Query 036833
Match_columns 352
No_of_seqs 390 out of 1909
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 05:55:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036833.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036833hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 4E-19 8.7E-24 172.6 8.5 80 114-194 203-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 4.2E-14 9E-19 98.5 1.8 44 141-185 1-44 (44)
3 COG5540 RING-finger-containing 99.2 1.1E-12 2.4E-17 124.1 -2.0 50 140-190 323-373 (374)
4 PHA02929 N1R/p28-like protein; 99.2 2.1E-11 4.5E-16 114.0 4.7 75 115-189 147-227 (238)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.7E-11 3.6E-16 94.8 3.1 45 140-185 19-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.1 1.2E-10 2.6E-15 113.0 7.8 67 120-189 269-345 (491)
7 PF13920 zf-C3HC4_3: Zinc fing 98.8 1.8E-09 4E-14 77.1 2.8 46 140-189 2-48 (50)
8 cd00162 RING RING-finger (Real 98.8 4.1E-09 8.9E-14 71.7 3.3 44 142-188 1-45 (45)
9 KOG0317 Predicted E3 ubiquitin 98.8 6.3E-09 1.4E-13 98.4 4.9 48 140-191 239-286 (293)
10 PF12861 zf-Apc11: Anaphase-pr 98.7 7.1E-09 1.5E-13 81.9 3.1 51 140-190 21-83 (85)
11 PF13923 zf-C3HC4_2: Zinc fing 98.7 9.1E-09 2E-13 69.7 2.6 39 143-184 1-39 (39)
12 PLN03208 E3 ubiquitin-protein 98.7 1.6E-08 3.4E-13 91.5 3.8 49 139-191 17-81 (193)
13 KOG0802 E3 ubiquitin ligase [P 98.7 7.1E-09 1.5E-13 108.2 1.7 54 139-193 290-345 (543)
14 PHA02926 zinc finger-like prot 98.6 1.5E-08 3.2E-13 92.9 2.2 52 139-190 169-231 (242)
15 COG5194 APC11 Component of SCF 98.6 3.6E-08 7.8E-13 76.3 2.6 45 146-190 37-82 (88)
16 KOG0320 Predicted E3 ubiquitin 98.5 3.2E-08 7E-13 87.7 2.2 51 139-191 130-180 (187)
17 KOG0823 Predicted E3 ubiquitin 98.5 4.8E-08 1E-12 90.0 2.6 50 139-192 46-98 (230)
18 PF14634 zf-RING_5: zinc-RING 98.5 7.5E-08 1.6E-12 67.0 2.8 44 142-186 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 98.5 9.5E-08 2.1E-12 65.1 2.4 39 143-184 1-41 (41)
20 smart00184 RING Ring finger. E 98.4 1.4E-07 3E-12 61.8 2.9 38 143-184 1-39 (39)
21 KOG2930 SCF ubiquitin ligase, 98.4 1.4E-07 3.1E-12 76.4 1.6 52 139-190 45-109 (114)
22 PF15227 zf-C3HC4_4: zinc fing 98.4 2.6E-07 5.6E-12 63.8 2.5 38 143-184 1-42 (42)
23 smart00504 Ubox Modified RING 98.3 4.3E-07 9.3E-12 67.2 3.4 44 142-189 3-46 (63)
24 KOG0828 Predicted E3 ubiquitin 98.3 7.8E-07 1.7E-11 89.5 5.5 51 139-190 570-635 (636)
25 KOG1493 Anaphase-promoting com 98.3 1.5E-07 3.3E-12 72.3 0.1 50 140-189 20-81 (84)
26 TIGR00599 rad18 DNA repair pro 98.2 7.5E-07 1.6E-11 89.2 3.5 49 138-190 24-72 (397)
27 KOG1734 Predicted RING-contain 98.1 7.6E-07 1.7E-11 83.6 1.1 52 138-190 222-282 (328)
28 COG5219 Uncharacterized conser 98.1 7.6E-07 1.7E-11 95.0 0.2 65 125-189 1454-1523(1525)
29 KOG0804 Cytoplasmic Zn-finger 98.0 1.8E-06 3.9E-11 86.1 2.2 51 136-189 171-222 (493)
30 COG5574 PEX10 RING-finger-cont 98.0 2.1E-06 4.5E-11 80.6 2.3 49 140-192 215-265 (271)
31 smart00744 RINGv The RING-vari 97.9 6.1E-06 1.3E-10 58.9 2.7 42 142-185 1-49 (49)
32 KOG4265 Predicted E3 ubiquitin 97.9 5E-06 1.1E-10 81.2 2.6 48 140-191 290-338 (349)
33 KOG0287 Postreplication repair 97.8 9.8E-06 2.1E-10 78.5 1.5 48 140-191 23-70 (442)
34 KOG2164 Predicted E3 ubiquitin 97.7 1.9E-05 4.1E-10 80.3 2.9 48 140-191 186-238 (513)
35 PF13445 zf-RING_UBOX: RING-ty 97.7 2.3E-05 5E-10 54.5 2.5 33 143-177 1-34 (43)
36 COG5432 RAD18 RING-finger-cont 97.7 1.6E-05 3.4E-10 75.6 2.1 48 139-190 24-71 (391)
37 TIGR00570 cdk7 CDK-activating 97.7 3.6E-05 7.8E-10 74.6 4.2 54 140-194 3-59 (309)
38 KOG2177 Predicted E3 ubiquitin 97.7 2.1E-05 4.5E-10 73.0 2.0 43 139-185 12-54 (386)
39 PF04564 U-box: U-box domain; 97.6 3.6E-05 7.8E-10 59.3 2.5 47 140-190 4-51 (73)
40 PF11793 FANCL_C: FANCL C-term 97.6 1.9E-05 4.2E-10 60.5 0.2 50 141-190 3-67 (70)
41 KOG4445 Uncharacterized conser 97.5 4.2E-05 9.1E-10 73.1 1.9 52 140-192 115-189 (368)
42 KOG0827 Predicted E3 ubiquitin 97.5 4.5E-05 9.8E-10 75.1 2.0 45 141-186 5-53 (465)
43 KOG4172 Predicted E3 ubiquitin 97.5 3.7E-05 8E-10 55.6 0.8 46 140-189 7-54 (62)
44 KOG1571 Predicted E3 ubiquitin 97.4 2.7E-05 5.9E-10 76.2 -0.3 43 140-189 305-347 (355)
45 KOG0311 Predicted E3 ubiquitin 97.4 2.4E-05 5.2E-10 76.2 -1.2 50 139-191 42-92 (381)
46 KOG0825 PHD Zn-finger protein 97.3 5.5E-05 1.2E-09 80.0 0.3 50 141-191 124-173 (1134)
47 KOG1039 Predicted E3 ubiquitin 97.3 0.00014 3E-09 71.8 2.4 52 140-191 161-223 (344)
48 PF14835 zf-RING_6: zf-RING of 97.1 0.00013 2.7E-09 54.8 -0.2 46 141-191 8-53 (65)
49 KOG0824 Predicted E3 ubiquitin 96.9 0.00039 8.5E-09 66.7 1.9 52 140-195 7-59 (324)
