0.0012 25.5 1.5 45 115-164 6-53 (57)
210 PLN02436 cellulose synthase A 22.8 59 0.0013 38.6 2.5 50 114-163 36-89 (1094)
211 PF03229 Alpha_GJ: Alphavirus 22.6 1.6E+02 0.0034 26.3 4.5 31 34-64 82-112 (126)
212 PF13832 zf-HC5HC2H_2: PHD-zin 22.5 39 0.00085 28.4 0.8 34 113-148 54-88 (110)
213 TIGR00627 tfb4 transcription f 22.3 47 0.001 33.5 1.5 18 144-161 261-278 (279)
214 PHA02657 hypothetical protein; 22.1 1.4E+02 0.0029 25.3 3.8 28 33-61 23-50 (95)
215 PF11980 DUF3481: Domain of un 21.8 1.2E+02 0.0026 25.5 3.4 36 31-66 9-44 (87)
216 PF12575 DUF3753: Protein of u 21.6 2E+02 0.0044 23.4 4.7 8 1-8 1-8 (72)
217 PLN02400 cellulose synthase 21.3 61 0.0013 38.5 2.3 51 113-163 35-89 (1085)
218 PF11023 DUF2614: Protein of u 21.0 70 0.0015 28.2 2.0 19 148-166 81-99 (114)
219 PF04478 Mid2: Mid2 like cell 20.8 17 0.00038 33.6 -1.8 30 35-66 49-78 (154)
220 TIGR01562 FdhE formate dehydro 20.7 56 0.0012 33.4 1.6 46 114-160 184-232 (305)
221 PLN02195 cellulose synthase A 20.6 86 0.0019 36.9 3.2 50 113-163 5-59 (977)
222 COG3071 HemY Uncharacterized e 20.6 1.2E+02 0.0026 32.2 4.0 16 1-16 1-16 (400)
223 PF07204 Orthoreo_P10: Orthore 20.3 77 0.0017 27.1 2.1 80 14-93 15-95 (98)
224 COG5151 SSL1 RNA polymerase II 20.2 77 0.0017 32.8 2.4 34 90-123 284-317 (421)
225 PF02318 FYVE_2: FYVE-type zin 20.2 86 0.0019 27.2 2.5 47 113-160 53-102 (118)
226 PF06844 DUF1244: Protein of u 20.1 25 0.00055 28.1 -0.8 12 139-150 11-22 (68)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=9.9e-18 Score=168.80 Aligned_cols=77 Identities=32% Similarity=0.733 Sum_probs=66.8
Q ss_pred cCCCCCHHHHhhCCceEeeccCCCCCCccccccccccccccceeecCCCCceeeCCchhhhhccCC-CCCcccccccCC
Q 038034 88 RFSGIDKAVIESLPLFRFASLRGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHA-SCPLCRYKFDGR 165 (422)
Q Consensus 88 ~~~gl~~~~i~~LP~~~~~~~~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~-sCPlCR~~l~~~ 165 (422)
+...+.+..++++|...|...........|+||||+|+.|+++++|| |+|.||..|||+||..+. .||+|++++...
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 45578899999999999977655444469999999999999999999 999999999999998875 599999977654
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=99.37 E-value=9.3e-14 Score=100.38 Aligned_cols=44 Identities=52% Similarity=1.141 Sum_probs=40.5
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCR 159 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 159 (422)
.+|+||++.|..++.+..++ |+|.||.+||.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999999999999998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=5.3e-12 Score=122.30 Aligned_cols=75 Identities=29% Similarity=0.609 Sum_probs=58.5
Q ss_pred CCCCCHHHHhhCCceEeecc--CCCCCCccccccccccccccc----eeecCCCCceeeCCchhhhhccCCCCCcccccc
Q 038034 89 FSGIDKAVIESLPLFRFASL--RGSKEGLECAVYLSKFEDTEI----LRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKF 162 (422)
Q Consensus 89 ~~gl~~~~i~~LP~~~~~~~--~~~~e~~~CsICLe~f~~~~~----~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l 162 (422)
..+..+..++.+|.+..... .....+.+|+||++.+.+++. +.+++.|+|.||..||.+|+..+.+||+||.++
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 45668999999999864332 223456899999999876541 234545999999999999999999999999876
Q ss_pred c
Q 038034 163 D 163 (422)
Q Consensus 163 ~ 163 (422)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=6.2e-12 Score=123.86 Aligned_cols=52 Identities=44% Similarity=1.096 Sum_probs=47.5
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccccC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDG 164 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~ 164 (422)
..+.+|+|||+.|..++.+++|| |+|.||..|+++|+.. +..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44689999999999999999999 9999999999999984 6789999998876
No 5
>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=99.10 E-value=3.3e-11 Score=96.77 Aligned_cols=45 Identities=42% Similarity=0.947 Sum_probs=35.4
Q ss_pred Cccccccccccccc----------cceeecCCCCceeeCCchhhhhccCCCCCccc
Q 038034 114 GLECAVYLSKFEDT----------EILRLLPKCRHAFHMSCIDQWLEGHASCPLCR 159 (422)
Q Consensus 114 ~~~CsICLe~f~~~----------~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 159 (422)
+..|+||++.|.+. -.+.+.+ |+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44699999999432 2334445 999999999999999999999997
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=5.6e-11 Score=119.80 Aligned_cols=73 Identities=25% Similarity=0.592 Sum_probs=54.4
Q ss_pred CCHHHHhhCCceEeeccCCCCCCccccccccc-cccc---------cceeecCCCCceeeCCchhhhhccCCCCCccccc
Q 038034 92 IDKAVIESLPLFRFASLRGSKEGLECAVYLSK-FEDT---------EILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYK 161 (422)
Q Consensus 92 l~~~~i~~LP~~~~~~~~~~~e~~~CsICLe~-f~~~---------~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 161 (422)
+.++.-+-+|+....+. ..++..|.||+++ |..+ .++..|| |||+||.+|+..|++++++||+||.+
T Consensus 267 ~~kdl~~~~~t~t~eql--~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p 343 (491)
T COG5243 267 ATKDLNAMYPTATEEQL--TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRP 343 (491)
T ss_pred HhhHHHhhcchhhhhhh--cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCc
Confidence 34445555666554443 3456799999999 5444 2567888 99999999999999999999999999
Q ss_pred ccCCCC
Q 038034 162 FDGRDR 167 (422)
Q Consensus 162 l~~~~~ 167 (422)
+.-+..
T Consensus 344 ~ifd~~ 349 (491)
T COG5243 344 VIFDQS 349 (491)
T ss_pred cccccC
Confidence 654333
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=2.9e-09 Score=104.71 Aligned_cols=51 Identities=35% Similarity=0.746 Sum_probs=44.1
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDR 167 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~ 167 (422)
....|.+||+.-.+ +..+| |||+||..||..|+..+..||+||..+.+.+.
T Consensus 238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 45689999998665 45678 99999999999999999999999998887654
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.73 E-value=3.1e-09 Score=87.64 Aligned_cols=51 Identities=31% Similarity=0.782 Sum_probs=40.1
Q ss_pred CCcccccccccccc--------c-cceeecCCCCceeeCCchhhhhcc---CCCCCccccccc
Q 038034 113 EGLECAVYLSKFED--------T-EILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~~--------~-~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~l~ 163 (422)
+++.|.||...|.. + +.+.++..|+|.||.+||.+||.. +..||+||+++.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47789999999862 1 233345569999999999999985 578999999764
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.72 E-value=3.7e-09 Score=74.10 Aligned_cols=44 Identities=50% Similarity=1.139 Sum_probs=36.6
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKF 162 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l 162 (422)
+|+||++.+ .+.+...+ |+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 33455565 9999999999999987 77899998753
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=98.69 E-value=5.5e-09 Score=77.45 Aligned_cols=46 Identities=33% Similarity=0.814 Sum_probs=39.1
Q ss_pred CccccccccccccccceeecCCCCce-eeCCchhhhhccCCCCCccccccc
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
+..|.||++...+ +..+| |||. |+..|+..|+.....||+||+++.
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 5689999998654 67788 9999 999999999999999999999875
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.68 E-value=5.4e-09 Score=98.25 Aligned_cols=52 Identities=23% Similarity=0.643 Sum_probs=41.6
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhcc----------------CCCCCcccccccCCCC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG----------------HASCPLCRYKFDGRDR 167 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~----------------~~sCPlCR~~l~~~~~ 167 (422)
.+..+|+||++.+.+ +.+++ |||.||..||..|+.. ...||+||..+.....
T Consensus 16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 456799999999865 34566 9999999999999852 3579999998876443
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=1.7e-08 Score=96.72 Aligned_cols=54 Identities=24% Similarity=0.552 Sum_probs=42.5
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhcc---CCCCCcccccccCCCCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRYKFDGRDRG 168 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~l~~~~~~ 168 (422)
.....+|.|||+.-++ +.++. |||.||..||.+||.. ...||+|+..+..+...
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence 3456799999998555 44555 9999999999999975 45699999988765543
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.63 E-value=1.2e-08 Score=72.04 Aligned_cols=39 Identities=36% Similarity=1.015 Sum_probs=32.8
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlC 158 (422)
|+||++.+.+ .+..++ |||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999877 335676 99999999999999999999998
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.59 E-value=7.7e-09 Score=98.72 Aligned_cols=53 Identities=28% Similarity=0.762 Sum_probs=40.4
Q ss_pred CCCCccccccccccccc-----cceeecCCCCceeeCCchhhhhccC------CCCCccccccc
Q 038034 111 SKEGLECAVYLSKFEDT-----EILRLLPKCRHAFHMSCIDQWLEGH------ASCPLCRYKFD 163 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~-----~~~r~Lp~C~H~FH~~CI~~WL~~~------~sCPlCR~~l~ 163 (422)
...+.+|+|||+..-+. ....+|+.|+|.||..||..|...+ .+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34567999999986432 1234666799999999999999753 45999998765
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=1.1e-08 Score=109.85 Aligned_cols=52 Identities=31% Similarity=0.730 Sum_probs=45.2
Q ss_pred CCccccccccccccccc--eeecCCCCceeeCCchhhhhccCCCCCcccccccCC
Q 038034 113 EGLECAVYLSKFEDTEI--LRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGR 165 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~--~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~ 165 (422)
.+..|+||++.+..+.. +..+| |+|+||..|+..|+++.++||+||..+...
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 46799999999988755 67888 999999999999999999999999955443
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=1.8e-08 Score=93.17 Aligned_cols=52 Identities=27% Similarity=0.627 Sum_probs=43.2
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
+...|+|||+.|.+... +..+|||+||..||..-++....||+|++.+..+.
T Consensus 130 ~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 34689999999887543 33469999999999999999999999999776543
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.47 E-value=2.8e-08 Score=80.71 Aligned_cols=51 Identities=31% Similarity=0.574 Sum_probs=39.3
Q ss_pred cccccccccccc------------ccceeecCCCCceeeCCchhhhhccCCCCCcccccccCC
Q 038034 115 LECAVYLSKFED------------TEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGR 165 (422)
Q Consensus 115 ~~CsICLe~f~~------------~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~ 165 (422)
+.|+||...|-+ ++.+.....|.|.||.+||.+||..+..||+||+.+...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 578888877632 233334445999999999999999999999999987543
No 18
>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=98.44 E-value=7.2e-08 Score=68.18 Aligned_cols=39 Identities=51% Similarity=1.240 Sum_probs=33.8
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhc--cCCCCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE--GHASCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~--~~~sCPlC 158 (422)
|+||++.+.... ..++ |+|.||..||.+|+. ....||+|
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 899999988754 4677 999999999999998 56679998
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.42 E-value=1.1e-07 Score=72.71 Aligned_cols=48 Identities=23% Similarity=0.555 Sum_probs=41.0
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
..|+||++.+.++ .+++ |||.|+..||.+|+..+.+||+|+.++...+
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4799999998873 4577 9999999999999999999999998875433
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.41 E-value=8e-08 Score=69.62 Aligned_cols=44 Identities=27% Similarity=0.743 Sum_probs=38.5
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
.|.||++.|.+.....+++ |||+|+..|+..+......||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999996666778887 9999999999999867788999985
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.38 E-value=1.3e-07 Score=68.22 Aligned_cols=38 Identities=39% Similarity=0.901 Sum_probs=28.9
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhccC----CCCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGH----ASCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~----~sCPlC 158 (422)
|+||++.|.+ +..|+ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999988 45576 99999999999999753 469988
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.37 E-value=9.6e-08 Score=64.54 Aligned_cols=38 Identities=42% Similarity=1.111 Sum_probs=32.4
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhc-cCCCCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE-GHASCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~-~~~sCPlC 158 (422)
|+||++. ...+..++ |+|.||..|++.|+. ....||+|
T Consensus 1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 8899988 34566787 999999999999998 67779998
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.36 E-value=1.5e-07 Score=97.49 Aligned_cols=53 Identities=28% Similarity=0.578 Sum_probs=44.4
Q ss_pred CCCCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCC
Q 038034 109 RGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGR 165 (422)
Q Consensus 109 ~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~ 165 (422)
........|+||++.|... .+++ |+|.||..||..|+.....||+|+..+...
T Consensus 21 ~~Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 3456678999999998763 3577 999999999999999888999999987643
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=1e-07 Score=76.94 Aligned_cols=51 Identities=29% Similarity=0.752 Sum_probs=39.1
Q ss_pred CCcccccccccccc---------ccceeecCCCCceeeCCchhhhhcc---CCCCCccccccc
Q 038034 113 EGLECAVYLSKFED---------TEILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~~---------~~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~l~ 163 (422)
.++.|-||.-.|.. ++.+.++..|.|.||.+||.+|+.. +..||+||+.+.
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 34589999988852 3344455569999999999999974 556999998654
No 25
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.19 E-value=1.7e-07 Score=103.51 Aligned_cols=69 Identities=23% Similarity=0.570 Sum_probs=48.4
Q ss_pred HHHhhCCceEeeccCCCCCCcccccccccccccc---ceeecCCCCceeeCCchhhhhcc--CCCCCccccccc
Q 038034 95 AVIESLPLFRFASLRGSKEGLECAVYLSKFEDTE---ILRLLPKCRHAFHMSCIDQWLEG--HASCPLCRYKFD 163 (422)
Q Consensus 95 ~~i~~LP~~~~~~~~~~~e~~~CsICLe~f~~~~---~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~l~ 163 (422)
...+.|-.++.+-.....+..+|+||...+..-+ .-..+++|+|.||..|+.+|++. +.+||+||..+.
T Consensus 1450 s~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1450 SFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4444455544444444566789999999876322 11345579999999999999985 678999997653
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=1e-06 Score=92.14 Aligned_cols=51 Identities=27% Similarity=0.759 Sum_probs=40.1
Q ss_pred CCcccccccccccccc--------------ceeecCCCCceeeCCchhhhhcc-CCCCCcccccccC
Q 038034 113 EGLECAVYLSKFEDTE--------------ILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDG 164 (422)
Q Consensus 113 e~~~CsICLe~f~~~~--------------~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~ 164 (422)
...+|+|||.++.--. ...++| |.|+||..|+.+|... +-.||+||.++.+
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4568999999875211 134567 9999999999999985 5689999998865
No 27
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=7.2e-07 Score=75.87 Aligned_cols=51 Identities=29% Similarity=0.593 Sum_probs=38.5
Q ss_pred CCccccccccccc-------------cccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFE-------------DTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~-------------~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
.-+.|+||...+- .++....-..|.|.||.+||.+||+++..||+|.++..
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 3468999988652 12223333359999999999999999999999987654
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=1.3e-06 Score=85.40 Aligned_cols=51 Identities=31% Similarity=0.651 Sum_probs=41.8
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhh-hhccCCC-CCcccccccCCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQ-WLEGHAS-CPLCRYKFDGRDR 167 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~-WL~~~~s-CPlCR~~l~~~~~ 167 (422)
.+..|+||++.... +..+| |||+||..||.. |-.++.. ||+||+.+.+.+.
T Consensus 214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 46789999998655 55677 999999999999 9777665 9999998877654
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.97 E-value=1e-06 Score=88.51 Aligned_cols=56 Identities=27% Similarity=0.596 Sum_probs=47.5
Q ss_pred cCCCCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCC
Q 038034 108 LRGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDR 167 (422)
Q Consensus 108 ~~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~ 167 (422)
......-..|-||.+-|.. +.++| |+|.||.-||...|..+..||.|+..+...+.
T Consensus 17 lk~lD~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 17 LKTLDDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred hhhhHHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 3445667899999999987 55778 99999999999999999999999988766544
No 30
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.96 E-value=2.4e-06 Score=88.55 Aligned_cols=51 Identities=35% Similarity=0.838 Sum_probs=40.0
Q ss_pred CCCCCccccccccccccccc-eeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 110 GSKEGLECAVYLSKFEDTEI-LRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 110 ~~~e~~~CsICLe~f~~~~~-~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
+..+..+|+|||+.+..... +.... |.|.||..|+..| ...+||+||.-..
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 34567899999999877643 33343 9999999999999 4678999997544
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=3e-06 Score=89.17 Aligned_cols=55 Identities=25% Similarity=0.451 Sum_probs=42.8
Q ss_pred CccccccccccccccceeecCCCCceeeCCchhhhhcc-----CCCCCcccccccCCCCCCCCC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-----HASCPLCRYKFDGRDRGSFSY 172 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~l~~~~~~~~~~ 172 (422)
+..|+|||+.... ...+ .|||+||..||-+++.. ...||+|+..+.+.+......
T Consensus 186 ~~~CPICL~~~~~---p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCCCc---cccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 6799999998554 2233 39999999999998853 467999999998877765533
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=2.5e-06 Score=83.64 Aligned_cols=53 Identities=30% Similarity=0.586 Sum_probs=43.4
Q ss_pred CCCcccccccccccccc-------ceeecCCCCceeeCCchhhhhc--cCCCCCcccccccCC
Q 038034 112 KEGLECAVYLSKFEDTE-------ILRLLPKCRHAFHMSCIDQWLE--GHASCPLCRYKFDGR 165 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~-------~~r~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~l~~~ 165 (422)
.++..|+||-..+.... ..-.|. |+|+||..||.-|.. ++++||.|+..++..
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 45679999999886554 556777 999999999999964 688999999887643
No 33
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.86 E-value=7.1e-06 Score=82.42 Aligned_cols=55 Identities=22% Similarity=0.492 Sum_probs=40.3
Q ss_pred Cccccccccc-ccccc-ceeecCCCCceeeCCchhhhh-ccCCCCCcccccccCCCCCC
Q 038034 114 GLECAVYLSK-FEDTE-ILRLLPKCRHAFHMSCIDQWL-EGHASCPLCRYKFDGRDRGS 169 (422)
Q Consensus 114 ~~~CsICLe~-f~~~~-~~r~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~l~~~~~~~ 169 (422)
+..|++|... |..++ .+.+.+ |||.||..||+..+ .....||.|+..+.......
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~ 60 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV 60 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence 4589999996 33333 333445 99999999999955 45668999999888765443
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=3.7e-06 Score=79.08 Aligned_cols=45 Identities=42% Similarity=0.938 Sum_probs=39.9
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccc
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCR 159 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 159 (422)
..+...|+||++.|... .++| |+|.||..||..++.....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 44677999999999997 6788 999999999999988666799999
No 35
>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=97.84 E-value=4e-06 Score=62.49 Aligned_cols=42 Identities=24% Similarity=0.740 Sum_probs=32.8
Q ss_pred cccccccccccccceeecCCCC-----ceeeCCchhhhhcc--CCCCCccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCR-----HAFHMSCIDQWLEG--HASCPLCR 159 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlCR 159 (422)
.|-||++ ...++...+.| |. |.+|..|+.+|+.. +.+||+|.
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 44444555788 85 89999999999965 45899994
No 36
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=97.84 E-value=5.9e-06 Score=66.15 Aligned_cols=49 Identities=24% Similarity=0.519 Sum_probs=38.0
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccccCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDGR 165 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~~ 165 (422)
+...|+||.+.+.+ +.++| |||.|...||..|+.. +.+||+|+.++...
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 45689999999988 45677 9999999999999998 89999999887654
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.82 E-value=4.4e-06 Score=82.70 Aligned_cols=52 Identities=25% Similarity=0.470 Sum_probs=43.4
Q ss_pred CCCCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 109 RGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 109 ~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
.+...-..|-||-+.|.. ...++ |||.||.-||...|..+..||+||.+...
T Consensus 20 ~~LDs~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 20 KGLDSMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hcchhHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 445566789999998876 33455 99999999999999999999999987654
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.82 E-value=4.4e-06 Score=66.68 Aligned_cols=50 Identities=32% Similarity=0.761 Sum_probs=23.6
Q ss_pred Cccccccccccc-cccc-eeecC--CCCceeeCCchhhhhcc----C-------CCCCccccccc
Q 038034 114 GLECAVYLSKFE-DTEI-LRLLP--KCRHAFHMSCIDQWLEG----H-------ASCPLCRYKFD 163 (422)
Q Consensus 114 ~~~CsICLe~f~-~~~~-~r~Lp--~C~H~FH~~CI~~WL~~----~-------~sCPlCR~~l~ 163 (422)
+.+|.||++.+. .++. ..+.+ +|++.||..||.+||.. + ..||.|+.++.
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 458999999876 3322 22332 69999999999999963 1 24999998774
No 39
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.73 E-value=1e-05 Score=58.87 Aligned_cols=38 Identities=26% Similarity=0.697 Sum_probs=22.6
Q ss_pred ccccccccccc-cceeecCCCCceeeCCchhhhhccC----CCCC
Q 038034 117 CAVYLSKFEDT-EILRLLPKCRHAFHMSCIDQWLEGH----ASCP 156 (422)
Q Consensus 117 CsICLe~f~~~-~~~r~Lp~C~H~FH~~CI~~WL~~~----~sCP 156 (422)
|+||.+ |... ..+.+|+ |||.|+.+||.+++... ..||
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 7554 4567898 99999999999999743 2476
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=2e-05 Score=80.63 Aligned_cols=48 Identities=33% Similarity=0.899 Sum_probs=36.2
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhcc---CCCCCcccccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRYKF 162 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~l 162 (422)
..|.||-+-+.....+.-...|||+||..|+.+|+.. +..||.|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 4899995555554555545469999999999999985 35799998333
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=3.5e-05 Score=78.29 Aligned_cols=49 Identities=33% Similarity=0.735 Sum_probs=40.7
Q ss_pred CCCccccccccccccccceeecCCCCce-eeCCchhhhhccCCCCCcccccccC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
+.+.+|.|||.+-.+ ..+|| |.|. .|..|.+.---+++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 346799999998665 66899 9998 7899988866678899999998764
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.48 E-value=2e-05 Score=86.29 Aligned_cols=53 Identities=21% Similarity=0.334 Sum_probs=44.6
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDRG 168 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~~ 168 (422)
..|++|+..+.++......+ |+|+||..||+.|-+.-.+||+||..|......
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 46889999888877666666 999999999999999999999999987654443
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.38 E-value=0.00011 Score=57.87 Aligned_cols=49 Identities=27% Similarity=0.566 Sum_probs=24.6
Q ss_pred CccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDR 167 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~ 167 (422)
...|++|.+.+..+- .+.+|.|+||..||..-+.. .||+|+.+--..|.
T Consensus 7 lLrCs~C~~~l~~pv---~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 7 LLRCSICFDILKEPV---CLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDI 55 (65)
T ss_dssp TTS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred hcCCcHHHHHhcCCc---eeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence 458999999987632 33459999999999986653 49999877654443
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=1.2e-05 Score=81.40 Aligned_cols=52 Identities=27% Similarity=0.540 Sum_probs=42.6
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccccCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDGR 165 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~~ 165 (422)
...+..|+|||+-++. .+..+.|.|.||.+||..-++. +.+||.||+.+...
T Consensus 40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 4457799999999876 3445679999999999998874 78899999987653
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00011 Score=75.12 Aligned_cols=53 Identities=28% Similarity=0.772 Sum_probs=40.8
Q ss_pred CCCcccccccccccccc----ceeecCCCCceeeCCchhhhh--cc-----CCCCCcccccccC
Q 038034 112 KEGLECAVYLSKFEDTE----ILRLLPKCRHAFHMSCIDQWL--EG-----HASCPLCRYKFDG 164 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~----~~r~Lp~C~H~FH~~CI~~WL--~~-----~~sCPlCR~~l~~ 164 (422)
..+.+|.||++...+.. ...+||+|.|.||..||..|- .+ ...||.||....-
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 34679999999876543 234667899999999999997 33 4679999976543
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=4.1e-05 Score=58.37 Aligned_cols=47 Identities=26% Similarity=0.501 Sum_probs=34.3
Q ss_pred CccccccccccccccceeecCCCCce-eeCCchhh-hhccCCCCCcccccccC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQ-WLEGHASCPLCRYKFDG 164 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~-WL~~~~sCPlCR~~l~~ 164 (422)
+.+|.||++.-.+ . +|..|||+ .|..|-.+ |-..+..||+||+++..
T Consensus 7 ~dECTICye~pvd--s--VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVD--S--VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcch--H--HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 3799999997444 2 23359998 67888554 44479999999998753
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.20 E-value=6.3e-05 Score=74.94 Aligned_cols=54 Identities=24% Similarity=0.679 Sum_probs=44.7
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc-----------------------CCCCCcccccccCCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-----------------------HASCPLCRYKFDGRDR 167 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-----------------------~~sCPlCR~~l~~~~~ 167 (422)
....|+|||--|.+++...+++ |.|.||..|+.++|.. ...||+||..+..+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 4568999999999999899998 9999999999988741 1349999998875433
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00016 Score=72.06 Aligned_cols=50 Identities=24% Similarity=0.461 Sum_probs=39.6
Q ss_pred CccccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccccCCCC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDGRDR 167 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~~~~ 167 (422)
..+|+||+..-.- +..|+ |+|.||.-||.--... ..+||+||.++.....
T Consensus 7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 4689999987443 45677 9999999999986654 6779999999986544
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00017 Score=74.41 Aligned_cols=50 Identities=30% Similarity=0.713 Sum_probs=38.2
Q ss_pred CCccccccccccccc-cceeecCCCCceeeCCchhhhhcc--CCCCCcccccc
Q 038034 113 EGLECAVYLSKFEDT-EILRLLPKCRHAFHMSCIDQWLEG--HASCPLCRYKF 162 (422)
Q Consensus 113 e~~~CsICLe~f~~~-~~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~l 162 (422)
.+..|+|||+.+.-. +...+.+.|+|.|..+||..||.+ ...||.|...-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 356899999998744 444444569999999999999953 34599997643
No 50
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00012 Score=70.44 Aligned_cols=65 Identities=20% Similarity=0.401 Sum_probs=51.8
Q ss_pred CCCCCccccccccccccccceeecCCCCceeeCCchhhhhcc--------CCCCCcccccccCCCCCCCCCCCcc
Q 038034 110 GSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG--------HASCPLCRYKFDGRDRGSFSYSNSL 176 (422)
Q Consensus 110 ~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR~~l~~~~~~~~~~~~s~ 176 (422)
..+....|..|--.+..++.+++. |.|.||..|++.|-.. ...||.|..++++......+.++.+
T Consensus 46 DsDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aL 118 (299)
T KOG3970|consen 46 DSDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEAL 118 (299)
T ss_pred hcCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHH
Confidence 355677899999999999999876 9999999999999753 3469999999998765554444433
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00019 Score=78.84 Aligned_cols=52 Identities=31% Similarity=0.683 Sum_probs=41.4
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc-CCCCCcccccccCCCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDGRDRG 168 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~~~~~ 168 (422)
+-..|++|-..+++ .. +++|+|+||..||.+-+.. +..||.|-.+|-+.|..
T Consensus 642 ~~LkCs~Cn~R~Kd---~v-I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---AV-ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred hceeCCCccCchhh---HH-HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 45689999977665 32 3459999999999999974 77899999988876653
No 52
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00078 Score=62.04 Aligned_cols=31 Identities=26% Similarity=0.594 Sum_probs=28.0
Q ss_pred CCCccccccccccccccceeecCCCCceeeCC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMS 143 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~ 143 (422)
++..+|.||||+++.++++..|| |-.+||+.
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK~ 205 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHKQ 205 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence 45679999999999999999999 99999973
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.64 E-value=0.0011 Score=69.16 Aligned_cols=54 Identities=28% Similarity=0.635 Sum_probs=44.4
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDR 167 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~ 167 (422)
..++..|++|...+.++-.. +. |||.||..|+..|+..+..||.|+..+.....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhc
Confidence 35678999999998875432 34 99999999999999999999999987765433
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.00067 Score=70.78 Aligned_cols=49 Identities=31% Similarity=0.739 Sum_probs=42.1
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
..+.+|.||+..+.. +..+| |||.||..||++-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 456799999888776 45667 99999999999988888889999998875
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.45 E-value=0.0008 Score=69.44 Aligned_cols=51 Identities=24% Similarity=0.670 Sum_probs=41.4
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhcc--CCCCCcccccccCCCCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG--HASCPLCRYKFDGRDRGS 169 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~l~~~~~~~ 169 (422)
.-|-||-+.- ..+++-| |||..|..|+..|... ..+||.||..+...+...
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vi 422 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVI 422 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccccee
Confidence 3699998763 4477888 9999999999999853 678999999998765543
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.86 E-value=0.0015 Score=67.31 Aligned_cols=46 Identities=39% Similarity=0.809 Sum_probs=38.3
Q ss_pred Ccccccccccccc-ccceeecCCCCceeeCCchhhhhccC--CCCCcccc
Q 038034 114 GLECAVYLSKFED-TEILRLLPKCRHAFHMSCIDQWLEGH--ASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~f~~-~~~~r~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~ 160 (422)
+.-|..|-+.+.. ++.+.-|| |.|+||..|+...|.++ .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4579999998864 35677898 99999999999999764 57999994
No 57
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.79 E-value=0.0032 Score=48.44 Aligned_cols=43 Identities=33% Similarity=0.719 Sum_probs=27.4
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhcc--CCCCCc
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG--HASCPL 157 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPl 157 (422)
.-...|+|.+..|+++ ++-. +|+|.|-...|.+|+.. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3456899999998874 3333 49999999999999944 456998
No 58
>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=95.55 E-value=0.0023 Score=57.29 Aligned_cols=35 Identities=14% Similarity=0.502 Sum_probs=29.0
Q ss_pred CccccccccccccccceeecCCCC------ceeeCCchhhhh
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCR------HAFHMSCIDQWL 149 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~------H~FH~~CI~~WL 149 (422)
..+|.||++.+...+-+..++ |+ |+||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 569999999999855555666 75 999999999994
No 59
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.54 E-value=0.0049 Score=71.67 Aligned_cols=68 Identities=24% Similarity=0.487 Sum_probs=48.9
Q ss_pred HHhhCCceEeecc-CCCCCCccccccccccccccceeecCCCCceeeCCchhhhhcc----------CCCCCcccccccC
Q 038034 96 VIESLPLFRFASL-RGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG----------HASCPLCRYKFDG 164 (422)
Q Consensus 96 ~i~~LP~~~~~~~-~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~----------~~sCPlCR~~l~~ 164 (422)
.-.-||....... ...+.++.|.||+.+--.....+.|. |+|+||.+|...-|.+ --+||+|..++..