50 KOG1645 RING-finger-containing 96.9 0.00054 1.2E-08 68.1 2.6 48 140-187 4-54 (463)
51 KOG0978 E3 ubiquitin ligase in 96.8 0.00046 9.9E-09 73.3 1.4 46 141-190 644-690 (698)
52 KOG1785 Tyrosine kinase negati 96.8 0.00054 1.2E-08 67.9 1.5 46 142-191 371-418 (563)
53 KOG4159 Predicted E3 ubiquitin 96.5 0.0017 3.8E-08 65.3 3.1 50 138-191 82-131 (398)
54 PF05883 Baculo_RING: Baculovi 96.3 0.0012 2.6E-08 56.6 0.7 35 140-175 26-66 (134)
55 KOG1428 Inhibitor of type V ad 96.2 0.0027 5.9E-08 71.2 2.6 66 125-191 3470-3546(3738)
56 KOG3970 Predicted E3 ubiquitin 96.1 0.0039 8.4E-08 57.7 2.6 50 140-191 50-107 (299)
57 KOG1941 Acetylcholine receptor 96.1 0.0045 9.7E-08 61.5 3.1 45 141-186 366-413 (518)
58 KOG0801 Predicted E3 ubiquitin 95.9 0.0023 5.1E-08 56.3 0.3 30 138-168 175-204 (205)
59 KOG0297 TNF receptor-associate 95.9 0.0041 8.8E-08 62.8 2.1 51 138-191 19-69 (391)
60 KOG4275 Predicted E3 ubiquitin 95.6 0.0023 5.1E-08 61.2 -0.8 43 140-190 300-343 (350)
61 PF11789 zf-Nse: Zinc-finger o 95.5 0.0079 1.7E-07 44.3 1.7 41 140-183 11-53 (57)
62 KOG0826 Predicted E3 ubiquitin 95.2 0.05 1.1E-06 53.1 6.7 46 139-187 299-344 (357)
63 PF12906 RINGv: RING-variant d 95.2 0.012 2.6E-07 41.5 1.8 41 143-184 1-47 (47)
64 PF14570 zf-RING_4: RING/Ubox 95.1 0.015 3.3E-07 41.3 2.2 45 143-188 1-47 (48)
65 PF10367 Vps39_2: Vacuolar sor 95.0 0.0083 1.8E-07 48.6 0.7 32 139-172 77-108 (109)
66 COG5152 Uncharacterized conser 94.7 0.018 3.8E-07 52.5 1.9 44 141-188 197-240 (259)
67 KOG2660 Locus-specific chromos 94.6 0.0091 2E-07 58.2 -0.1 49 139-190 14-62 (331)
68 KOG2879 Predicted E3 ubiquitin 94.3 0.038 8.2E-07 52.7 3.4 48 139-189 238-287 (298)
69 PHA02862 5L protein; Provision 94.1 0.04 8.8E-07 47.8 2.7 46 141-191 3-55 (156)
70 KOG3039 Uncharacterized conser 93.9 0.043 9.3E-07 51.6 2.8 54 141-194 222-275 (303)
71 PHA03096 p28-like protein; Pro 93.9 0.03 6.5E-07 54.2 1.9 36 141-176 179-218 (284)
72 KOG1952 Transcription factor N 93.8 0.028 6.1E-07 60.7 1.6 49 140-188 191-246 (950)
73 PHA02825 LAP/PHD finger-like p 93.7 0.068 1.5E-06 47.2 3.5 49 139-191 7-61 (162)
74 COG5222 Uncharacterized conser 93.4 0.048 1E-06 52.6 2.3 48 141-191 275-324 (427)
75 KOG1814 Predicted E3 ubiquitin 93.3 0.041 8.9E-07 55.1 1.7 36 140-176 184-219 (445)
76 KOG1002 Nucleotide excision re 93.2 0.04 8.7E-07 56.8 1.5 50 138-191 534-588 (791)
77 KOG4692 Predicted E3 ubiquitin 93.2 0.07 1.5E-06 52.6 3.1 49 138-190 420-468 (489)
78 COG5236 Uncharacterized conser 93.2 0.071 1.5E-06 52.4 3.1 50 138-191 59-110 (493)
79 KOG4739 Uncharacterized protei 92.9 0.031 6.6E-07 52.4 0.2 49 142-194 5-53 (233)
80 PF08746 zf-RING-like: RING-li 92.8 0.076 1.6E-06 36.8 1.9 41 143-184 1-43 (43)
81 KOG0827 Predicted E3 ubiquitin 92.3 0.017 3.6E-07 57.5 -2.6 52 140-192 196-248 (465)
82 PF01708 Gemini_mov: Geminivir 92.3 0.15 3.2E-06 40.8 3.2 56 27-85 7-62 (91)
83 PF14447 Prok-RING_4: Prokaryo 92.1 0.081 1.8E-06 38.6 1.4 43 142-190 9-51 (55)
84 PF04641 Rtf2: Rtf2 RING-finge 92.0 0.15 3.3E-06 48.6 3.6 54 139-193 112-165 (260)
85 KOG1813 Predicted E3 ubiquitin 91.9 0.063 1.4E-06 51.7 0.8 44 141-188 242-285 (313)
86 KOG2114 Vacuolar assembly/sort 91.7 0.075 1.6E-06 57.5 1.2 40 141-186 841-880 (933)
87 KOG3268 Predicted E3 ubiquitin 89.7 0.25 5.4E-06 44.5 2.5 30 161-190 189-229 (234)
88 KOG4185 Predicted E3 ubiquitin 89.7 0.21 4.6E-06 48.1 2.3 47 141-188 4-54 (296)
89 KOG1940 Zn-finger protein [Gen 88.4 0.29 6.2E-06 47.2 2.1 44 142-186 160-204 (276)
90 COG5175 MOT2 Transcriptional r 88.0 0.31 6.7E-06 47.9 2.1 59 139-197 13-72 (480)
91 PF14446 Prok-RING_1: Prokaryo 87.6 0.59 1.3E-05 34.1 2.8 34 140-173 5-38 (54)
92 KOG2034 Vacuolar sorting prote 87.4 0.26 5.7E-06 53.8 1.3 35 139-175 816-850 (911)
93 KOG1100 Predicted E3 ubiquitin 87.2 0.24 5.2E-06 45.8 0.8 39 143-189 161-200 (207)
94 KOG0309 Conserved WD40 repeat- 87.2 0.35 7.7E-06 52.0 2.1 23 161-183 1047-1069(1081)
95 KOG3653 Transforming growth fa 87.0 1.4 3.1E-05 45.5 6.2 13 167-179 291-303 (534)
96 KOG1001 Helicase-like transcri 86.6 0.29 6.2E-06 52.8 1.1 49 141-194 455-505 (674)
97 PF07800 DUF1644: Protein of u 86.4 0.78 1.7E-05 40.6 3.5 36 140-176 2-47 (162)
98 PF10272 Tmpp129: Putative tra 86.0 0.8 1.7E-05 45.8 3.8 28 162-189 311-351 (358)
99 KOG3161 Predicted E3 ubiquitin 85.3 0.34 7.3E-06 51.3 0.8 44 140-186 11-54 (861)
100 KOG0298 DEAD box-containing he 84.9 0.32 7E-06 55.0 0.5 46 141-189 1154-1199(1394)
101 KOG2932 E3 ubiquitin ligase in 84.8 0.42 9.1E-06 46.5 1.1 42 142-188 92-133 (389)
102 PF01102 Glycophorin_A: Glycop 82.3 2.2 4.7E-05 36.3 4.3 20 59-78 65-84 (122)