T Consensus 3467 EE~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3467 EEHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hhhcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 3445777665432 23456778999998866666677786 9999999998765543 2369999998864
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.48 E-value=0.0026 Score=64.38 Aligned_cols=53 Identities=25% Similarity=0.530 Sum_probs=43.8
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
......|.+|-.-|-+...+ . .|-|.||..||.+.|....+||.|...+....
T Consensus 12 ~n~~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred cccceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 44567999999988876554 3 49999999999999999999999988776543
No 61
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0095 Score=59.08 Aligned_cols=50 Identities=22% Similarity=0.342 Sum_probs=37.4
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhcc--CCCCCcccccccC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG--HASCPLCRYKFDG 164 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~l~~ 164 (422)
..+.+|++|-+.-..+ ....+ |+|+||.-||..=+.. .-+||.|-.++.+
T Consensus 237 t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 4568999998874442 22344 9999999999987653 4689999877663
No 62
>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=95.30 E-value=0.01 Score=49.58 Aligned_cols=33 Identities=30% Similarity=0.741 Sum_probs=27.3
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchh
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCID 146 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~ 146 (422)
.++..|++|-..+.. ....+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 456689999999977 4566778 99999999986
No 63
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.21 E-value=0.013 Score=43.37 Aligned_cols=40 Identities=33% Similarity=0.905 Sum_probs=27.2
Q ss_pred ccccccccccccceeecCCCC-----ceeeCCchhhhhcc--CCCCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCR-----HAFHMSCIDQWLEG--HASCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlC 158 (422)
|-||++.-.+.+ ..+.| |. ...|..|+.+|+.. ...|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999877665 33456 64 47899999999974 5679988
No 64
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.03 E-value=0.017 Score=56.65 Aligned_cols=53 Identities=17% Similarity=0.317 Sum_probs=47.4
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDR 167 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~ 167 (422)
..|+||.+.+.....+.+|..|||+|+.+|+.+.+.....||+|-.++...+.
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 47999999999888777777799999999999999999999999998887665
No 65
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.76 E-value=0.018 Score=58.95 Aligned_cols=44 Identities=25% Similarity=0.550 Sum_probs=33.0
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
....|.||+++.+. ...+| |||+-| |..-- +....||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 45689999998776 66788 999966 65553 33455999999765
No 66
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.028 Score=57.03 Aligned_cols=49 Identities=22% Similarity=0.446 Sum_probs=37.8
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
.+...|+||+..-..+..+ ..-|.+||..||-.++..++.||+=-.+..
T Consensus 298 ~~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceE---EecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 3556899999986664332 226999999999999999999998655443
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.61 E-value=0.0076 Score=64.36 Aligned_cols=51 Identities=27% Similarity=0.636 Sum_probs=38.9
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhcc-----CCCCCcccccccCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-----HASCPLCRYKFDGR 165 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~l~~~ 165 (422)
..+..+|.+|-+.-++ ..... |.|.||.-||..++.. +-+||+|...+.-+
T Consensus 533 nk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 3456799999887544 44555 9999999999998853 57899998766543
No 68
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.52 E-value=0.0086 Score=56.98 Aligned_cols=46 Identities=20% Similarity=0.452 Sum_probs=38.9
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
..|.||-.+|+. +.+.. |||.||..|...-++....|-+|.+....
T Consensus 197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhhcc
Confidence 489999999987 33454 99999999999999999999999876554
No 69
>PHA02862 5L protein; Provisional
Probab=94.52 E-value=0.013 Score=53.14 Aligned_cols=46 Identities=20% Similarity=0.544 Sum_probs=34.6
Q ss_pred CccccccccccccccceeecCCCC-----ceeeCCchhhhhcc--CCCCCcccccccC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCR-----HAFHMSCIDQWLEG--HASCPLCRYKFDG 164 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlCR~~l~~ 164 (422)
+..|=||.++-++. . -| |. ..-|..|+.+|+.. +..||+|+.++.-
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 44 53 57899999999974 5679999998753
No 70
>PHA03096 p28-like protein; Provisional
Probab=94.18 E-value=0.013 Score=58.87 Aligned_cols=46 Identities=22% Similarity=0.547 Sum_probs=34.1
Q ss_pred ccccccccccccc----cceeecCCCCceeeCCchhhhhcc---CCCCCcccc
Q 038034 115 LECAVYLSKFEDT----EILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRY 160 (422)
Q Consensus 115 ~~CsICLe~f~~~----~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~ 160 (422)
..|.||++..... ..-..|+.|.|.||..||..|-.. ..+||.|+.
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 5899999987653 234578889999999999999754 334555543
No 71
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.09 E-value=0.023 Score=56.94 Aligned_cols=46 Identities=22% Similarity=0.452 Sum_probs=38.9
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
..|-||...|..+ .+. +|+|.||..|...-++....|++|.+....
T Consensus 242 f~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccc---hhh-cCCceeehhhhccccccCCcceeccccccc
Confidence 3699999999873 344 499999999999999999999999887654
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.02 E-value=0.014 Score=65.20 Aligned_cols=48 Identities=27% Similarity=0.718 Sum_probs=38.2
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc-------CCCCCcccc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG-------HASCPLCRY 160 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~-------~~sCPlCR~ 160 (422)
...+|.||++.+.....+--...|.|+||..||..|-++ .-.||.|..
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 346999999999877766555569999999999999864 224999984
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.80 E-value=0.015 Score=60.46 Aligned_cols=38 Identities=21% Similarity=0.638 Sum_probs=33.8
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG 151 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~ 151 (422)
....|.||++..........+| |+|+||..|+..++..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTI 220 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHH
Confidence 3468999999988888999999 9999999999999863
No 74
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.53 E-value=0.045 Score=53.97 Aligned_cols=58 Identities=19% Similarity=0.414 Sum_probs=44.1
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCCCCC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDRGSF 170 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~~~~ 170 (422)
.....|||+..+|........+-.|||+|...||..- .....||+|-.++...|.-..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI~L 168 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDIIPL 168 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCEEEe
Confidence 4557899999999665555555449999999999996 335679999999987665433
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.92 E-value=0.089 Score=40.37 Aligned_cols=46 Identities=24% Similarity=0.436 Sum_probs=33.0
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
..|..|... +..-.++| |+|+.+..|.+-+ +-+-||.|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 345555443 33456788 9999999998764 5677999999887643
No 76
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=92.85 E-value=0.048 Score=50.31 Aligned_cols=50 Identities=18% Similarity=0.582 Sum_probs=35.9
Q ss_pred CCCCccccccccccccccceeecC-CCCc---eeeCCchhhhhcc--CCCCCcccccccC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLP-KCRH---AFHMSCIDQWLEG--HASCPLCRYKFDG 164 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp-~C~H---~FH~~CI~~WL~~--~~sCPlCR~~l~~ 164 (422)
...+..|=||.++.. +.. .| +|.. .-|.+|+..|+.. ...|++|.+++.-
T Consensus 5 s~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 345679999998843 222 34 2444 5699999999975 5579999987754
No 77
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.74 E-value=0.039 Score=53.79 Aligned_cols=47 Identities=23% Similarity=0.493 Sum_probs=34.5
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
.|-.|.-.-. ++...++. |.|+||..|...-. ...||+|++++....
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccCC--ccccccccceeeeee
Confidence 5777765544 67777776 99999999976632 238999999876543
No 78
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=92.65 E-value=0.049 Score=40.72 Aligned_cols=45 Identities=22% Similarity=0.514 Sum_probs=21.6
Q ss_pred cccccccccccc-ceeecCCCCceeeCCchhhhhc-cCCCCCcccccc
Q 038034 117 CAVYLSKFEDTE-ILRLLPKCRHAFHMSCIDQWLE-GHASCPLCRYKF 162 (422)
Q Consensus 117 CsICLe~f~~~~-~~r~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~l 162 (422)
|++|.+++...+ ...-.+ |++..+..|...-+. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984433 333344 788888888777765 478899999864
No 79
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.45 E-value=0.01 Score=61.30 Aligned_cols=50 Identities=16% Similarity=0.464 Sum_probs=43.4
Q ss_pred Cccccccccccccc-cceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 114 GLECAVYLSKFEDT-EILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 114 ~~~CsICLe~f~~~-~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
...|+||...|+.. +.+..+. |||.+|..||.+||.....||.|+..+..
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 35899999999876 6666676 99999999999999999999999997753
No 80
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.40 E-value=0.037 Score=55.45 Aligned_cols=42 Identities=26% Similarity=0.547 Sum_probs=31.2
Q ss_pred CccccccccccccccceeecCCCCce-eeCCchhhhhccCCCCCccccccc
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
..-|+||++.-.+ ...|+ |||. -|..|-... ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 4579999997444 56788 9997 466775543 48999998664
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.38 E-value=0.046 Score=51.37 Aligned_cols=30 Identities=33% Similarity=0.978 Sum_probs=24.5
Q ss_pred CCCceeeCCchhhhhcc----C-------CCCCcccccccC
Q 038034 135 KCRHAFHMSCIDQWLEG----H-------ASCPLCRYKFDG 164 (422)
Q Consensus 135 ~C~H~FH~~CI~~WL~~----~-------~sCPlCR~~l~~ 164 (422)
.|+.-||.-|+..||+. . ..||.|..++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 39999999999999963 1 359999887754
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.58 E-value=0.084 Score=52.41 Aligned_cols=47 Identities=28% Similarity=0.678 Sum_probs=38.5
Q ss_pred cccccccccccccc---ceeecCCCCceeeCCchhhhhcc-CCCCCcccccc
Q 038034 115 LECAVYLSKFEDTE---ILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKF 162 (422)
Q Consensus 115 ~~CsICLe~f~~~~---~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l 162 (422)
..|-||-++|...+ .+++|. |||.|+..|+.+-+.. ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 58999999998663 456675 9999999999887765 55699999985
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=91.35 E-value=0.073 Score=38.66 Aligned_cols=41 Identities=17% Similarity=0.517 Sum_probs=23.8
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhccCC--CCCcc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHA--SCPLC 158 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~--sCPlC 158 (422)
|.+|-+....|..-... .|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 67787777666544333 3888999999999998755 79988
No 84
>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=89.89 E-value=0.13 Score=53.37 Aligned_cols=32 Identities=34% Similarity=0.918 Sum_probs=24.7
Q ss_pred CCceeeCCchhhhhcc-------------CCCCCcccccccCCCC
Q 038034 136 CRHAFHMSCIDQWLEG-------------HASCPLCRYKFDGRDR 167 (422)
Q Consensus 136 C~H~FH~~CI~~WL~~-------------~~sCPlCR~~l~~~~~ 167 (422)
|.-++|.+|+-+|+.. +-.||+||+.+..-|.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 5677889999999853 3469999999886543
No 85
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.08 E-value=0.22 Score=51.29 Aligned_cols=50 Identities=22% Similarity=0.397 Sum_probs=41.0
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGR 165 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~ 165 (422)
.++..|+||... +-.....| |+|.=|+.||.+-+-..+.|=.|+..+...
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~~ 469 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVIDV 469 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence 467789999765 33345677 999999999999999999999999877653
No 86
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.99 E-value=0.21 Score=51.29 Aligned_cols=66 Identities=23% Similarity=0.453 Sum_probs=44.3
Q ss_pred HHHHhhCCceEeecc-CCCCCCccccccccccccccceeecCCCCceeeCCchhhh--hccCCCCCccccccc
Q 038034 94 KAVIESLPLFRFASL-RGSKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQW--LEGHASCPLCRYKFD 163 (422)
Q Consensus 94 ~~~i~~LP~~~~~~~-~~~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~W--L~~~~sCPlCR~~l~ 163 (422)
+..+..-|...-+.. +..++...|.||-+.+.- ..++| |+|..|--|--.- |-....||+||....
T Consensus 40 KNnlsaEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 40 KNNLSAEPNLTTSSADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccCCccccccccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 334444455444333 334456789999887543 56788 9999999996553 446789999998654
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=88.83 E-value=0.11 Score=58.00 Aligned_cols=49 Identities=22% Similarity=0.571 Sum_probs=38.6
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhcc--CCCCCcccccccCCCCC
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG--HASCPLCRYKFDGRDRG 168 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~l~~~~~~ 168 (422)
..|.||++ .+...+.+ |+|.||..|+..-+.. ...||+||..+......
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 69999999 34555666 9999999999998764 33599999988765543
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.20 E-value=0.15 Score=57.41 Aligned_cols=40 Identities=20% Similarity=0.595 Sum_probs=31.0
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
..|..|-..++.+- ..- .|+|.||.+|+. .....||-|+.
T Consensus 841 skCs~C~~~LdlP~--VhF-~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPF--VHF-LCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccce--eee-ecccHHHHHhhc---cCcccCCccch
Confidence 58999988876642 222 399999999998 45677999986
No 89
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.14 E-value=0.23 Score=50.11 Aligned_cols=43 Identities=28% Similarity=0.591 Sum_probs=34.0
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhc-cCCCCCcccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE-GHASCPLCRY 160 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~ 160 (422)
..|+.|-..+... ..+|.|+|.||.+||..-|. ....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6899998876653 23466999999999998775 5678999976
No 90
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.89 E-value=0.3 Score=37.41 Aligned_cols=41 Identities=29% Similarity=0.682 Sum_probs=33.5
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPL 157 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPl 157 (422)
....|.+|-+.|.+++.+.+.|.|+-.+|..|.+. ...|-+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 45689999999998888889999999999999654 355544
No 91
>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=87.74 E-value=1.1 Score=32.02 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 37 NIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 37 ~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
.+++++++++.+.++++.+++|+ +|+++.
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~Ya-Ccykk~ 33 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYA-CCYKKH 33 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHH-HHHccc
Confidence 46777777766655555555554 555543
No 92
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=87.17 E-value=0.36 Score=44.58 Aligned_cols=37 Identities=22% Similarity=0.537 Sum_probs=22.0
Q ss_pred CCcccccccccccccccee---------ecCCCCce-eeCCchhhhhc
Q 038034 113 EGLECAVYLSKFEDTEILR---------LLPKCRHA-FHMSCIDQWLE 150 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r---------~Lp~C~H~-FH~~CI~~WL~ 150 (422)
++..|+|||+.--....+. --- |+-. -|..|+++.-+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHHH
Confidence 4678999999754322111 111 4433 47789999764
No 93
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=86.91 E-value=0.26 Score=49.31 Aligned_cols=46 Identities=20% Similarity=0.491 Sum_probs=37.9
Q ss_pred Ccccccccccccccc-ceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 114 GLECAVYLSKFEDTE-ILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~f~~~~-~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
...|+||.+.+-... .+..++ |+|.-|..|+......+.+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 345999999876654 445666 9999999999999888899999988
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=86.62 E-value=0.26 Score=49.96 Aligned_cols=42 Identities=26% Similarity=0.656 Sum_probs=29.1
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKF 162 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l 162 (422)
.|.-|--.+.. .-|++| |+|+||.+|... ..-+.||.|-..+
T Consensus 92 fCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 46666444333 446788 999999999543 3456899997655
No 95
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=84.68 E-value=0.23 Score=58.26 Aligned_cols=45 Identities=22% Similarity=0.624 Sum_probs=37.1
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
+...|.||++.+....-+ . .|+|.+|..|+..|+..+..||.|..
T Consensus 1152 ~~~~c~ic~dil~~~~~I--~-~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI--A-GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCe--e-eechhHhhhHHHHHHHHhccCcchhh
Confidence 345899999998743322 2 39999999999999999999999973
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=84.31 E-value=0.36 Score=49.50 Aligned_cols=55 Identities=22% Similarity=0.466 Sum_probs=37.0
Q ss_pred CCCccccccccccccccc-eeecCCCCceeeCCchhhhhc-cCCCCCcccccccCCCC
Q 038034 112 KEGLECAVYLSKFEDTEI-LRLLPKCRHAFHMSCIDQWLE-GHASCPLCRYKFDGRDR 167 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~-~r~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~l~~~~~ 167 (422)
++++-|+.|++.+...++ ..-+| ||...|.-|...--+ -+..||-||+....+..
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 344569999999877654 33455 887766666444322 26789999997765543
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.15 E-value=0.27 Score=55.76 Aligned_cols=37 Identities=19% Similarity=0.394 Sum_probs=28.9
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhh
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWL 149 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL 149 (422)
...+..|.+|.-.+... .-.+-| |||.||.+||.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 34567999999887764 445677 99999999998764
No 98
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=82.19 E-value=0.7 Score=46.87 Aligned_cols=46 Identities=22% Similarity=0.409 Sum_probs=33.5
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
.+-.+|+||.+.+..+... .+ =||.-|..|=. +....||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi~Q--C~-nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQ--CD-NGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCccccee--cC-CCcEehhhhhh---hhcccCCccccccc
Confidence 3557999999998874322 11 26998888854 45678999998776
No 99
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=80.66 E-value=4.9 Score=33.14 Aligned_cols=60 Identities=18% Similarity=0.294 Sum_probs=28.6
Q ss_pred CCchhhHHHHHhhheeeeecccCCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 038034 1 MSQFCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSN 65 (422)
Q Consensus 1 ~~~~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i~III~Il~iiflL~~ill~~~r~c~r~ 65 (422)
|.+-|-+||++++.. ...|.++.+-++ =.+.. ..++.||++.=+++++++.....+|-+-
T Consensus 1 m~~pG~lLflLLL~V--aAaq~~~gscs~-C~~ls--~g~LaGiV~~D~vlTLLIv~~vy~car~ 60 (79)
T PF07213_consen 1 MTPPGHLLFLLLLPV--AAAQTQPGSCSG-CYPLS--PGLLAGIVAADAVLTLLIVLVVYYCARP 60 (79)
T ss_pred CCCccccHHHHHHHH--hhhcCCCCCCCC-ccccC--HHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 677777775543333 333333322222 23333 3455555555555555555545555443
No 100
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=80.54 E-value=0.63 Score=52.08 Aligned_cols=23 Identities=35% Similarity=0.892 Sum_probs=21.3
Q ss_pred CCCceeeCCchhhhhccCCCCCc
Q 038034 135 KCRHAFHMSCIDQWLEGHASCPL 157 (422)
Q Consensus 135 ~C~H~FH~~CI~~WL~~~~sCPl 157 (422)
.|+|+-|..|...|+.....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 49999999999999999999984
No 101
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.52 E-value=0.37 Score=52.95 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=32.8
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
+-..|.||+..|-.....-+.+.|||..|..|+..- -+.+|| |.+
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 346899999988766543333459999999998874 467888 543
No 102
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.95 E-value=4.2 Score=42.65 Aligned_cols=45 Identities=20% Similarity=0.481 Sum_probs=38.2
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCC---CCCcc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHA---SCPLC 158 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~---sCPlC 158 (422)
.-..|||=.+.-.+...+..|. |||+...+-|.+-.+... .||.|
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 4568999988888888889998 999999999999776543 59999
No 103
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.69 E-value=0.51 Score=46.79 Aligned_cols=53 Identities=25% Similarity=0.622 Sum_probs=37.1
Q ss_pred CCCCccccccccccccccce-eecCCC-----CceeeCCchhhhhccC--------CCCCcccccccC
Q 038034 111 SKEGLECAVYLSKFEDTEIL-RLLPKC-----RHAFHMSCIDQWLEGH--------ASCPLCRYKFDG 164 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~-r~Lp~C-----~H~FH~~CI~~WL~~~--------~sCPlCR~~l~~ 164 (422)
.+.+-.|=||+..=++.... -+-| | .|-.|..|+..|+..+ -+||-|+.....
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 34556899999986665433 1233 5 3889999999999532 359999986653
No 104
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=77.91 E-value=1 Score=50.78 Aligned_cols=59 Identities=22% Similarity=0.546 Sum_probs=42.1
Q ss_pred CCCCccccccccccccccceeecC-CCC---ceeeCCchhhhhcc--CCCCCcccccccCCCCCCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLP-KCR---HAFHMSCIDQWLEG--HASCPLCRYKFDGRDRGSF 170 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp-~C~---H~FH~~CI~~WL~~--~~sCPlCR~~l~~~~~~~~ 170 (422)
.+++..|-||..+=..++.+- -| +|. ...|.+|+.+|+.- ...|-+|+.++.-++.-..
T Consensus 9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e 73 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE 73 (1175)
T ss_pred CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence 445679999999876666553 33 233 46899999999974 4569999998875554333
No 105
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=76.38 E-value=0.69 Score=51.45 Aligned_cols=47 Identities=32% Similarity=0.765 Sum_probs=36.4
Q ss_pred CccccccccccccccceeecCCCCceeeCCchhhhhcc---CCCCCcccccccC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG---HASCPLCRYKFDG 164 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~l~~ 164 (422)
..+|+||+..+..+ ..+ +|.|.|+..|+..-+.. ...||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 46999999999886 334 59999999998876654 4569999966554
No 106
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.23 E-value=1.5 Score=47.74 Aligned_cols=48 Identities=29% Similarity=0.667 Sum_probs=39.4
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCCC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDRG 168 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~~ 168 (422)
....|.||+.+. ..+..+ |. |..|+.+|+..+..||+|+..+..++..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 356899999997 456666 88 8999999999999999999877765443
No 107
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=74.65 E-value=0.83 Score=45.11 Aligned_cols=50 Identities=28% Similarity=0.727 Sum_probs=36.9
Q ss_pred Cccccccccccccccc-eeecCCCC-----ceeeCCchhhhhc--cCCCCCcccccccC
Q 038034 114 GLECAVYLSKFEDTEI-LRLLPKCR-----HAFHMSCIDQWLE--GHASCPLCRYKFDG 164 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~-~r~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlCR~~l~~ 164 (422)
+..|=||.++...... ..+.| |. +..|..|++.|+. ....|.+|...+..
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 4689999997665432 34555 64 6679999999997 56679999876554
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=74.51 E-value=1.5 Score=49.15 Aligned_cols=41 Identities=20% Similarity=0.347 Sum_probs=31.8
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPL 157 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPl 157 (422)
..|.+|-..+.. .....+.|+|.-|.+|+.+|+..+.-||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 478888666543 23345569999999999999999988876
No 109
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=74.30 E-value=4.7 Score=35.87 Aligned_cols=19 Identities=21% Similarity=0.557 Sum_probs=10.2
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 038034 36 PNIAVVIGVLSIAFSLLFL 54 (422)
Q Consensus 36 p~i~III~Il~iiflL~~i 54 (422)
..++||+|+++.++.++++
T Consensus 65 ~i~~Ii~gv~aGvIg~Ill 83 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILL 83 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHH
T ss_pred ceeehhHHHHHHHHHHHHH
Confidence 3455666666665544433
No 110
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.41 E-value=1.3 Score=46.48 Aligned_cols=38 Identities=26% Similarity=0.624 Sum_probs=28.2
Q ss_pred CCccccccccccccc-cceeecCCCCceeeCCchhhhhcc
Q 038034 113 EGLECAVYLSKFEDT-EILRLLPKCRHAFHMSCIDQWLEG 151 (422)
Q Consensus 113 e~~~CsICLe~f~~~-~~~r~Lp~C~H~FH~~CI~~WL~~ 151 (422)
...+|.||..++... +...+. +|+|.||.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 456899999554444 444444 59999999999998864
No 111
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=72.13 E-value=1.3 Score=50.02 Aligned_cols=53 Identities=9% Similarity=0.073 Sum_probs=36.6
Q ss_pred CCcccccccccccccc---ceeecCCCCceeeCCchhhhhcc------CCCCCcccccccCC
Q 038034 113 EGLECAVYLSKFEDTE---ILRLLPKCRHAFHMSCIDQWLEG------HASCPLCRYKFDGR 165 (422)
Q Consensus 113 e~~~CsICLe~f~~~~---~~r~Lp~C~H~FH~~CI~~WL~~------~~sCPlCR~~l~~~ 165 (422)
+...|.||.-++..++ ....+..|+|.||..||..|..+ +-.|+.|..-|..+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 3457777777776632 22223359999999999999853 45689998866543
No 112
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.08 E-value=2.5 Score=40.74 Aligned_cols=39 Identities=31% Similarity=0.630 Sum_probs=27.6
Q ss_pred ccccccccccccceeecCCCCce-eeCCchhhhhccCCCCCccccccc
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
|-.|-+ ....+.++| |.|. +|..|=.. -..||+|+....
T Consensus 161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 666655 455688999 9976 77778554 356999986543
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.02 E-value=0.89 Score=45.89 Aligned_cols=32 Identities=44% Similarity=0.826 Sum_probs=25.4
Q ss_pred CCceeeCCchhhhhc-------------cCCCCCcccccccCCCC
Q 038034 136 CRHAFHMSCIDQWLE-------------GHASCPLCRYKFDGRDR 167 (422)
Q Consensus 136 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~l~~~~~ 167 (422)
|...+|.+|+.+|+. ++-+||+||+.++-.|.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 667888999999884 34579999999986554
No 114
>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=71.51 E-value=0.82 Score=45.02 Aligned_cols=53 Identities=26% Similarity=0.555 Sum_probs=39.0
Q ss_pred CCccccccccc-ccccc-ceeecCCCCceeeCCchhhhhcc-CCCCC--cccccccCC
Q 038034 113 EGLECAVYLSK-FEDTE-ILRLLPKCRHAFHMSCIDQWLEG-HASCP--LCRYKFDGR 165 (422)
Q Consensus 113 e~~~CsICLe~-f~~~~-~~r~Lp~C~H~FH~~CI~~WL~~-~~sCP--lCR~~l~~~ 165 (422)
.+..|+||-.+ |-.++ .+-+-|.|.|..|-.|++.-+.. ...|| -|-+-+...
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~ 66 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI 66 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence 45689999876 33333 44556679999999999999876 55699 887655543
No 115
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=69.40 E-value=9.3 Score=32.14 Aligned_cols=59 Identities=17% Similarity=0.303 Sum_probs=35.6
Q ss_pred hhhHHHHHhhheeeeecccCCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 038034 4 FCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSN 65 (422)
Q Consensus 4 ~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i~III~Il~iiflL~~ill~~~r~c~r~ 65 (422)
.|++|++..++|..+...-..+.+++.+ +-.+.++--|+.+++++.++++-.+++|...
T Consensus 17 ~GIiLL~~ACIFAfidFSK~~s~~~~~~---wRalSii~FIlG~vl~lGilifs~y~~C~~~ 75 (91)
T PHA02680 17 CGVLLLTAACVFAFVDFSKNTSNVTDYV---WRALSVTCFIVGAVLLLGLFVFSMYRKCSGS 75 (91)
T ss_pred HHHHHHHHHHHHhhhhhhccCCCCcchh---HHHHHHHHHHHHHHHHHHHHHHHHhcccCCC
Confidence 5778888888887777655444444443 2334444445555566666666666677743
No 116
>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 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=65.54 E-value=1.9 Score=32.35 Aligned_cols=29 Identities=24% Similarity=0.731 Sum_probs=21.8
Q ss_pred CC-ceeeCCchhhhhccCCCCCcccccccC
Q 038034 136 CR-HAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 136 C~-H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
|. |..|..|+...|.....||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 75 999999999999999999999988764
No 118
>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=63.44 E-value=5.9 Score=26.36 Aligned_cols=38 Identities=18% Similarity=0.387 Sum_probs=25.5
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
.|..|-..+...+..... =+..||.+| ..|..|..+|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcCc
Confidence 377888877765333222 468899998 67888877653
No 119
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=62.54 E-value=2.9 Score=37.72 Aligned_cols=52 Identities=19% Similarity=0.492 Sum_probs=34.5
Q ss_pred CccccccccccccccceeecCCCCceeeCCch-hhhh--ccCCCCCcccccccCC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCI-DQWL--EGHASCPLCRYKFDGR 165 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI-~~WL--~~~~sCPlCR~~l~~~ 165 (422)
--+|.||-+.-.+..-+.----||-..|..|- .-|- ..+..||+|+.++...
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 45899999975543222111138988888874 4453 2478899999988754
No 120
>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=62.52 E-value=7.5 Score=28.19 Aligned_cols=44 Identities=25% Similarity=0.460 Sum_probs=30.0
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhc------cCCCCCcccc
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE------GHASCPLCRY 160 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~ 160 (422)
.|.||...-.. +.+..-..|+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCC-CCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 38899884333 34444446999999999887653 2456888863
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=62.41 E-value=3 Score=40.41 Aligned_cols=43 Identities=23% Similarity=0.533 Sum_probs=34.2
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
-.|.+|-+-.-.+. +.- .|+-.+|..|+..++.....||.|-.
T Consensus 182 k~Cn~Ch~LvIqg~--rCg-~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGI--RCG-SCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhheee--ccC-cccchhhhHHHHHHhcccCcCCchhc
Confidence 48999988765532 222 48889999999999999999999953
No 122
>PF15102 TMEM154: TMEM154 protein family
Probab=61.96 E-value=4.9 Score=36.78 Aligned_cols=8 Identities=25% Similarity=1.012 Sum_probs=4.8
Q ss_pred chhhhhcc
Q 038034 144 CIDQWLEG 151 (422)
Q Consensus 144 CI~~WL~~ 151 (422)
=|++|...
T Consensus 129 eldkwm~s 136 (146)
T PF15102_consen 129 ELDKWMNS 136 (146)
T ss_pred HHHhHHHh
Confidence 46777653
No 123
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=59.83 E-value=5.9 Score=37.79 Aligned_cols=41 Identities=37% Similarity=0.813 Sum_probs=29.7
Q ss_pred Cccccccccc-----cccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 114 GLECAVYLSK-----FEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~-----f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
+..|-+|-+. |+. +.+...++|+-+||..|..+ ..||-|-+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 4678888753 333 34556667999999999773 67999954
No 124
>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=58.50 E-value=4.4 Score=40.91 Aligned_cols=52 Identities=21% Similarity=0.470 Sum_probs=37.1
Q ss_pred cccccccc-ccccc-ceeecCCCCceeeCCchhhhhcc-CCCCCcccccccCCCCC
Q 038034 116 ECAVYLSK-FEDTE-ILRLLPKCRHAFHMSCIDQWLEG-HASCPLCRYKFDGRDRG 168 (422)
Q Consensus 116 ~CsICLe~-f~~~~-~~r~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~l~~~~~~ 168 (422)
.|++|-.+ |..++ .+.+-+ |+|..|..|++.-+.. ...||.|-..+......
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 58888765 34444 333445 9999999999998764 66799998766654443
No 125
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=57.76 E-value=2.6 Score=46.41 Aligned_cols=44 Identities=27% Similarity=0.675 Sum_probs=27.9
Q ss_pred CCcccccccc-----ccccccceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 113 EGLECAVYLS-----KFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 113 e~~~CsICLe-----~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
.+..|.+|-. .|+.....+... |+++||..|+.. ...-||-|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCchHH
Confidence 3567888832 133333344444 999999999554 3444999954
No 126
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.35 E-value=4.6 Score=45.72 Aligned_cols=45 Identities=16% Similarity=0.323 Sum_probs=32.8
Q ss_pred Cccccccccccccc----cceeecCCCCceeeCCchhhhhccCCCCCcccc
Q 038034 114 GLECAVYLSKFEDT----EILRLLPKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~f~~~----~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
...|.-|.+..... +.+.++. |+|+||..|+..-..++. |-.|..