103 PF02439 Adeno_E3_CR2: Adenovi 80.6 3.7 8E-05 27.7 4.0 26 61-86 6-31 (38)
104 KOG1609 Protein involved in mR 78.9 1 2.3E-05 43.1 1.5 52 140-192 78-137 (323)
105 KOG3800 Predicted E3 ubiquitin 78.5 1.6 3.4E-05 42.2 2.5 56 142-198 2-60 (300)
106 KOG0802 E3 ubiquitin ligase [P 77.9 1.4 3.1E-05 46.4 2.3 47 140-194 479-525 (543)
107 PF05290 Baculo_IE-1: Baculovi 76.4 2.2 4.7E-05 36.8 2.5 51 140-192 80-135 (140)
108 PF02009 Rifin_STEVOR: Rifin/s 75.3 4 8.7E-05 39.9 4.4 24 59-82 257-280 (299)
109 PF12768 Rax2: Cortical protei 71.8 3 6.5E-05 40.4 2.6 76 7-90 183-260 (281)
110 COG5183 SSM4 Protein involved 71.0 3.7 8.1E-05 44.8 3.3 56 140-196 12-73 (1175)
111 KOG0269 WD40 repeat-containing 70.7 3.2 6.9E-05 45.0 2.7 40 142-183 781-820 (839)
112 COG5220 TFB3 Cdk activating ki 70.4 1.6 3.5E-05 41.2 0.4 57 140-196 10-71 (314)
113 KOG1829 Uncharacterized conser 70.3 1.6 3.6E-05 46.1 0.5 43 140-186 511-558 (580)
114 KOG3002 Zn finger protein [Gen 70.0 3.1 6.7E-05 40.7 2.3 45 139-189 47-91 (299)
115 PF03854 zf-P11: P-11 zinc fin 69.9 1.9 4.2E-05 30.6 0.6 29 162-190 18-47 (50)
116 PF05568 ASFV_J13L: African sw 69.0 6.5 0.00014 34.4 3.8 13 60-72 31-43 (189)
117 PF07975 C1_4: TFIIH C1-like d 68.5 3.3 7.1E-05 29.9 1.6 43 143-185 2-50 (51)
118 PF12273 RCR: Chitin synthesis 68.4 5.5 0.00012 33.8 3.3 6 84-89 22-27 (130)
119 KOG2817 Predicted E3 ubiquitin 68.2 3.8 8.3E-05 41.2 2.5 44 140-184 334-380 (394)
120 PF15102 TMEM154: TMEM154 prot 66.2 1.9 4.2E-05 37.6 0.0 10 168-177 127-136 (146)
121 TIGR01477 RIFIN variant surfac 65.4 8.2 0.00018 38.5 4.2 28 58-86 310-337 (353)
122 PTZ00046 rifin; Provisional 64.1 8.8 0.00019 38.4 4.1 28 58-86 315-342 (358)
123 KOG0825 PHD Zn-finger protein 64.0 5 0.00011 43.8 2.5 53 139-191 95-156 (1134)
124 TIGR00622 ssl1 transcription f 63.0 7.7 0.00017 32.5 3.0 46 140-185 55-110 (112)
125 KOG1812 Predicted E3 ubiquitin 62.9 3.4 7.5E-05 41.7 1.1 37 140-177 146-183 (384)
126 KOG3053 Uncharacterized conser 62.4 4.3 9.3E-05 38.7 1.5 52 139-191 19-84 (293)
127 KOG3899 Uncharacterized conser 61.4 4.8 0.00011 39.1 1.7 29 162-190 325-366 (381)
128 PF13901 DUF4206: Domain of un 60.5 6.1 0.00013 36.3 2.2 40 140-185 152-196 (202)
129 PF15183 MRAP: Melanocortin-2 58.8 14 0.0003 29.4 3.5 9 31-39 10-18 (90)
130 PF06024 DUF912: Nucleopolyhed 57.7 4 8.7E-05 33.4 0.4 17 58-74 62-78 (101)
131 TIGR01478 STEVOR variant surfa 57.6 13 0.00028 36.1 3.8 29 55-83 256-284 (295)
132 KOG4362 Transcriptional regula 57.4 3.2 6.9E-05 44.7 -0.2 47 140-190 21-70 (684)
133 PTZ00370 STEVOR; Provisional 56.6 13 0.00029 36.0 3.8 27 55-81 252-278 (296)
134 PF01102 Glycophorin_A: Glycop 55.7 13 0.00029 31.5 3.3 26 53-79 63-88 (122)
135 smart00132 LIM Zinc-binding do 55.1 8.3 0.00018 24.5 1.6 36 143-188 2-37 (39)
136 PHA02819 hypothetical protein; 54.8 19 0.00041 27.6 3.6 7 57-63 46-52 (71)
137 KOG4718 Non-SMC (structural ma 54.4 6.7 0.00015 36.4 1.3 45 141-188 182-226 (235)
138 PF13260 DUF4051: Protein of u 53.7 20 0.00043 25.5 3.3 25 67-91 8-32 (54)
139 PF08114 PMP1_2: ATPase proteo 52.4 11 0.00024 25.9 1.8 12 78-89 27-38 (43)
140 PF10577 UPF0560: Uncharacteri 52.2 32 0.0007 37.9 6.2 28 62-89 273-301 (807)
141 PHA03054 IMV membrane protein; 51.9 18 0.00039 27.7 3.1 7 57-63 48-54 (72)
142 KOG3113 Uncharacterized conser 51.1 12 0.00026 35.7 2.5 50 141-192 112-161 (293)
143 smart00249 PHD PHD zinc finger 50.9 9.8 0.00021 25.1 1.4 31 142-173 1-31 (47)
144 KOG2066 Vacuolar assembly/sort 50.9 5.6 0.00012 43.4 0.3 44 140-185 784-831 (846)
145 PF02891 zf-MIZ: MIZ/SP-RING z 50.6 15 0.00033 26.0 2.4 42 142-187 4-50 (50)
146 KOG2807 RNA polymerase II tran 49.2 13 0.00029 36.6 2.6 46 140-186 330-375 (378)
147 PF10571 UPF0547: Uncharacteri 48.0 11 0.00023 23.3 1.1 23 142-166 2-24 (26)
148 PF06667 PspB: Phage shock pro 47.8 31 0.00066 26.9 3.9 10 81-90 23-32 (75)
149 KOG4367 Predicted Zn-finger pr 47.6 9.3 0.0002 39.1 1.3 32 140-175 4-35 (699)
150 PF05568 ASFV_J13L: African sw 47.3 18 0.00039 31.8 2.8 30 62-91 29-58 (189)
151 PF04277 OAD_gamma: Oxaloaceta 47.3 36 0.00079 25.9 4.3 21 60-80 5-25 (79)
152 PHA02650 hypothetical protein; 46.8 52 0.0011 25.9 4.9 29 55-84 44-72 (81)
153 KOG3005 GIY-YIG type nuclease 46.6 12 0.00026 35.9 1.8 48 141-188 183-242 (276)
154 PF00558 Vpu: Vpu protein; In 45.9 27 0.00059 27.6 3.4 20 62-81 7-26 (81)
155 PF00412 LIM: LIM domain; Int 45.4 12 0.00027 26.3 1.3 39 143-191 1-39 (58)
156 PF08374 Protocadherin: Protoc 45.3 15 0.00033 34.2 2.1 30 56-87 36-65 (221)
157 PF15050 SCIMP: SCIMP protein 44.3 45 0.00098 28.3 4.6 25 56-81 7-31 (133)