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~~~ 832 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIESG 832 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChhhc
Confidence 44899999886533 3566776 999999999988766555 655543
No 127
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=55.18 E-value=3.1 Score=44.22 Aligned_cols=35 Identities=31% Similarity=0.624 Sum_probs=28.1
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhc
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE 150 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~ 150 (422)
+++..|+||..-|.+ +++|| |+|..|..|...-+.
T Consensus 2 eeelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 356789999999887 67788 999999999775543
No 128
>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=54.34 E-value=13 Score=27.36 Aligned_cols=40 Identities=25% Similarity=0.428 Sum_probs=29.3
Q ss_pred ccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCC
Q 038034 117 CAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 117 CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~ 166 (422)
|+-|-..+...+.+.. . -+..||..| -.|-.|..++....
T Consensus 1 C~~C~~~I~~~~~~~~-~-~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK-A-MGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE-E-TTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE-e-CCcEEEccc--------cccCCCCCccCCCe
Confidence 6778888876554422 2 688999999 67899988876543
No 129
>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=54.26 E-value=13 Score=41.31 Aligned_cols=15 Identities=47% Similarity=0.683 Sum_probs=9.5
Q ss_pred cccchh---hhhHHHHHh
Q 038034 297 SVNDNM---VKIKEDIER 311 (422)
Q Consensus 297 ~~~~~~---~~~~~~~~~ 311 (422)
..|++| +|-|-|+|-
T Consensus 497 evN~eiq~ALkqKSdIEH 514 (684)
T PF12877_consen 497 EVNKEIQVALKQKSDIEH 514 (684)
T ss_pred hhhHHHHHHhhhhhhHHH
Confidence 455544 677778874
No 130
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=54.19 E-value=5.1 Score=40.10 Aligned_cols=48 Identities=25% Similarity=0.565 Sum_probs=34.7
Q ss_pred ccccccccccccccceee---cCCCCceeeCCchhhhhcc---------CCCCCcccccc
Q 038034 115 LECAVYLSKFEDTEILRL---LPKCRHAFHMSCIDQWLEG---------HASCPLCRYKF 162 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~---Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~l 162 (422)
.+|-+|.+++...+..+. -|.|+-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 599999999954443332 2368899999999995432 35699999844
No 131
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=53.28 E-value=16 Score=32.10 Aligned_cols=46 Identities=20% Similarity=0.316 Sum_probs=33.2
Q ss_pred Ccccccccccccccc----------ceeecCCCCceeeCCchhhhhccCCCCCccc
Q 038034 114 GLECAVYLSKFEDTE----------ILRLLPKCRHAFHMSCIDQWLEGHASCPLCR 159 (422)
Q Consensus 114 ~~~CsICLe~f~~~~----------~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 159 (422)
...|--|+..|.... ..-..++|++.|+.+|=.=+-..-..||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 356999999886531 1233567999999999555555667799995
No 132
>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=51.83 E-value=10 Score=29.29 Aligned_cols=39 Identities=21% Similarity=0.289 Sum_probs=20.8
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhc
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE 150 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~ 150 (422)
.+...|.+|...|.--..-.....||++|+..|......
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 445689999999965443334446999999999877653
No 133
>PF15050 SCIMP: SCIMP protein
Probab=50.03 E-value=23 Score=31.61 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=12.0
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 038034 33 PLHPNIAVVIGVLSIAFSLLFLVLAYAKFC 62 (422)
Q Consensus 33 ~~~p~i~III~Il~iiflL~~ill~~~r~c 62 (422)
+|..++++.| +++-+.|.+|+++++|+.
T Consensus 7 nFWiiLAVaI--I~vS~~lglIlyCvcR~~ 34 (133)
T PF15050_consen 7 NFWIILAVAI--ILVSVVLGLILYCVCRWQ 34 (133)
T ss_pred chHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence 4444444443 333334444444444433
No 134
>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=49.58 E-value=8.7 Score=29.13 Aligned_cols=42 Identities=31% Similarity=0.682 Sum_probs=21.6
Q ss_pred cccccccccccc------ceeecCCCCceeeCCchhhhh-ccCCCCCccc
Q 038034 117 CAVYLSKFEDTE------ILRLLPKCRHAFHMSCIDQWL-EGHASCPLCR 159 (422)
Q Consensus 117 CsICLe~f~~~~------~~r~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR 159 (422)
|--|+..|..+. ..-..|+|++.|+.+| |..+ ..-..||-|-
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 556777776642 3455678999999999 3333 2345799883
No 135
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=48.50 E-value=13 Score=38.26 Aligned_cols=59 Identities=22% Similarity=0.529 Sum_probs=37.6
Q ss_pred CCceEeeccCCCC--CCccccccccccccccceeecCCCCceeeCCchhhhh-ccCCCCCcccc
Q 038034 100 LPLFRFASLRGSK--EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWL-EGHASCPLCRY 160 (422)
Q Consensus 100 LP~~~~~~~~~~~--e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~ 160 (422)
+|...|.+..... ....|-.|.++.......+.- .|+|.||.+| |..+ ..-..||-|..
T Consensus 314 ~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldC-Dv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 314 FPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDC-DVFIHESLHNCPGCEH 375 (378)
T ss_pred cCCcchhhccccccCCCcceeeeccccCCCCcEEch-hccceeeccc-hHHHHhhhhcCCCcCC
Confidence 4544554433322 334599998777776666544 4999999999 3332 23456999963
No 136
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=45.78 E-value=17 Score=30.97 Aligned_cols=23 Identities=26% Similarity=0.376 Sum_probs=11.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 038034 37 NIAVVIGVLSIAFSLLFLVLAYA 59 (422)
Q Consensus 37 ~i~III~Il~iiflL~~ill~~~ 59 (422)
..+++++++++++++++++++|+
T Consensus 61 ~~iili~lls~v~IlVily~IyY 83 (101)
T PF06024_consen 61 GNIILISLLSFVCILVILYAIYY 83 (101)
T ss_pred ccchHHHHHHHHHHHHHHhhheE
Confidence 44555555555444444444443
No 137
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.67 E-value=11 Score=39.63 Aligned_cols=45 Identities=22% Similarity=0.373 Sum_probs=32.0
Q ss_pred Ccccccccccccccc--ceeecCCCCceeeCCchhhhhccCCCCCccc
Q 038034 114 GLECAVYLSKFEDTE--ILRLLPKCRHAFHMSCIDQWLEGHASCPLCR 159 (422)
Q Consensus 114 ~~~CsICLe~f~~~~--~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 159 (422)
-..|+.|.-.++... ...... |+|.|+..|...|...+..|..|-
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCcc
Confidence 347888876654333 234455 999999999999988888775553
No 138
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=45.60 E-value=14 Score=25.75 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=16.5
Q ss_pred ccccccccccccccc-------eeecCCCCceee
Q 038034 115 LECAVYLSKFEDTEI-------LRLLPKCRHAFH 141 (422)
Q Consensus 115 ~~CsICLe~f~~~~~-------~r~Lp~C~H~FH 141 (422)
..|+-|-..|..++. ....++|+|.|+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 368888877765542 223445777775
No 139
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.84 E-value=6.8 Score=41.61 Aligned_cols=54 Identities=19% Similarity=0.440 Sum_probs=38.4
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhccC--------CCC--CcccccccCCCC
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGH--------ASC--PLCRYKFDGRDR 167 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~--------~sC--PlCR~~l~~~~~ 167 (422)
......|-||.+.+.. .+..+. |+|.|+..|+...+..+ .+| +-|...+.....
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i 130 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTV 130 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCcee
Confidence 3456799999999876 455565 99999999999998642 235 456665554433
No 140
>PHA02819 hypothetical protein; Provisional
Probab=44.81 E-value=49 Score=26.78 Aligned_cols=8 Identities=25% Similarity=0.401 Sum_probs=4.8
Q ss_pred CCchhhHH
Q 038034 1 MSQFCVLI 8 (422)
Q Consensus 1 ~~~~~~~l 8 (422)
|.||+..+
T Consensus 1 MDKLYaai 8 (71)
T PHA02819 1 MDKLYSAI 8 (71)
T ss_pred ChhHHHHH
Confidence 56666655
No 141
>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=44.52 E-value=17 Score=30.77 Aligned_cols=30 Identities=20% Similarity=0.067 Sum_probs=14.6
Q ss_pred CCCCchhhHHHHHHHHHHHHHHHHHHHHHH
Q 038034 31 LHPLHPNIAVVIGVLSIAFSLLFLVLAYAK 60 (422)
Q Consensus 31 ~~~~~p~i~III~Il~iiflL~~ill~~~r 60 (422)
..+|.--..++|++++.+.++.+...+++|
T Consensus 31 ~~~ws~vv~v~i~~lvaVg~~YL~y~~fLk 60 (91)
T PF01708_consen 31 GLPWSRVVEVAIFTLVAVGCLYLAYTWFLK 60 (91)
T ss_pred CCcceeEeeeeehHHHHHHHHHHHHHHHHH
Confidence 345555555555555444444444444444
No 142
>PHA03048 IMV membrane protein; Provisional
Probab=44.11 E-value=48 Score=28.07 Aligned_cols=57 Identities=14% Similarity=0.361 Sum_probs=32.7
Q ss_pred hhhHHHHHhhheeeeecccCCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH-HHHHHhccc
Q 038034 4 FCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNIAVVIGVLSIAFSLLFLVL-AYAKFCQSN 65 (422)
Q Consensus 4 ~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i~III~Il~iiflL~~ill-~~~r~c~r~ 65 (422)
.|++|++..++|..+...-..+++ ..+-.+.++--|+.+++++.++++ .|-++|...
T Consensus 17 ~GIiLL~~aCIfAfidfsK~k~~~-----~~wRalsii~FIlgivl~lG~~ifsmy~r~C~~~ 74 (93)
T PHA03048 17 GGIILLAASCIFAFVDFSKNKATV-----TVWRALSGIAFVLGIVMTIGMLIYSMWGRYCTPS 74 (93)
T ss_pred HHHHHHHHHHHHhhhhhhcCCCcc-----hhHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCC
Confidence 577888888888777765554432 233344444445555555555444 455578754
No 143
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=43.76 E-value=3.7 Score=29.69 Aligned_cols=21 Identities=24% Similarity=0.169 Sum_probs=9.0
Q ss_pred CchhhHHHHHHHHHHHHHHHH
Q 038034 34 LHPNIAVVIGVLSIAFSLLFL 54 (422)
Q Consensus 34 ~~p~i~III~Il~iiflL~~i 54 (422)
.....++++-+.+++++|.++
T Consensus 11 vaIa~~VvVPV~vI~~vl~~~ 31 (40)
T PF08693_consen 11 VAIAVGVVVPVGVIIIVLGAF 31 (40)
T ss_pred EEEEEEEEechHHHHHHHHHH
Confidence 333444444444444444333
No 144
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=43.21 E-value=41 Score=22.64 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 038034 38 IAVVIGVLSIAFSLLFLVLA 57 (422)
Q Consensus 38 i~III~Il~iiflL~~ill~ 57 (422)
+.++.|++++++++..+++.
T Consensus 3 ~~vi~g~llv~lLl~YLvYA 22 (29)
T PRK14750 3 FSIVCGALLVLLLLGYLVYA 22 (29)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45677777666666555443
No 145
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=42.95 E-value=54 Score=28.36 Aligned_cols=23 Identities=26% Similarity=0.361 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 038034 39 AVVIGVLSIAFSLLFLVLAYAKF 61 (422)
Q Consensus 39 ~III~Il~iiflL~~ill~~~r~ 61 (422)
.+++|++++++++.+++++.+||
T Consensus 18 ~~LVGVv~~al~~SlLIalaaKC 40 (102)
T PF15176_consen 18 PFLVGVVVTALVTSLLIALAAKC 40 (102)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHh
Confidence 44445555555555555554543
No 146
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=42.53 E-value=45 Score=22.45 Aligned_cols=22 Identities=36% Similarity=0.484 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 038034 38 IAVVIGVLSIAFSLLFLVLAYA 59 (422)
Q Consensus 38 i~III~Il~iiflL~~ill~~~ 59 (422)
+.+++|++++++++..+++..+
T Consensus 3 ~~vi~G~ilv~lLlgYLvyALi 24 (29)
T PRK14748 3 AGVITGVLLVFLLLGYLVYALI 24 (29)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4577788777777776665543
No 147
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=42.18 E-value=15 Score=37.87 Aligned_cols=47 Identities=21% Similarity=0.564 Sum_probs=34.5
Q ss_pred cccccccccccccc-ceeecCCCCceeeCCchhhhhccCCCCCcccccc
Q 038034 115 LECAVYLSKFEDTE-ILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKF 162 (422)
Q Consensus 115 ~~CsICLe~f~~~~-~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l 162 (422)
..|+||.+.....+ ...-.| |++.-|..|+..-...+..||.||++.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCcc
Confidence 68999999874333 222334 788878888888888899999999543
No 148
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=42.09 E-value=16 Score=41.41 Aligned_cols=28 Identities=36% Similarity=0.811 Sum_probs=21.0
Q ss_pred eecCCCCceeeCCchhhhhccCCCCCcccccc
Q 038034 131 RLLPKCRHAFHMSCIDQWLEGHASCPLCRYKF 162 (422)
Q Consensus 131 r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l 162 (422)
-++|.|+|.-|.+=|.++ ..||+|...+
T Consensus 1157 WlC~~CkH~a~~~EIs~y----~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1157 WLCPRCKHRAHQHEISKY----NCCPLCHSME 1184 (1189)
T ss_pred EEcccccccccccccccc----ccCccccChh
Confidence 356679998888877664 8899997543
No 149
>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=41.62 E-value=10 Score=37.89 Aligned_cols=47 Identities=19% Similarity=0.142 Sum_probs=21.8
Q ss_pred Cccccccccccccccceeec-CCCCceeeCCchhhhhccCCCCCcccc
Q 038034 114 GLECAVYLSKFEDTEILRLL-PKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
...|+||-..-........- .+-.|.+|.-|-..|--....||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 46899998864332211110 013577888999999888899999954
No 150
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.55 E-value=11 Score=37.49 Aligned_cols=55 Identities=15% Similarity=0.261 Sum_probs=39.3
Q ss_pred CccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCCCCCCC
Q 038034 114 GLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGRDRGSF 170 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~~~~ 170 (422)
...|+|---++........+-.|||+|-..-+.+- ...+|++|.+.+...+....
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvl 165 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVL 165 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEee
Confidence 35799877776665444334449999988776663 36789999998887766544
No 151
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=41.37 E-value=27 Score=35.59 Aligned_cols=27 Identities=19% Similarity=0.407 Sum_probs=12.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhc
Q 038034 36 PNIAVVIGVLSIAFSLLFLVLAYAKFCQ 63 (422)
Q Consensus 36 p~i~III~Il~iiflL~~ill~~~r~c~ 63 (422)
++++.+|+|++++++ .+|+++++||+|
T Consensus 257 ~I~aSiiaIliIVLI-MvIIYLILRYRR 283 (299)
T PF02009_consen 257 AIIASIIAILIIVLI-MVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 344555555444433 333334444544
No 152
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=41.11 E-value=36 Score=35.97 Aligned_cols=34 Identities=26% Similarity=0.501 Sum_probs=24.6
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 33 PLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 33 ~~~p~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
++..-+++.++|.++++++.++++.|+-||++-.