158 KOG1815 Predicted E3 ubiquitin 43.8 13 0.00029 38.1 1.8 36 139-177 69-104 (444)
159 PF15102 TMEM154: TMEM154 prot 43.2 6.9 0.00015 34.3 -0.4 6 52-57 52-57 (146)
160 PF14914 LRRC37AB_C: LRRC37A/B 43.1 42 0.0009 29.5 4.4 29 61-89 121-149 (154)
161 PRK14710 hypothetical protein; 42.8 18 0.0004 27.8 1.9 26 55-80 6-31 (86)
162 PF02439 Adeno_E3_CR2: Adenovi 41.9 60 0.0013 22.0 4.0 28 58-86 7-34 (38)
163 PF07010 Endomucin: Endomucin; 41.9 35 0.00075 32.2 3.9 21 58-78 191-211 (259)
164 PF06024 DUF912: Nucleopolyhed 41.7 14 0.0003 30.2 1.2 27 55-81 56-82 (101)
165 PHA02975 hypothetical protein; 41.0 71 0.0015 24.4 4.8 25 55-79 39-63 (69)
166 PF06906 DUF1272: Protein of u 40.7 32 0.0007 25.3 2.8 45 142-191 7-54 (57)
167 PF05454 DAG1: Dystroglycan (D 38.3 10 0.00023 36.9 0.0 25 65-89 151-175 (290)
168 PF13719 zinc_ribbon_5: zinc-r 38.3 16 0.00034 24.2 0.9 13 142-154 4-16 (37)
169 PF14654 Epiglycanin_C: Mucin, 38.2 65 0.0014 26.4 4.5 36 49-84 10-45 (106)
170 KOG1812 Predicted E3 ubiquitin 38.1 13 0.00028 37.6 0.7 44 140-184 306-351 (384)
171 PF00628 PHD: PHD-finger; Int 37.5 16 0.00034 25.3 0.8 43 143-186 2-50 (51)
172 PF15330 SIT: SHP2-interacting 37.4 40 0.00087 27.9 3.3 7 63-69 5-11 (107)
173 PF01299 Lamp: Lysosome-associ 36.6 25 0.00055 34.1 2.4 17 13-29 219-236 (306)
174 PF09835 DUF2062: Uncharacteri 36.6 41 0.00088 29.0 3.5 14 75-88 137-150 (154)
175 PF15330 SIT: SHP2-interacting 36.5 55 0.0012 27.1 4.0 21 63-83 2-22 (107)
176 KOG1766 Enhancer of rudimentar 35.5 3.4 7.3E-05 33.5 -3.2 23 8-30 15-37 (104)
177 PF01034 Syndecan: Syndecan do 35.5 12 0.00026 28.2 -0.1 9 64-72 15-23 (64)
178 TIGR02976 phageshock_pspB phag 34.7 62 0.0013 25.2 3.8 9 81-89 23-31 (75)
179 KOG3039 Uncharacterized conser 34.4 29 0.00062 33.1 2.2 36 138-177 41-76 (303)
180 PF12575 DUF3753: Protein of u 34.1 76 0.0017 24.5 4.1 25 55-79 43-67 (72)
181 KOG3579 Predicted E3 ubiquitin 33.4 22 0.00048 34.5 1.3 38 141-178 269-306 (352)
182 PF02480 Herpes_gE: Alphaherpe 32.8 15 0.00032 37.9 0.0 23 58-80 352-374 (439)
183 PF00558 Vpu: Vpu protein; In 32.0 55 0.0012 25.9 3.1 29 59-87 8-36 (81)
184 PHA02844 putative transmembran 31.4 79 0.0017 24.6 3.8 28 55-83 43-70 (75)
185 PF15145 DUF4577: Domain of un 31.2 1.1E+02 0.0025 25.7 4.9 13 29-41 33-45 (128)
186 PRK09458 pspB phage shock prot 30.6 61 0.0013 25.2 3.1 11 80-90 22-32 (75)
187 PF15179 Myc_target_1: Myc tar 30.6 83 0.0018 28.7 4.4 33 56-88 17-50 (197)
188 PF14927 Neurensin: Neurensin 30.3 80 0.0017 27.5 4.1 8 16-23 10-17 (140)
189 PF04277 OAD_gamma: Oxaloaceta 30.3 1.2E+02 0.0027 22.9 4.9 32 57-88 5-36 (79)
190 PF14979 TMEM52: Transmembrane 29.8 94 0.002 27.4 4.4 6 84-89 45-50 (154)
191 PHA03164 hypothetical protein; 29.7 42 0.00091 26.2 2.0 21 58-78 59-79 (88)
192 PHA03054 IMV membrane protein; 29.6 1.1E+02 0.0025 23.5 4.3 24 55-78 43-66 (72)
193 PHA02819 hypothetical protein; 28.7 1.2E+02 0.0027 23.3 4.4 24 55-78 41-64 (71)
194 KOG2068 MOT2 transcription fac 28.6 41 0.00088 33.3 2.3 47 141-188 250-297 (327)
195 PLN02189 cellulose synthase 27.7 80 0.0017 36.0 4.6 53 140-192 34-90 (1040)
196 PF06716 DUF1201: Protein of u 27.6 1.5E+02 0.0033 21.0 4.3 19 61-79 9-27 (54)
197 TIGR01478 STEVOR variant surfa 27.5 69 0.0015 31.2 3.6 22 68-89 266-287 (295)
198 PF06750 DiS_P_DiS: Bacterial 27.5 2.1E+02 0.0046 22.8 5.9 38 140-190 33-70 (92)
199 PF06305 DUF1049: Protein of u 27.4 1E+02 0.0022 22.5 3.9 8 63-70 24-31 (68)
200 PF13832 zf-HC5HC2H_2: PHD-zin 27.3 50 0.0011 26.7 2.3 34 140-174 55-88 (110)
201 PF04906 Tweety: Tweety; Inte 27.3 80 0.0017 32.1 4.3 20 71-90 32-51 (406)
202 PF01363 FYVE: FYVE zinc finge 27.1 26 0.00056 25.9 0.5 36 139-174 8-43 (69)
203 PF05393 Hum_adeno_E3A: Human 27.0 1.5E+02 0.0033 23.8 4.8 20 61-80 37-56 (94)
204 PF15065 NCU-G1: Lysosomal tra 26.7 46 0.001 33.3 2.3 25 55-79 313-337 (350)
205 PF12877 DUF3827: Domain of un 26.7 60 0.0013 35.0 3.2 34 54-90 266-299 (684)
206 PF03908 Sec20: Sec20; InterP 26.5 72 0.0016 25.2 3.0 14 69-82 77-90 (92)
207 PF11884 DUF3404: Domain of un 26.5 1.1E+02 0.0025 29.4 4.8 29 60-88 231-259 (262)
208 PF13717 zinc_ribbon_4: zinc-r 26.3 33 0.00072 22.6 0.9 13 142-154 4-16 (36)
209 PF04710 Pellino: Pellino; In 26.3 22 0.00048 36.0 0.0 26 158-187 306-337 (416)
210 PTZ00370 STEVOR; Provisional 26.3 75 0.0016 31.0 3.6 17 73-89 267-283 (296)
211 PHA02692 hypothetical protein; 26.0 1.7E+02 0.0037 22.5 4.7 29 55-83 40-68 (70)
212 PRK11677 hypothetical protein; 25.6 61 0.0013 28.0 2.6 22 60-81 3-24 (134)
213 cd00350 rubredoxin_like Rubred 25.5 34 0.00074 21.9 0.8 19 162-186 7-25 (33)
214 TIGR03758 conj_TIGR03758 integ 25.5 1.8E+02 0.0038 22.1 4.7 35 53-87 12-46 (65)
215 PRK04778 septation ring format 25.4 73 0.0016 33.8 3.7 13 63-75 5-17 (569)
216 PF02529 PetG: Cytochrome B6-F 25.4 1.8E+02 0.004 19.5 4.2 25 64-88 6-30 (37)
217 PF06679 DUF1180: Protein of u 25.3 99 0.0021 27.6 3.9 22 59-80 96-117 (163)
218 COG3105 Uncharacterized protei 25.0 82 0.0018 27.2 3.2 28 56-83 4-31 (138)
219 PF14311 DUF4379: Domain of un 24.9 46 0.00099 23.7 1.4 23 161-184 33-55 (55)
220 PRK09174 F0F1 ATP synthase sub 24.8 1.3E+02 0.0027 27.8 4.7 10 59-68 55-64 (204)
221 PRK00665 petG cytochrome b6-f 24.8 1.4E+02 0.0031 20.0 3.5 25 64-88 6-30 (37)
222 PF06844 DUF1244: Protein of u 24.6 45 0.00098 25.3 1.4 12 165-176 11-22 (68)
223 PF07649 C1_3: C1-like domain; 24.4 51 0.0011 20.5 1.4 29 142-171 2-30 (30)
224 KOG3842 Adaptor protein Pellin 24.2 78 0.0017 31.3 3.3 49 140-189 341-414 (429)
225 TIGR01195 oadG_fam sodium pump 24.0 1.2E+02 0.0027 23.7 3.8 19 60-78 8-26 (82)
226 PF12877 DUF3827: Domain of un 24.0 70 0.0015 34.5 3.1 36 55-92 263-298 (684)
227 cd00065 FYVE FYVE domain; Zinc 23.9 63 0.0014 22.7 2.0 35 141-175 3-37 (57)
228 PF15018 InaF-motif: TRP-inter 23.7 94 0.002 21.1 2.7 24 58-81 8-31 (38)
229 PF14569 zf-UDP: Zinc-binding 23.7 1.4E+02 0.003 23.5 4.0 54 139-192 8-65 (80)
230 PF04216 FdhE: Protein involve 23.7 11 0.00025 36.2 -2.5 45 140-185 172-218 (290)
231 PF07204 Orthoreo_P10: Orthore 23.7 60 0.0013 26.4 2.0 10 17-27 5-14 (98)
232 PRK01844 hypothetical protein; 23.6 1.6E+02 0.0035 22.8 4.2 27 60-86 4-30 (72)
233 PF02009 Rifin_STEVOR: Rifin/s 23.5 99 0.0022 30.3 3.9 30 59-88 253-283 (299)
234 CHL00008 petG cytochrome b6/f 23.3 1.5E+02 0.0033 19.8 3.5 24 64-87 6-29 (37)
235 PRK03814 oxaloacetate decarbox 23.3 1.3E+02 0.0028 23.9 3.8 21 60-80 12-32 (85)
236 PF04423 Rad50_zn_hook: Rad50 23.2 29 0.00064 24.7 0.2 11 180-190 22-32 (54)
237 PF11980 DUF3481: Domain of un 23.2 78 0.0017 25.2 2.5 33 57-89 12-44 (87)
238 PHA03099 epidermal growth fact 23.1 67 0.0015 27.7 2.3 10 20-29 52-61 (139)
239 PRK13718 conjugal transfer pro 22.7 1.7E+02 0.0037 23.0 4.3 8 61-68 44-51 (84)
240 KOG3799 Rab3 effector RIM1 and 22.6 24 0.00052 30.6 -0.4 51 136-187 61-116 (169)
241 PF01307 Plant_vir_prot: Plant 22.5 97 0.0021 25.5 3.1 8 178-185 97-104 (104)
242 PF10083 DUF2321: Uncharacteri 22.5 42 0.00091 29.7 1.0 44 144-190 8-51 (158)
243 PHA03286 envelope glycoprotein 22.2 1.2E+02 0.0026 31.5 4.3 34 56-89 387-420 (492)
244 PRK13453 F0F1 ATP synthase sub 22.0 1.3E+02 0.0028 26.7 4.1 34 56-89 17-51 (173)
245 PF11157 DUF2937: Protein of u 21.8 1.6E+02 0.0034 26.3 4.6 32 57-88 133-164 (167)
246 PF15048 OSTbeta: Organic solu 21.8 1.1E+02 0.0025 26.1 3.4 17 53-69 33-49 (125)
247 PF10883 DUF2681: Protein of u 21.6 1.3E+02 0.0028 24.1 3.5 14 67-80 9-22 (87)
248 PF04710 Pellino: Pellino; In 21.5 31 0.00067 35.0 0.0 49 140-189 328-401 (416)
249 PF04639 Baculo_E56: Baculovir 21.4 37 0.0008 33.0 0.5 31 54-84 270-300 (305)
250 PRK09702 PTS system arbutin-sp 21.4 1.3E+02 0.0029 26.7 4.0 26 58-83 8-33 (161)
251 PF08119 Toxin_31: Scorpion ac 21.3 60 0.0013 21.1 1.3 19 17-35 4-22 (37)
252 PF14991 MLANA: Protein melan- 21.3 17 0.00037 30.5 -1.6 8 83-90 45-52 (118)
253 KOG2113 Predicted RNA binding 21.2 66 0.0014 31.8 2.1 47 136-188 339-386 (394)
254 PF11669 WBP-1: WW domain-bind 21.2 1.7E+02 0.0036 24.0 4.2 37 57-93 22-58 (102)
255 PF05283 MGC-24: Multi-glycosy 21.1 89 0.0019 28.5 2.9 23 63-85 163-185 (186)
256 PF07010 Endomucin: Endomucin; 21.0 1.6E+02 0.0034 27.9 4.4 27 57-83 186-213 (259)
257 PLN02436 cellulose synthase A 20.8 1.3E+02 0.0028 34.5 4.6 53 140-192 36-92 (1094)
258 PF07423 DUF1510: Protein of u 20.6 79 0.0017 29.6 2.5 21 60-80 15-35 (217)
259 KOG2979 Protein involved in DN 20.5 64 0.0014 30.9 1.9 41 141-184 177-219 (262)
260 KOG4577 Transcription factor L 20.4 31 0.00068 33.6 -0.2 39 140-188 92-130 (383)
261 PF11660 DUF3262: Protein of u 20.3 2.4E+02 0.0051 21.8 4.7 36 53-88 13-48 (76)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.78 E-value=4e-19 Score=172.57 Aligned_cols=80 Identities=34% Similarity=0.820 Sum_probs=68.7
Q ss_pred CCCCCCHHHHhhcceeEeecCCCCcCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcC-CCCcccccccccCC
Q 036833 114 NNVGLDEALIKSITVCKYKKGDGLVEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSH-SSCPLCRATIISFP 192 (352)
Q Consensus 114 ~~~gl~~~~i~~lp~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~i~~~~ 192 (352)
+..++.+..++++|+.+|...+.......|+|||++|..|+++|+|| |+|.||..||++||..+ ..||+|++++....