T Consensus 280 ~y~~d~~vtl~iPl~i~llL~llLs~Imc~rREG 313 (386)
T PF05510_consen 280 DYFPDFLVTLAIPLIIALLLLLLLSYIMCCRREG 313 (386)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHheechHH
Confidence 3455567777777788788888888888887643
No 153
>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=40.16 E-value=39 Score=30.09 Aligned_cols=30 Identities=7% Similarity=0.083 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 37 NIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 37 ~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
.-+++.+|+.+++-++.++++++.+++|++
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHHHHHh
Confidence 444444444444444444444444444443
No 154
>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=39.41 E-value=19 Score=35.04 Aligned_cols=31 Identities=16% Similarity=0.605 Sum_probs=16.1
Q ss_pred CCCchhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 32 HPLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 32 ~~~~p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
......++||.|++++|+ ++++.+++|||+.
T Consensus 35 d~~~I~iaiVAG~~tVIL--VI~i~v~vR~CRq 65 (221)
T PF08374_consen 35 DYVKIMIAIVAGIMTVIL--VIFIVVLVRYCRQ 65 (221)
T ss_pred cceeeeeeeecchhhhHH--HHHHHHHHHHHhh
Confidence 345555556656554443 3333445577774
No 155
>PF05767 Pox_A14: Poxvirus virion envelope protein A14; InterPro: IPR008785 This family consists of several Poxvirus virion envelope protein A14-like sequences. A14 is a component of the virion membrane and has been found to be an H1 phosphatase substrate in vivo and in vitro. A14 is hyperphosphorylated on serine residues in the absence of H1 expression [].; GO: 0019031 viral envelope
Probab=39.19 E-value=59 Score=27.62 Aligned_cols=57 Identities=16% Similarity=0.461 Sum_probs=28.9
Q ss_pred hhhHHHHHhhheeeeecccCCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH-HHHHHhcc
Q 038034 4 FCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNIAVVIGVLSIAFSLLFLVL-AYAKFCQS 64 (422)
Q Consensus 4 ~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i~III~Il~iiflL~~ill-~~~r~c~r 64 (422)
.|++|++..+++..+...-+.. +.++. .-.+.++--|+.+++++.++++ .|.|+|+.
T Consensus 17 ~GiiLL~~aCIfAfidfsK~~~-~~~~~---wRalSii~FI~giil~lG~~i~s~ygr~C~~ 74 (92)
T PF05767_consen 17 GGIILLIAACIFAFIDFSKNTK-PTDYT---WRALSIICFILGIILTLGIVIFSMYGRYCRP 74 (92)
T ss_pred HHHHHHHHHHHHHhhhhccCCC-CchhH---HHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 4677777777777665443332 22222 2233333334444444444443 45588875
No 156
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=38.26 E-value=28 Score=36.03 Aligned_cols=14 Identities=14% Similarity=0.230 Sum_probs=7.0
Q ss_pred CCchhhHHHHHhhh
Q 038034 1 MSQFCVLIVIFFCF 14 (422)
Q Consensus 1 ~~~~~~~l~~~~~l 14 (422)
|.++.++++++.+.
T Consensus 1 M~~~~~~~~~~~~~ 14 (409)
T TIGR00540 1 MFKVLFLFLLLIAG 14 (409)
T ss_pred ChHHHHHHHHHHHH
Confidence 66555544444433
No 157
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=37.99 E-value=83 Score=31.11 Aligned_cols=24 Identities=13% Similarity=0.241 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccC
Q 038034 43 GVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 43 ~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
++++++.+++|+++.++|.|+..-
T Consensus 195 IaliVitl~vf~LvgLyr~C~k~d 218 (259)
T PF07010_consen 195 IALIVITLSVFTLVGLYRMCWKTD 218 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCC
Confidence 333444455666666777777644
No 158
>PRK05978 hypothetical protein; Provisional
Probab=37.70 E-value=25 Score=32.28 Aligned_cols=27 Identities=19% Similarity=0.431 Sum_probs=21.4
Q ss_pred CceeeCCchhhhhccCCCCCcccccccCCCCC
Q 038034 137 RHAFHMSCIDQWLEGHASCPLCRYKFDGRDRG 168 (422)
Q Consensus 137 ~H~FH~~CI~~WL~~~~sCPlCR~~l~~~~~~ 168 (422)
||.|+ .+|+-+..||.|-.++...+..
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~ 68 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRAD 68 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCcc
Confidence 37776 7889999999999888765443
No 159
>PF13209 DUF4017: Protein of unknown function (DUF4017)
Probab=36.76 E-value=42 Score=25.97 Aligned_cols=36 Identities=8% Similarity=0.035 Sum_probs=21.6
Q ss_pred CCchhhHHHHHhhheeeeecccCCCCCCCCCCCCchhh
Q 038034 1 MSQFCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNI 38 (422)
Q Consensus 1 ~~~~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i 38 (422)
|++....|+.+++.+-..-.-|.+ ++++...|...+
T Consensus 1 MKni~paL~~Y~IVCiiaii~PaS--egYN~vgWKlfv 36 (60)
T PF13209_consen 1 MKNIIPALLVYIIVCIIAIILPAS--EGYNTVGWKLFV 36 (60)
T ss_pred CCcchHHHHHHHHHHHHheeeecc--cCccccchhhee
Confidence 777788888787777665555443 344444444433
No 160
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=36.59 E-value=81 Score=32.66 Aligned_cols=47 Identities=19% Similarity=0.376 Sum_probs=34.7
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhccC---CCCCcc
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGH---ASCPLC 158 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~---~sCPlC 158 (422)
.-.-..|||--+.-.+...+..+. |||+.-..-++.--+.. ..||.|
T Consensus 333 fHs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 333 FHSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ccceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 344578999777766666777787 99999988888755432 349999
No 161
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=35.64 E-value=34 Score=35.44 Aligned_cols=14 Identities=21% Similarity=0.325 Sum_probs=6.8
Q ss_pred CCchhhHHHHHhhh
Q 038034 1 MSQFCVLIVIFFCF 14 (422)
Q Consensus 1 ~~~~~~~l~~~~~l 14 (422)
|.++.++++++.+.
T Consensus 1 M~r~l~~~~~l~~~ 14 (398)
T PRK10747 1 MLKVLLLFVLLIAG 14 (398)
T ss_pred CHHHHHHHHHHHHH
Confidence 55555544444433
No 162
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.86 E-value=21 Score=36.39 Aligned_cols=51 Identities=22% Similarity=0.404 Sum_probs=40.8
Q ss_pred CCCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccCC
Q 038034 112 KEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDGR 165 (422)
Q Consensus 112 ~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~~ 165 (422)
.....|-||...+...... ..|.|.|+..|...|......||.|+....+.
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 3456899998887765432 25999999999999999999999999866543
No 163
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.51 E-value=24 Score=35.83 Aligned_cols=39 Identities=21% Similarity=0.403 Sum_probs=28.6
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhcc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEG 151 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~ 151 (422)
.-..|.+|.+.+++..-+..-.-=.|.||..|-.+-++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 347899999999986544311112699999999888875
No 164
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=34.50 E-value=28 Score=25.90 Aligned_cols=21 Identities=29% Similarity=0.589 Sum_probs=16.3
Q ss_pred cceeecCCCCceeeCCchhhh
Q 038034 128 EILRLLPKCRHAFHMSCIDQW 148 (422)
Q Consensus 128 ~~~r~Lp~C~H~FH~~CI~~W 148 (422)
......|.|+|.|+..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344455569999999999998
No 165
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=34.48 E-value=60 Score=27.19 Aligned_cols=21 Identities=24% Similarity=0.395 Sum_probs=13.2
Q ss_pred CCCCCchhhHHHHHHHHHHHH
Q 038034 30 SLHPLHPNIAVVIGVLSIAFS 50 (422)
Q Consensus 30 ~~~~~~p~i~III~Il~iifl 50 (422)
....+.|+....|.|++++++
T Consensus 18 ~~~~l~pn~lMtILivLVIIi 38 (85)
T PF10717_consen 18 NLNGLNPNTLMTILIVLVIII 38 (85)
T ss_pred cccccChhHHHHHHHHHHHHH
Confidence 467788887776655444433
No 166
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=33.91 E-value=78 Score=24.72 Aligned_cols=29 Identities=24% Similarity=0.487 Sum_probs=17.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 36 PNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 36 p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
.....+++++.+++.+.++++.+.+|.+.
T Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~ry~~~ 70 (73)
T PF02656_consen 42 RRVSKVLGLLLIVLGLLTLIYGIYRYRRR 70 (73)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666666543
No 167
>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=32.96 E-value=26 Score=34.15 Aligned_cols=9 Identities=56% Similarity=0.508 Sum_probs=3.4
Q ss_pred hhHHHHHHH
Q 038034 37 NIAVVIGVL 45 (422)
Q Consensus 37 ~i~III~Il 45 (422)
+++|+|++|
T Consensus 17 NiaI~IV~l 25 (217)
T PF07423_consen 17 NIAIGIVSL 25 (217)
T ss_pred HHHHHHHHH
Confidence 333433333
No 168
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=32.94 E-value=35 Score=24.89 Aligned_cols=29 Identities=10% Similarity=0.194 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 36 PNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 36 p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
.++++++.++.++.+.++.+++|.|+.-|
T Consensus 8 ~GVIlVF~lVglv~i~iva~~iYRKw~aR 36 (43)
T PF08114_consen 8 GGVILVFCLVGLVGIGIVALFIYRKWQAR 36 (43)
T ss_pred CCeeeehHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555544444444455555555443
No 169
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=32.16 E-value=63 Score=37.09 Aligned_cols=78 Identities=21% Similarity=0.209 Sum_probs=42.6
Q ss_pred CCCCCCccCcccccchhhhhHHH----HHhhhhhhccccccc---------cCCccccCCCCCCccCCccccc-cccCcc
Q 038034 286 NSKSGRFDNVFSVNDNMVKIKED----IERKRLYESRFSGIE---------KSHSVSGSSISSSYYNDENSSK-LLNGTE 351 (422)
Q Consensus 286 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 351 (422)
.|+-.+-+.|..|||.--..|.+ .|+.+.-+..+.+.. ....-.+-+....|.+.+++.+ +++.+.
T Consensus 659 ~snDaSLDSGVDmnE~~~~rk~r~~~~~e~~~~~~~~~~~s~~y~kl~y~ed~d~SsSEs~t~~cSPEd~sL~~lLd~~~ 738 (807)
T PF10577_consen 659 GSNDASLDSGVDMNEPKSGRKGRDPPREEREQDREKTFPKSKHYSKLVYLEDLDLSSSESGTTVCSPEDSSLRPLLDEGS 738 (807)
T ss_pred CCccCCCCCCcccccccccccccCcccccccccccCCCCCCCCCCceeccCCCCcccCcCCCCccCCcccccccccccCc
Confidence 34556667788888877443322 333333333332221 1111111233446788888777 778888
Q ss_pred ccchhhhhcccc
Q 038034 352 KRSMSEITNFAR 363 (422)
Q Consensus 352 ~rs~se~~~~~r 363 (422)
++++.++..+.+
T Consensus 739 ~~~~~~~~~~~e 750 (807)
T PF10577_consen 739 GRSGGQIPSLEE 750 (807)
T ss_pred ccccccCccccc
Confidence 888888765443
No 170
>PHA02692 hypothetical protein; Provisional
Probab=32.08 E-value=99 Score=25.05 Aligned_cols=8 Identities=13% Similarity=0.276 Sum_probs=4.3
Q ss_pred CCchhhHH
Q 038034 1 MSQFCVLI 8 (422)
Q Consensus 1 ~~~~~~~l 8 (422)
|.||+..+
T Consensus 1 MDKLyaai 8 (70)
T PHA02692 1 MDKLYAGV 8 (70)
T ss_pred ChhHHHHH
Confidence 55555554
No 171
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=30.43 E-value=55 Score=28.12 Aligned_cols=45 Identities=16% Similarity=0.258 Sum_probs=18.6
Q ss_pred HHhhheeeeecccCCCCCCCC-CCCCchhhHHHHHHHHHHHHHHHHH
Q 038034 10 IFFCFFFHVKAQETSNSEPDS-LHPLHPNIAVVIGVLSIAFSLLFLV 55 (422)
Q Consensus 10 ~~~~l~f~~~~q~~~ps~~~~-~~~~~p~i~III~Il~iiflL~~il 55 (422)
+.+++.|.++.+.+-+=+.-. ...+ |.++++++.+++..++.+++
T Consensus 34 llLllifav~Nt~~V~~~~lfg~~~~-PLilvil~s~v~G~Li~~~~ 79 (98)
T COG5416 34 LLLLLIFAVINTDSVEFNYLFGQWEL-PLILVILGAAVVGALIAMFA 79 (98)
T ss_pred HHHHHHHHHhccCceEEEeecchhhh-hHHHHHHHHHHHHHHHHHHH
Confidence 344445555554444322111 2233 34444444444444444443
No 172
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=30.25 E-value=17 Score=28.88 Aligned_cols=18 Identities=22% Similarity=0.290 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 038034 38 IAVVIGVLSIAFSLLFLV 55 (422)
Q Consensus 38 i~III~Il~iiflL~~il 55 (422)
.++|.|+++.+++.++++
T Consensus 12 aavIaG~Vvgll~ailLI 29 (64)
T PF01034_consen 12 AAVIAGGVVGLLFAILLI 29 (64)
T ss_dssp ------------------
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444333333
No 173
>PLN02189 cellulose synthase
Probab=30.16 E-value=36 Score=40.16 Aligned_cols=51 Identities=20% Similarity=0.565 Sum_probs=35.8
Q ss_pred CCccccccccccc---cccceeecCCCCceeeCCchhhhh-ccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFE---DTEILRLLPKCRHAFHMSCIDQWL-EGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~---~~~~~r~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~l~ 163 (422)
....|.||-+++. +++.-.-+..|+--.|..|.+-=- ..++.||.|++...
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 334444444588888999984322 24788999998776
No 174
>KOG4482 consensus Sarcoglycan complex, alpha/epsilon subunits [Function unknown]
Probab=29.93 E-value=74 Score=33.63 Aligned_cols=34 Identities=21% Similarity=0.223 Sum_probs=26.0
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 33 PLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 33 ~~~p~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
++..-.++.++|.+++++|.++++.|+.||++-.
T Consensus 292 dyy~df~~tfaIpl~Valll~~~La~imc~rrEg 325 (449)
T KOG4482|consen 292 DYYGDFLHTFAIPLGVALLLVLALAYIMCCRREG 325 (449)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 3444567788888888888888888998888754
No 175
>PHA02898 virion envelope protein; Provisional
Probab=29.90 E-value=1.1e+02 Score=25.91 Aligned_cols=59 Identities=22% Similarity=0.478 Sum_probs=31.3
Q ss_pred hhhHHHHHhhheeeeecccCCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH-HHHHHhcccC
Q 038034 4 FCVLIVIFFCFFFHVKAQETSNSEPDSLHPLHPNIAVVIGVLSIAFSLLFLVL-AYAKFCQSNH 66 (422)
Q Consensus 4 ~~~~l~~~~~l~f~~~~q~~~ps~~~~~~~~~p~i~III~Il~iiflL~~ill-~~~r~c~r~~ 66 (422)
+|++|++..++|..+...-... +.++ .+-.+.++--|+.+++++.++++ .|.++|....
T Consensus 17 ~GIiLL~~ACIfAfidfSK~~~-~~~~---~wRalSii~FIlgivl~lG~~ifs~y~r~C~~~~ 76 (92)
T PHA02898 17 FGIILLIVACICAYIELSKSEK-PADS---ALRSISIISFILAIILILGIIFFKGYNMFCGGNT 76 (92)
T ss_pred HHHHHHHHHHHHheehhhcCCC-cchh---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCc
Confidence 5777878777777776544333 1122 22333444444444445554443 4566887544
No 176
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.48 E-value=27 Score=34.81 Aligned_cols=36 Identities=19% Similarity=0.173 Sum_probs=28.8
Q ss_pred CCCCccccccccccccccceeecCCCCceeeCCchhhhhc
Q 038034 111 SKEGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLE 150 (422)
Q Consensus 111 ~~e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~ 150 (422)
.++-..|+.||..+.+ +.+.| =||+|+.+||.+++.
T Consensus 40 iK~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccC---CccCC-CCeeeeHHHHHHHHH
Confidence 3455689999999877 44566 799999999999874
No 177
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=29.37 E-value=38 Score=27.01 Aligned_cols=32 Identities=19% Similarity=0.289 Sum_probs=14.4
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 33 PLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 33 ~~~p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
.++|++++++.|..+++++.+-.++++.|++.
T Consensus 9 GlnPGlIVLlvV~g~ll~flvGnyvlY~Yaqk 40 (69)
T PF04689_consen 9 GLNPGLIVLLVVAGLLLVFLVGNYVLYVYAQK 40 (69)
T ss_pred CCCCCeEEeehHHHHHHHHHHHHHHHHHHHhh
Confidence 46666666554443333333222333334444
No 178
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=29.21 E-value=45 Score=24.94 Aligned_cols=23 Identities=30% Similarity=0.785 Sum_probs=14.1
Q ss_pred CCCceeeCCchhhhhccCCCCCcc
Q 038034 135 KCRHAFHMSCIDQWLEGHASCPLC 158 (422)
Q Consensus 135 ~C~H~FH~~CI~~WL~~~~sCPlC 158 (422)
+|+|.|...= ..-......||.|
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 4777766442 2223556779988
No 179
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=29.12 E-value=24 Score=38.00 Aligned_cols=51 Identities=20% Similarity=0.405 Sum_probs=34.3
Q ss_pred CCcccccccc-ccccccceeecCCCCceeeCCchhhhhcc--------CCCCCccccccc
Q 038034 113 EGLECAVYLS-KFEDTEILRLLPKCRHAFHMSCIDQWLEG--------HASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe-~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR~~l~ 163 (422)
.+..|++|.. .......+..+.+|+-.||..|...-.+. .-.|=+|.....
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 4556999984 34444455555578899999998776542 224999987543
No 180
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=28.96 E-value=33 Score=35.40 Aligned_cols=51 Identities=25% Similarity=0.548 Sum_probs=32.7
Q ss_pred Cccccccccccc--------------c-c-cceeecCCCCceeeCCchhhhhcc---------CCCCCcccccccCC
Q 038034 114 GLECAVYLSKFE--------------D-T-EILRLLPKCRHAFHMSCIDQWLEG---------HASCPLCRYKFDGR 165 (422)
Q Consensus 114 ~~~CsICLe~f~--------------~-~-~~~r~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~l~~~ 165 (422)
..+|++|+..=. + + -.....| |||+--..-..-|-+. +..||.|-+.+..+
T Consensus 341 ~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 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 468999997511 0 0 1223456 9998666666777652 45699998877654
No 181
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=28.94 E-value=1.4e+02 Score=27.68 Aligned_cols=21 Identities=29% Similarity=0.335 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHhcccC
Q 038034 46 SIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 46 ~iiflL~~ill~~~r~c~r~~ 66 (422)
.++++-.++++..++|-+.|.
T Consensus 68 ~ial~nAvlLI~WA~YN~~RF 88 (153)
T PRK14584 68 AIAAFNAVLLIIWAKYNQVRF 88 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 334444455566667766655
No 182
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=28.63 E-value=19 Score=36.54 Aligned_cols=37 Identities=22% Similarity=0.387 Sum_probs=28.0
Q ss_pred cccccccccccccceeecCCCCceeeCCchhhhhccCC
Q 038034 116 ECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHA 153 (422)
Q Consensus 116 ~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~ 153 (422)
.|.+|+++|..+....... |.-+||..|+-.|+....
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 8999999998655555554 666899999999976543
No 183
>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 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=28.01 E-value=21 Score=26.68 Aligned_cols=12 Identities=42% Similarity=1.046 Sum_probs=6.2
Q ss_pred CCCCcccccccC
Q 038034 153 ASCPLCRYKFDG 164 (422)
Q Consensus 153 ~sCPlCR~~l~~ 164 (422)
..||+|.++|..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999988765
No 185
>PF07330 DUF1467: Protein of unknown function (DUF1467); InterPro: IPR009935 This family consists of several bacterial proteins of around 90 residues in length. The function of this family is unknown.
Probab=27.73 E-value=2.2e+02 Score=23.82 Aligned_cols=35 Identities=23% Similarity=0.396 Sum_probs=19.1
Q ss_pred HHHHhhheeeeecccCCC-----CCCCCCCCCchhhHHHH
Q 038034 8 IVIFFCFFFHVKAQETSN-----SEPDSLHPLHPNIAVVI 42 (422)
Q Consensus 8 l~~~~~l~f~~~~q~~~p-----s~~~~~~~~~p~i~III 42 (422)
+.+|..|.|-+..|.... .+.+.+.++...--.++
T Consensus 16 ~~lF~vLP~gvrtq~E~g~vv~Gt~~sAP~~~~l~rk~~~ 55 (85)
T PF07330_consen 16 IVLFAVLPFGVRTQDEAGEVVPGTDPSAPANPRLKRKALI 55 (85)
T ss_pred HHHHHHccCCccccCcCCCcCCCCCCCCCCCchHHHHHHH
Confidence 345667777777775442 34555555554443333
No 186
>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=27.05 E-value=94 Score=26.36 Aligned_cols=27 Identities=22% Similarity=0.388 Sum_probs=11.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 038034 37 NIAVVIGVLSIAFSLLFLVLAYAKFCQSN 65 (422)
Q Consensus 37 ~i~III~Il~iiflL~~ill~~~r~c~r~ 65 (422)
++.+-+.++..+|++++| +|..||+.+
T Consensus 32 ~Lgm~~lvI~~iFil~Vi--lwfvCC~kR 58 (94)
T PF05393_consen 32 NLGMWFLVICGIFILLVI--LWFVCCKKR 58 (94)
T ss_pred ccchhHHHHHHHHHHHHH--HHHHHHHHh
Confidence 344444444444443333 333344443
No 187
>PHA02849 putative transmembrane protein; Provisional
Probab=27.00 E-value=1.2e+02 Score=25.15 Aligned_cols=20 Identities=25% Similarity=0.328 Sum_probs=9.0
Q ss_pred CchhhHHHHHHHHHHHHHHH
Q 038034 34 LHPNIAVVIGVLSIAFSLLF 53 (422)
Q Consensus 34 ~~p~i~III~Il~iiflL~~ 53 (422)
|..+.+.+|.+++++++++.
T Consensus 12 f~~g~v~vi~v~v~vI~i~~ 31 (82)
T PHA02849 12 FDAGAVTVILVFVLVISFLA 31 (82)
T ss_pred cccchHHHHHHHHHHHHHHH
Confidence 44444555444444443333
No 188
>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=26.98 E-value=22 Score=28.71 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=21.8
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCccccccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFD 163 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~ 163 (422)
..|+.|-.++... =+|.+|..|-.. +.....||-|..++.
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 4688887775432 267777778665 456677999988764
No 189
>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=26.83 E-value=37 Score=24.25 Aligned_cols=25 Identities=24% Similarity=0.529 Sum_probs=15.8
Q ss_pred CCCceeeCCchhhhhccCCCCCcccc
Q 038034 135 KCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 135 ~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
+|||.|....-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48888875532211 34567999986
No 190
>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=26.49 E-value=53 Score=22.24 Aligned_cols=19 Identities=21% Similarity=0.539 Sum_probs=12.5
Q ss_pred CCceeeCCchhhhhccCCCCCcccc
Q 038034 136 CRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 136 C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 777765543 3347999965
No 191
>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=25.62 E-value=76 Score=35.67 Aligned_cols=14 Identities=29% Similarity=0.842 Sum_probs=8.5
Q ss_pred HHHHHHHHHhcccC
Q 038034 53 FLVLAYAKFCQSNH 66 (422)
Q Consensus 53 ~ill~~~r~c~r~~ 66 (422)
+|+++|+++|++..
T Consensus 285 Iiiil~~~LCRk~K 298 (684)
T PF12877_consen 285 IIIILYWKLCRKNK 298 (684)
T ss_pred HHHHHHHHHhcccc
Confidence 34455667787655
No 192
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=25.37 E-value=1e+02 Score=28.48 Aligned_cols=15 Identities=0% Similarity=0.024 Sum_probs=6.1
Q ss_pred HHHHHHHHHHhcccC
Q 038034 52 LFLVLAYAKFCQSNH 66 (422)
Q Consensus 52 ~~ill~~~r~c~r~~ 66 (422)
+++++++-.+|+|+.
T Consensus 135 iii~CLiei~shr~a 149 (154)
T PF14914_consen 135 IIIFCLIEICSHRRA 149 (154)
T ss_pred HHHHHHHHHHhcccc
Confidence 333333333455543
No 193
>PHA02902 putative IMV membrane protein; Provisional
Probab=24.89 E-value=1.7e+02 Score=23.51 Aligned_cols=10 Identities=20% Similarity=0.371 Sum_probs=4.8
Q ss_pred CCCHHHHhhC
Q 038034 91 GIDKAVIESL 100 (422)
Q Consensus 91 gl~~~~i~~L 100 (422)
.++++++.+|
T Consensus 53 ~lTpDQirAl 62 (70)
T PHA02902 53 SLTPDQIKAL 62 (70)
T ss_pred cCCHHHHHHH
Confidence 3455555443
No 194
>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=24.62 E-value=38 Score=24.99 Aligned_cols=35 Identities=17% Similarity=0.243 Sum_probs=24.2
Q ss_pred ccccccccccccccceeecCCCCceeeCCchhhhh
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWL 149 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL 149 (422)
..|.+|-..|..-..-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888888776644333344589999998877654
No 195
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=24.33 E-value=49 Score=33.29 Aligned_cols=15 Identities=13% Similarity=0.330 Sum_probs=7.1
Q ss_pred hhHHHHHHHHHHHHH
Q 038034 37 NIAVVIGVLSIAFSL 51 (422)
Q Consensus 37 ~i~III~Il~iiflL 51 (422)
.+-|+||+.+++++|
T Consensus 272 ~vPIaVG~~La~lvl 286 (306)
T PF01299_consen 272 LVPIAVGAALAGLVL 286 (306)
T ss_pred hHHHHHHHHHHHHHH
Confidence 444555555444333
No 196
>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=24.13 E-value=26 Score=37.10 Aligned_cols=51 Identities=25% Similarity=0.551 Sum_probs=0.0
Q ss_pred Cccccccccccc--------------cc--cceeecCCCCceeeCCchhhhhcc---------CCCCCcccccccCC
Q 038034 114 GLECAVYLSKFE--------------DT--EILRLLPKCRHAFHMSCIDQWLEG---------HASCPLCRYKFDGR 165 (422)
Q Consensus 114 ~~~CsICLe~f~--------------~~--~~~r~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~l~~~ 165 (422)
.-+|++|+..=. +. -.....| |||+--.....-|-+. +..||.|-.++..+
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 568999997511 11 1234567 9999888888889753 34699998888753
No 197
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=24.04 E-value=45 Score=23.18 Aligned_cols=27 Identities=26% Similarity=0.479 Sum_probs=16.2
Q ss_pred ccccccccccccccce-------eecCCCCceee
Q 038034 115 LECAVYLSKFEDTEIL-------RLLPKCRHAFH 141 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~-------r~Lp~C~H~FH 141 (422)
.+|+=|...|..++.. ...++|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 3688888888755431 22335777764
No 198
>PHA02650 hypothetical protein; Provisional
Probab=23.79 E-value=1.8e+02 Score=24.23 Aligned_cols=17 Identities=12% Similarity=0.006 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHhccc
Q 038034 49 FSLLFLVLAYAKFCQSN 65 (422)
Q Consensus 49 flL~~ill~~~r~c~r~ 65 (422)
+++.+++++|.|.-+|.
T Consensus 60 ~i~~l~~flYLK~~~r~ 76 (81)
T PHA02650 60 IIVALFSFFVFKGYTRN 76 (81)
T ss_pred HHHHHHHHHHHHHhccc
Confidence 34444455566655543
No 199
>PTZ00046 rifin; Provisional
Probab=23.77 E-value=79 Score=33.11 Aligned_cols=29 Identities=10% Similarity=0.351 Sum_probs=13.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 35 HPNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 35 ~p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
.++++-+|+|+++++++ +|+++++||+|.
T Consensus 315 taIiaSiiAIvVIVLIM-vIIYLILRYRRK 343 (358)
T PTZ00046 315 TAIIASIVAIVVIVLIM-VIIYLILRYRRK 343 (358)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHhhhc
Confidence 34555555555544433 333444555544
No 200
>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=23.59 E-value=84 Score=32.85 Aligned_cols=29 Identities=21% Similarity=0.461 Sum_probs=13.9
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 35 HPNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 35 ~p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
.++++-+|+|+++++++ +|+++++||+|.
T Consensus 310 t~IiaSiIAIvvIVLIM-vIIYLILRYRRK 338 (353)
T TIGR01477 310 TPIIASIIAILIIVLIM-VIIYLILRYRRK 338 (353)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHhhhc
Confidence 34555555555554433 333444455544
No 201
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=23.57 E-value=54 Score=38.88 Aligned_cols=51 Identities=24% Similarity=0.522 Sum_probs=34.6
Q ss_pred CCccccccccccc---cccceeecCCCCceeeCCchhh-hhccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFE---DTEILRLLPKCRHAFHMSCIDQ-WLEGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~---~~~~~r~Lp~C~H~FH~~CI~~-WL~~~~sCPlCR~~l~ 163 (422)
....|.||-+++. +|+.-.-+-.|+---|..|.+= .-..++.||.|+....
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 3458999999875 3333333334777789999732 2234788999998776
No 202
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.52 E-value=95 Score=27.51 Aligned_cols=15 Identities=13% Similarity=0.620 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHHH
Q 038034 40 VVIGVLSIAFSLLFL 54 (422)
Q Consensus 40 III~Il~iiflL~~i 54 (422)
+++++++++++++++
T Consensus 96 ~il~~v~~i~l~iii 110 (116)
T KOG0860|consen 96 IILGLVIIILLVVII 110 (116)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 203
>PRK00523 hypothetical protein; Provisional
Probab=23.48 E-value=1.3e+02 Score=24.44 Aligned_cols=8 Identities=25% Similarity=0.580 Sum_probs=3.0
Q ss_pred hHHHHHHH
Q 038034 38 IAVVIGVL 45 (422)
Q Consensus 38 i~III~Il 45 (422)
++|+++|+
T Consensus 6 l~I~l~i~ 13 (72)
T PRK00523 6 LALGLGIP 13 (72)
T ss_pred HHHHHHHH
Confidence 33333333
No 204
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=23.39 E-value=48 Score=34.20 Aligned_cols=43 Identities=7% Similarity=-0.119 Sum_probs=30.5
Q ss_pred CCccccccccccccccceeecCCCCce-eeCCchhhhhccCCCCCccccc
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHA-FHMSCIDQWLEGHASCPLCRYK 161 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~ 161 (422)
...+|.+|-..... ..+.+ |+|. |+..|.. +....+||+|-..