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 34467889999999999998876655579999999999999999999 99999999999999776 55999999887654
Q ss_pred Cc
Q 036833 193 AA 194 (352)
Q Consensus 193 ~~ 194 (352)
..
T Consensus 282 ~~ 283 (348)
T KOG4628|consen 282 GS 283 (348)
T ss_pred CC
Confidence 43
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=99.43 E-value=4.2e-14 Score=98.49 Aligned_cols=44 Identities=50% Similarity=1.272 Sum_probs=40.1
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
++|+||+++|..++.+..++ |+|+||..||..|++.+.+||+||
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 47999999999888899998 999999999999999999999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.1e-12 Score=124.06 Aligned_cols=50 Identities=44% Similarity=1.216 Sum_probs=45.3
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc-CCCCccccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i~~ 190 (352)
+.+|+|||++|-.++++++|| |.|.||..|+++|+.. ...||+||.++++
T Consensus 323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 478999999999999999999 9999999999999974 5579999998854
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.17 E-value=2.1e-11 Score=114.02 Aligned_cols=75 Identities=27% Similarity=0.686 Sum_probs=57.1
Q ss_pred CCCCCHHHHhhcceeEeecCC--CCcCCCCCcccccccccCcc----eeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 115 NVGLDEALIKSITVCKYKKGD--GLVEGSDCSVCLSEFQEHES----LRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 115 ~~gl~~~~i~~lp~~~~~~~~--~~~~~~~C~ICl~~~~~~~~----~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
..+..+..++.+|.+..+-.. ......+|+||++.+...+. +.+++.|+|.||..||..|+..+.+||+||..+
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 355688899999988755322 22345789999999876431 234445999999999999999999999999987
Q ss_pred c
Q 036833 189 I 189 (352)
Q Consensus 189 ~ 189 (352)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
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=99.16 E-value=1.7e-11 Score=94.80 Aligned_cols=45 Identities=38% Similarity=1.073 Sum_probs=35.2
Q ss_pred CCCCcccccccccC----------cceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 140 GSDCSVCLSEFQEH----------ESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 140 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
.+.|+||++.|... -.+.+.+ |+|.||..||..||+.+.+||+||
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 44699999999332 2334444 999999999999999999999998
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=1.2e-10 Score=113.01 Aligned_cols=67 Identities=28% Similarity=0.769 Sum_probs=49.6
Q ss_pred HHHHhhcceeEeecCCCCcCCCCCcccccc-cccC---------cceeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 120 EALIKSITVCKYKKGDGLVEGSDCSVCLSE-FQEH---------ESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 120 ~~~i~~lp~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
+++-+.+++.+.++. ..++..|.||+++ |..+ .+.+.|| |||+||.+|+..|+.++++||+||.++.
T Consensus 269 kdl~~~~~t~t~eql--~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 269 KDLNAMYPTATEEQL--TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred hHHHhhcchhhhhhh--cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 344444555544443 2346689999999 4443 2446788 9999999999999999999999999954
No 7
>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=98.84 E-value=1.8e-09 Score=77.07 Aligned_cols=46 Identities=35% Similarity=0.920 Sum_probs=39.3
Q ss_pred CCCCcccccccccCcceeccCCCCCc-ccHhHHHHHHhcCCCCcccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
...|.||++.... +.++| |||. |+..|+..|++....||+||++|.
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 3579999998665 77888 9999 999999999999899999999874
No 8
>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=98.79 E-value=4.1e-09 Score=71.71 Aligned_cols=44 Identities=57% Similarity=1.337 Sum_probs=36.4
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhc-CCCCccccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATI 188 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i 188 (352)
+|+||++.+ .+.+.+++ |+|.||..|+..|+.. +..||+||..+
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 23455565 9999999999999987 67899999764
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=6.3e-09 Score=98.44 Aligned_cols=48 Identities=33% Similarity=0.810 Sum_probs=41.8
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
...|.+||+.... ...+| |||+||..||..|...+..||+||....+.
T Consensus 239 ~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 239 TRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 4679999999766 55678 999999999999999888999999987554
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.73 E-value=7.1e-09 Score=81.86 Aligned_cols=51 Identities=31% Similarity=0.815 Sum_probs=38.8
Q ss_pred CCCCccccccccc--------Ccce-eccCCCCCcccHhHHHHHHhc---CCCCccccccccc
Q 036833 140 GSDCSVCLSEFQE--------HESL-RLLPKCNHAFHLPCIDTWLKS---HSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~--------~~~~-~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~i~~ 190 (352)
++.|.||...|.. |+.. .++-.|+|.||.+||.+||.. +..||+||+++..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 5689999999863 2322 223369999999999999975 4679999998753
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.70 E-value=9.1e-09 Score=69.72 Aligned_cols=39 Identities=36% Similarity=1.135 Sum_probs=32.6
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 184 (352)
|+||++.+.. .+.+++ |||.|+..|+..|++.+..||+|
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 8999999876 346676 99999999999999888899998
No 12
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.66 E-value=1.6e-08 Score=91.51 Aligned_cols=49 Identities=29% Similarity=0.847 Sum_probs=39.2
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc----------------CCCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS----------------HSSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~i~~~ 191 (352)
+..+|+||++.++. ..+++ |||.||..||..|+.. ...||+||..+...