T Consensus 342 s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hhcccccccCceee---eEeec-CCcccChhhhhh--cccCCcccccccc
Confidence 34578888665433 34566 9986 8888877 5668899999754
No 205
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=23.35 E-value=25 Score=35.76 Aligned_cols=42 Identities=19% Similarity=0.547 Sum_probs=33.4
Q ss_pred CCccccccccccccccceeecCCCCceeeCCchhhhhccCCCCCcccccccC
Q 038034 113 EGLECAVYLSKFEDTEILRLLPKCRHAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
-+..|+.|-+.+.+...++.- =.|+||.+| ..|-+|.+.+..
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~C--------F~C~iC~R~L~T 132 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHC--------FACFICKRQLAT 132 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhh--------hhhHhhhccccc
Confidence 356899999998887777665 589999999 568889887764
No 206
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=23.25 E-value=60 Score=29.90 Aligned_cols=25 Identities=32% Similarity=0.813 Sum_probs=19.2
Q ss_pred eeCCchhhhhcc----CCCCCcccccccC
Q 038034 140 FHMSCIDQWLEG----HASCPLCRYKFDG 164 (422)
Q Consensus 140 FH~~CI~~WL~~----~~sCPlCR~~l~~ 164 (422)
||..||++=|.. .-.||.|...-..
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~ 30 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSG 30 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCC
Confidence 899999998875 3359999875443
No 207
>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=23.17 E-value=27 Score=36.88 Aligned_cols=44 Identities=27% Similarity=0.561 Sum_probs=0.0
Q ss_pred Cccccccccccccc-----------cceeecCCCCceeeCCchhhhhc------cCCCCCccccc
Q 038034 114 GLECAVYLSKFEDT-----------EILRLLPKCRHAFHMSCIDQWLE------GHASCPLCRYK 161 (422)
Q Consensus 114 ~~~CsICLe~f~~~-----------~~~r~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~~ 161 (422)
-..|+|=|..+.-+ .....+ +|||++..+ .|-. ...+||+||..
T Consensus 277 rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 277 RPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred CCCCCcCCCccccccccccccccccCceeec-cccceeeec---ccccccccccccccCCCcccc
Confidence 34677776654321 122344 499986644 5643 24579999974
No 208
>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=23.07 E-value=21 Score=26.59 Aligned_cols=41 Identities=29% Similarity=0.743 Sum_probs=17.9
Q ss_pred ccccccccccccccceeecCCCCceeeCCchh--hhhcc-----CCCCCccccc
Q 038034 115 LECAVYLSKFEDTEILRLLPKCRHAFHMSCID--QWLEG-----HASCPLCRYK 161 (422)
Q Consensus 115 ~~CsICLe~f~~~~~~r~Lp~C~H~FH~~CI~--~WL~~-----~~sCPlCR~~ 161 (422)
..|+|....+.. .+|-.. |.|. .|.| .||.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~~-C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKN-CKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT---SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCc-Cccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 368888777655 344444 8887 5654 46643 3359999763
No 209
>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=23.01 E-value=54 Score=25.51 Aligned_cols=45 Identities=18% Similarity=0.441 Sum_probs=32.2
Q ss_pred cccccccccccccc-ceeecCCCC--ceeeCCchhhhhccCCCCCcccccccC
Q 038034 115 LECAVYLSKFEDTE-ILRLLPKCR--HAFHMSCIDQWLEGHASCPLCRYKFDG 164 (422)
Q Consensus 115 ~~CsICLe~f~~~~-~~r~Lp~C~--H~FH~~CI~~WL~~~~sCPlCR~~l~~ 164 (422)
..|-.|-.++..+. ...+ |. ..||.+|.+.-| +..||.|-..+..
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 35777777776655 3333 54 569999999876 7889999876654
No 210
>PLN02436 cellulose synthase A
Probab=22.83 E-value=59 Score=38.58 Aligned_cols=50 Identities=24% Similarity=0.582 Sum_probs=35.1
Q ss_pred Cccccccccccc---cccceeecCCCCceeeCCchhhhh-ccCCCCCccccccc
Q 038034 114 GLECAVYLSKFE---DTEILRLLPKCRHAFHMSCIDQWL-EGHASCPLCRYKFD 163 (422)
Q Consensus 114 ~~~CsICLe~f~---~~~~~r~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~l~ 163 (422)
...|.||-+++. +|+.-.-+..|+--.|..|.+-=- ..++.||.|++...
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 458999999963 444444444577789999984322 24778999998776
No 211
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=22.60 E-value=1.6e+02 Score=26.30 Aligned_cols=31 Identities=19% Similarity=0.127 Sum_probs=16.5
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 038034 34 LHPNIAVVIGVLSIAFSLLFLVLAYAKFCQS 64 (422)
Q Consensus 34 ~~p~i~III~Il~iiflL~~ill~~~r~c~r 64 (422)
...++-++||-|..+.+..+..+.+++.|.|
T Consensus 82 ~d~aLp~VIGGLcaL~LaamGA~~LLrR~cR 112 (126)
T PF03229_consen 82 VDFALPLVIGGLCALTLAAMGAGALLRRCCR 112 (126)
T ss_pred cccchhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3345666666665555555555444444433
No 212
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=22.52 E-value=39 Score=28.44 Aligned_cols=34 Identities=24% Similarity=0.500 Sum_probs=22.1
Q ss_pred CCcccccccccccccccee-ecCCCCceeeCCchhhh
Q 038034 113 EGLECAVYLSKFEDTEILR-LLPKCRHAFHMSCIDQW 148 (422)
Q Consensus 113 e~~~CsICLe~f~~~~~~r-~Lp~C~H~FH~~CI~~W 148 (422)
....|.||... .|..+. .-+.|...||..|....
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 45689999887 222221 11138889999997653
No 213
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.26 E-value=47 Score=33.50 Aligned_cols=18 Identities=17% Similarity=0.528 Sum_probs=10.1
Q ss_pred chhhhhccCCCCCccccc
Q 038034 144 CIDQWLEGHASCPLCRYK 161 (422)
Q Consensus 144 CI~~WL~~~~sCPlCR~~ 161 (422)
|+...-.-...||.|...
T Consensus 261 Clsi~C~~p~~C~~Cgt~ 278 (279)
T TIGR00627 261 CLSVLCQYTPICKTCKTA 278 (279)
T ss_pred ccCCcCCCCCCCCCCCCC
Confidence 333333334678888764
No 214
>PHA02657 hypothetical protein; Provisional
Probab=22.07 E-value=1.4e+02 Score=25.30 Aligned_cols=28 Identities=11% Similarity=0.348 Sum_probs=12.6
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 038034 33 PLHPNIAVVIGVLSIAFSLLFLVLAYAKF 61 (422)
Q Consensus 33 ~~~p~i~III~Il~iiflL~~ill~~~r~ 61 (422)
+|-..+.+.+.++ ++.++.++++.+.+|
T Consensus 23 ~~~~imVitvfv~-vI~il~flLLYLvkW 50 (95)
T PHA02657 23 NFESILVFTIFIF-VVCILIYLLIYLVDW 50 (95)
T ss_pred cchhhhHHHHHHH-HHHHHHHHHHHHHHH
Confidence 4444444444443 333444444444544
No 215
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=21.81 E-value=1.2e+02 Score=25.54 Aligned_cols=36 Identities=22% Similarity=0.417 Sum_probs=18.4
Q ss_pred CCCCchhhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 31 LHPLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 31 ~~~~~p~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
..++.+...-||+.-.++++|..+.+..+.||.+.+
T Consensus 9 vqplp~~~yyiiA~gga~llL~~v~l~vvL~C~r~~ 44 (87)
T PF11980_consen 9 VQPLPPYWYYIIAMGGALLLLVAVCLGVVLYCHRFH 44 (87)
T ss_pred cCCCCceeeHHHhhccHHHHHHHHHHHHHHhhhhhc
Confidence 344555555555555555555555544455555443
No 216
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=21.56 E-value=2e+02 Score=23.41 Aligned_cols=8 Identities=25% Similarity=0.447 Sum_probs=4.7
Q ss_pred CCchhhHH
Q 038034 1 MSQFCVLI 8 (422)
Q Consensus 1 ~~~~~~~l 8 (422)
|-||++.+
T Consensus 1 MDKLyaai 8 (72)
T PF12575_consen 1 MDKLYAAI 8 (72)
T ss_pred ChhHHHHH
Confidence 55666555
No 217
>PLN02400 cellulose synthase
Probab=21.32 E-value=61 Score=38.49 Aligned_cols=51 Identities=16% Similarity=0.512 Sum_probs=34.2
Q ss_pred CCccccccccccc---cccceeecCCCCceeeCCchhh-hhccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFE---DTEILRLLPKCRHAFHMSCIDQ-WLEGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~---~~~~~r~Lp~C~H~FH~~CI~~-WL~~~~sCPlCR~~l~ 163 (422)
....|.||-+++. +|+.-.-+-.|+---|..|-+= .-..++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3458999999874 3333333334777789999732 1234788999998776
No 218
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=20.96 E-value=70 Score=28.23 Aligned_cols=19 Identities=16% Similarity=0.259 Sum_probs=13.8
Q ss_pred hhccCCCCCcccccccCCC
Q 038034 148 WLEGHASCPLCRYKFDGRD 166 (422)
Q Consensus 148 WL~~~~sCPlCR~~l~~~~ 166 (422)
-+.+...|+.|++++..+.
T Consensus 81 mLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred hhchhhccCcCCCcCccCc
Confidence 3455578999999887643
No 219
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=20.82 E-value=17 Score=33.56 Aligned_cols=30 Identities=27% Similarity=0.275 Sum_probs=13.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 038034 35 HPNIAVVIGVLSIAFSLLFLVLAYAKFCQSNH 66 (422)
Q Consensus 35 ~p~i~III~Il~iiflL~~ill~~~r~c~r~~ 66 (422)
+..|.+++||...+++ ++++ +++.||.+++
T Consensus 49 nIVIGvVVGVGg~ill-~il~-lvf~~c~r~k 78 (154)
T PF04478_consen 49 NIVIGVVVGVGGPILL-GILA-LVFIFCIRRK 78 (154)
T ss_pred cEEEEEEecccHHHHH-HHHH-hheeEEEecc
Confidence 4455666665544332 2222 2233555544
No 220
>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=20.68 E-value=56 Score=33.42 Aligned_cols=46 Identities=17% Similarity=0.200 Sum_probs=30.3
Q ss_pred Cccccccccccccccceeec---CCCCceeeCCchhhhhccCCCCCcccc
Q 038034 114 GLECAVYLSKFEDTEILRLL---PKCRHAFHMSCIDQWLEGHASCPLCRY 160 (422)
Q Consensus 114 ~~~CsICLe~f~~~~~~r~L---p~C~H~FH~~CI~~WL~~~~sCPlCR~ 160 (422)
...|+||-..-.... ++.. .+=.|.+|.-|=..|--....||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 458999987632211 1110 112366777899999888899999975
No 221
>PLN02195 cellulose synthase A
Probab=20.64 E-value=86 Score=36.92 Aligned_cols=50 Identities=20% Similarity=0.400 Sum_probs=34.9
Q ss_pred CCcccccccccccc---ccceeecCCCCceeeCCchhhhh--ccCCCCCccccccc
Q 038034 113 EGLECAVYLSKFED---TEILRLLPKCRHAFHMSCIDQWL--EGHASCPLCRYKFD 163 (422)
Q Consensus 113 e~~~CsICLe~f~~---~~~~r~Lp~C~H~FH~~CI~~WL--~~~~sCPlCR~~l~ 163 (422)
....|.||-+++.. |+.-.-+-.|+---|..|. ++= ..++.||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 34589999997653 3333333458888999997 332 24778999999887
No 222
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=20.56 E-value=1.2e+02 Score=32.19 Aligned_cols=16 Identities=19% Similarity=0.258 Sum_probs=6.1
Q ss_pred CCchhhHHHHHhhhee
Q 038034 1 MSQFCVLIVIFFCFFF 16 (422)
Q Consensus 1 ~~~~~~~l~~~~~l~f 16 (422)
|-.+..++++|.+-++
T Consensus 1 M~~vl~l~~ll~agi~ 16 (400)
T COG3071 1 MRRVLLLFVLLLAGIG 16 (400)
T ss_pred ChhhHHHHHHHHHHHH
Confidence 3333333333333333
No 223
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=20.34 E-value=77 Score=27.15 Aligned_cols=80 Identities=21% Similarity=0.216 Sum_probs=0.0
Q ss_pred heeeeecccCCCCC-CCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCcCcchhhHHhhhcccCCCC
Q 038034 14 FFFHVKAQETSNSE-PDSLHPLHPNIAVVIGVLSIAFSLLFLVLAYAKFCQSNHSNFADGDPHHRNLQELVRSRSRFSGI 92 (422)
Q Consensus 14 l~f~~~~q~~~ps~-~~~~~~~~p~i~III~Il~iiflL~~ill~~~r~c~r~~~~~~~~~~~~~~~~~l~r~~~~~~gl 92 (422)
+|-.+.-|...++. ++........-..-.......+++++|++.++.+|+.++...............+.+..-...+-
T Consensus 15 vfg~vhcqa~~nsaGgdL~atS~~~ayWpyLA~GGG~iLilIii~Lv~CC~~K~K~~~~r~~~~reLval~~~~~~~~p~ 94 (98)
T PF07204_consen 15 VFGNVHCQASQNSAGGDLQATSSFVAYWPYLAAGGGLILILIIIALVCCCRAKHKTSAARNTFHRELVALTRSKVNSAPP 94 (98)
T ss_pred hccchheeccccCCCCCeEEeehHHhhhHHhhccchhhhHHHHHHHHHHhhhhhhhHhhhhHHHHHHHHHhccccCCCCC
Q ss_pred C
Q 038034 93 D 93 (422)
Q Consensus 93 ~ 93 (422)
+
T Consensus 95 ~ 95 (98)
T PF07204_consen 95 S 95 (98)
T ss_pred C
No 224
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.25 E-value=77 Score=32.76 Aligned_cols=34 Identities=26% Similarity=0.392 Sum_probs=22.3
Q ss_pred CCCCHHHHhhCCceEeeccCCCCCCccccccccc
Q 038034 90 SGIDKAVIESLPLFRFASLRGSKEGLECAVYLSK 123 (422)
Q Consensus 90 ~gl~~~~i~~LP~~~~~~~~~~~e~~~CsICLe~ 123 (422)
.|.+..+++.+|.+-.--..-...+..|+.|-..
T Consensus 284 mGFPs~~~E~~Ps~CaCHs~~~~gGy~CP~Cktk 317 (421)
T COG5151 284 MGFPSPMMEQLPSVCACHSEVKGGGYECPVCKTK 317 (421)
T ss_pred ecCCchhhhcCccceeeeeeeccCceeCCcccce
Confidence 3566677788887655444445566788888665
No 225
>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=20.15 E-value=86 Score=27.17 Aligned_cols=47 Identities=19% Similarity=0.292 Sum_probs=29.0
Q ss_pred CCccccccccccccc-cceeecCCCCceeeCCchhhhhccCC--CCCcccc
Q 038034 113 EGLECAVYLSKFEDT-EILRLLPKCRHAFHMSCIDQWLEGHA--SCPLCRY 160 (422)
Q Consensus 113 e~~~CsICLe~f~~~-~~~r~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR~ 160 (422)
+...|++|...|.-- ..-...+.|+|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 456899999887432 12244556999999999655 21122 3888865
No 226
>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=20.07 E-value=25 Score=28.14 Aligned_cols=12 Identities=25% Similarity=1.007 Sum_probs=8.6
Q ss_pred eeeCCchhhhhc
Q 038034 139 AFHMSCIDQWLE 150 (422)
Q Consensus 139 ~FH~~CI~~WL~ 150 (422)
.||..|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
Done!