T Consensus 17 ~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 17 GDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 35689999999865 35566 9999999999999842 24799999988543
No 13
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=7.1e-09 Score=108.18 Aligned_cols=54 Identities=30% Similarity=0.883 Sum_probs=46.2
Q ss_pred CCCCCcccccccccCcc--eeccCCCCCcccHhHHHHHHhcCCCCcccccccccCCC
Q 036833 139 EGSDCSVCLSEFQEHES--LRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFPA 193 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~--~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 193 (352)
....|+||++.+..+.. ...|| |+|+||..|+..|+++.++||+||..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 35789999999988765 67788 99999999999999999999999996655443
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.61 E-value=1.5e-08 Score=92.93 Aligned_cols=52 Identities=29% Similarity=0.876 Sum_probs=38.9
Q ss_pred CCCCCcccccccccC-----cceeccCCCCCcccHhHHHHHHhcC------CCCccccccccc
Q 036833 139 EGSDCSVCLSEFQEH-----ESLRLLPKCNHAFHLPCIDTWLKSH------SSCPLCRATIIS 190 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~-----~~~~~lp~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~i~~ 190 (352)
...+|+|||+..-.. ...-+|+.|+|.||..||..|...+ .+||+||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 456899999986332 1234566699999999999998643 359999997653
No 15
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.56 E-value=3.6e-08 Score=76.30 Aligned_cols=45 Identities=36% Similarity=0.695 Sum_probs=34.1
Q ss_pred cccccccCcceeccC-CCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 146 CLSEFQEHESLRLLP-KCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 146 Cl~~~~~~~~~~~lp-~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
|...+..++.+.+.. .|+|.||.+||.+||..+..||++|+.+..
T Consensus 37 Cq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 37 CQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred cccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 333334455554433 699999999999999999999999998754
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=3.2e-08 Score=87.75 Aligned_cols=51 Identities=33% Similarity=0.735 Sum_probs=41.8
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
....|+|||+.+... +.+-.+|||+||..||...++....||+||+.|...
T Consensus 130 ~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 346799999998764 334347999999999999999999999999877543
No 17
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=4.8e-08 Score=90.02 Aligned_cols=50 Identities=30% Similarity=0.772 Sum_probs=39.3
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcC---CCCcccccccccCC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSH---SSCPLCRATIISFP 192 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~i~~~~ 192 (352)
...+|.|||+.-++ .+++. |||.||..||.+||..+ +.||+|+..|....
T Consensus 46 ~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 46 GFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 34689999998665 44555 99999999999999653 45999999886543
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.50 E-value=7.5e-08 Score=67.02 Aligned_cols=44 Identities=30% Similarity=0.855 Sum_probs=37.6
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
.|.||++.|......++++ |||+|+..|+..+......||+||+
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 4999999996556677887 9999999999999855678999985
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.46 E-value=9.5e-08 Score=65.06 Aligned_cols=39 Identities=44% Similarity=1.203 Sum_probs=33.1
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHh--cCCCCccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK--SHSSCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~--~~~~CP~C 184 (352)
|+||++.+.... ++++ |+|.|+..|+..|+. ....||+|
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 899999987643 5676 999999999999998 45679998
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.45 E-value=1.4e-07 Score=61.85 Aligned_cols=38 Identities=45% Similarity=1.258 Sum_probs=32.1
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHh-cCCCCccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-SHSSCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~C 184 (352)
|+||++.. ....+++ |+|.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 3477787 999999999999997 56679987
No 21
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.4e-07 Score=76.44 Aligned_cols=52 Identities=33% Similarity=0.734 Sum_probs=38.8
Q ss_pred CCCCCcccccccc------------cCcceeccC-CCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 139 EGSDCSVCLSEFQ------------EHESLRLLP-KCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 139 ~~~~C~ICl~~~~------------~~~~~~~lp-~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
..+.|+||..-+- ..+.+.+.. .|+|.||.+||.+||+.+..||+|.+++.-
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 4567999876541 122333332 599999999999999999999999887753
No 22
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.35 E-value=2.6e-07 Score=63.84 Aligned_cols=38 Identities=39% Similarity=0.985 Sum_probs=28.6
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHhcC----CCCccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSH----SSCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----~~CP~C 184 (352)
|+||++-|.. ...|+ |||.|+..||..|.+.. ..||.|
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 8999999987 55676 99999999999999653 369987
No 23
>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=98.33 E-value=4.3e-07 Score=67.22 Aligned_cols=44 Identities=23% Similarity=0.573 Sum_probs=38.6
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
.|+||++.+... .+++ |||+|+..||..|+..+.+||+|+..+.
T Consensus 3 ~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 3 LCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred CCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 599999998873 4567 9999999999999988889999998774
No 24
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=7.8e-07 Score=89.46 Aligned_cols=51 Identities=29% Similarity=0.888 Sum_probs=39.2
Q ss_pred CCCCCcccccccccCc--------------ceeccCCCCCcccHhHHHHHHhc-CCCCccccccccc
Q 036833 139 EGSDCSVCLSEFQEHE--------------SLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATIIS 190 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~--------------~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i~~ 190 (352)
...+|+||+..+.--. .-.++| |.|+||..|+..|+.. +..||+||.++..
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 3568999999874311 123567 9999999999999985 4489999998853
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=1.5e-07 Score=72.27 Aligned_cols=50 Identities=34% Similarity=0.832 Sum_probs=37.2
Q ss_pred CCCCccccccccc--------Cccee-ccCCCCCcccHhHHHHHHhc---CCCCcccccccc
Q 036833 140 GSDCSVCLSEFQE--------HESLR-LLPKCNHAFHLPCIDTWLKS---HSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~~--------~~~~~-~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~i~ 189 (352)
.+.|-||.-.|.. ++.+- ++-.|.|.||.+||.+|+.. +.-||+||+.+.
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3489999998854 33322 22369999999999999964 345999999874
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.22 E-value=7.5e-07 Score=89.17 Aligned_cols=49 Identities=33% Similarity=0.662 Sum_probs=41.4
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
.....|+||++.|.. ..+++ |+|.||..||..|+.....||+||..+..
T Consensus 24 e~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 345689999999876 34677 99999999999999887889999998754
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=7.6e-07 Score=83.64 Aligned_cols=52 Identities=31% Similarity=0.711 Sum_probs=42.4
Q ss_pred cCCCCCcccccccccCc-------ceeccCCCCCcccHhHHHHHH--hcCCCCccccccccc
Q 036833 138 VEGSDCSVCLSEFQEHE-------SLRLLPKCNHAFHLPCIDTWL--KSHSSCPLCRATIIS 190 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~FH~~Ci~~Wl--~~~~~CP~CR~~i~~ 190 (352)
.+++.|+||-..+.... ++-.|. |+|+||..||..|. ..+++||.|+..+..
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 45678999999886654 556676 99999999999996 557899999887754
No 28
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.08 E-value=7.6e-07 Score=95.04 Aligned_cols=65 Identities=29% Similarity=0.714 Sum_probs=44.5
Q ss_pred hcceeEeecCCCCcCCCCCcccccccccCc-ce--eccCCCCCcccHhHHHHHHhc--CCCCcccccccc
Q 036833 125 SITVCKYKKGDGLVEGSDCSVCLSEFQEHE-SL--RLLPKCNHAFHLPCIDTWLKS--HSSCPLCRATII 189 (352)
Q Consensus 125 ~lp~~~~~~~~~~~~~~~C~ICl~~~~~~~-~~--~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~i~ 189 (352)
.+-.++-+......+..+|+||+..+..-+ .+ ...+.|.|.||..|+.+|++. +.+||+||..+.
T Consensus 1454 ~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1454 LLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred HHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 333444444445556789999999876321 11 112359999999999999965 567999998764
No 29
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.05 E-value=1.8e-06 Score=86.14 Aligned_cols=51 Identities=39% Similarity=0.914 Sum_probs=40.7
Q ss_pred CCcCCCCCcccccccccCcc-eeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 136 GLVEGSDCSVCLSEFQEHES-LRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 136 ~~~~~~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
+..+..+|+|||+.+..... ++... |.|.||..|+..|. ..+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence 45677899999999977543 34444 99999999999994 468999998654
No 30
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=2.1e-06 Score=80.64 Aligned_cols=49 Identities=37% Similarity=0.810 Sum_probs=39.9
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHH-HHhcCCC-CcccccccccCC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDT-WLKSHSS-CPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~-Wl~~~~~-CP~CR~~i~~~~ 192 (352)
+..|+||++.... ...++ |||+||..||.. |-+.+.- ||+||+.+.+..
T Consensus 215 d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 215 DYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 5679999999765 55677 999999999999 9766554 999999876543
No 31
>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=97.94 E-value=6.1e-06 Score=58.92 Aligned_cols=42 Identities=24% Similarity=0.862 Sum_probs=32.2
Q ss_pred CCcccccccccCcceeccCCCC-----CcccHhHHHHHHhc--CCCCcccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCN-----HAFHLPCIDTWLKS--HSSCPLCR 185 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR 185 (352)
.|.||++. ..++...+.| |. |.+|..|+..|+.. +.+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 3344455788 75 89999999999954 45799994
No 32
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=5e-06 Score=81.16 Aligned_cols=48 Identities=33% Similarity=0.835 Sum_probs=42.0
Q ss_pred CCCCcccccccccCcceeccCCCCCc-ccHhHHHHHHhcCCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
..+|+|||.+.++ +.+|| |.|. .|..|.+..--.+..||+||+++.+.
T Consensus 290 gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 290 GKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred CCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 5689999999877 78999 9999 99999999876678899999998653
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.76 E-value=9.8e-06 Score=78.48 Aligned_cols=48 Identities=29% Similarity=0.705 Sum_probs=42.2
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
.-.|-||.+-|.. ..++| |+|.||.-||...|..+..||.|+..+.+.
T Consensus 23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 3479999999987 55778 999999999999999999999999987654
No 34
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.9e-05 Score=80.30 Aligned_cols=48 Identities=33% Similarity=0.689 Sum_probs=37.3
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc-----CCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-----HSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~i~~~ 191 (352)
...|+|||+..... ..+ .|||+||..||-.++.. ...||+||..|...
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 56799999986552 222 49999999999998743 34699999988763
No 35
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.72 E-value=2.3e-05 Score=54.45 Aligned_cols=33 Identities=33% Similarity=0.830 Sum_probs=21.3
Q ss_pred CcccccccccCc-ceeccCCCCCcccHhHHHHHHhc
Q 036833 143 CSVCLSEFQEHE-SLRLLPKCNHAFHLPCIDTWLKS 177 (352)
Q Consensus 143 C~ICl~~~~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~ 177 (352)
|+||++ |...+ ...+|+ |||+|+.+|++.|+..
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhc
Confidence 899999 75544 457798 9999999999999974
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.71 E-value=1.6e-05 Score=75.65 Aligned_cols=48 Identities=25% Similarity=0.539 Sum_probs=40.0
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
....|-||-.-|.. ..+++ |||.||.-||...|..+..||+||.+.-+
T Consensus 24 s~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 34579999988875 23455 99999999999999999999999987644
No 37
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.68 E-value=3.6e-05 Score=74.59 Aligned_cols=54 Identities=20% Similarity=0.508 Sum_probs=39.3
Q ss_pred CCCCccccccc-ccCc-ceeccCCCCCcccHhHHHHHH-hcCCCCcccccccccCCCc
Q 036833 140 GSDCSVCLSEF-QEHE-SLRLLPKCNHAFHLPCIDTWL-KSHSSCPLCRATIISFPAA 194 (352)
Q Consensus 140 ~~~C~ICl~~~-~~~~-~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~i~~~~~~ 194 (352)
...|++|+..- -... ++.+.+ |||.||..|++..+ .....||.|+..+......
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 45799999963 2222 233334 99999999999966 4455799999988776544
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.1e-05 Score=73.02 Aligned_cols=43 Identities=42% Similarity=0.949 Sum_probs=37.9
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
+...|+||++.|... .++| |+|.||..|+..++.....||.||
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 456899999999986 7788 999999999999987556799999
No 39
>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=97.61 E-value=3.6e-05 Score=59.30 Aligned_cols=47 Identities=19% Similarity=0.465 Sum_probs=36.1
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc-CCCCccccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i~~ 190 (352)
...|+||.+-|.+ ..++| +||.|...||..|+.. +.+||+|+.++..
T Consensus 4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 3479999999987 55677 9999999999999987 8899999988765
No 40
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.55 E-value=1.9e-05 Score=60.48 Aligned_cols=50 Identities=32% Similarity=0.778 Sum_probs=23.7
Q ss_pred CCCcccccccc-cCcce-ecc--CCCCCcccHhHHHHHHhc---CC--------CCccccccccc
Q 036833 141 SDCSVCLSEFQ-EHESL-RLL--PKCNHAFHLPCIDTWLKS---HS--------SCPLCRATIIS 190 (352)
Q Consensus 141 ~~C~ICl~~~~-~~~~~-~~l--p~C~H~FH~~Ci~~Wl~~---~~--------~CP~CR~~i~~ 190 (352)
.+|.||++.+. .++.. .+- +.|++.||..|+..||.. .. .||.|+++|..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 47999999876 33221 222 269999999999999953 11 39999998753
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.51 E-value=4.2e-05 Score=73.11 Aligned_cols=52 Identities=27% Similarity=0.767 Sum_probs=43.1
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHh-----------------------cCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-----------------------SHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----------------------~~~~CP~CR~~i~~~~ 192 (352)
...|+|||.-|..++...+++ |.|.||..|+.++|. ....||+||..|....
T Consensus 115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 457999999999999888888 999999999988763 1135999999886543
No 42
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=4.5e-05 Score=75.11 Aligned_cols=45 Identities=27% Similarity=0.938 Sum_probs=32.7
Q ss_pred CCCcccccccccC-cceeccCCCCCcccHhHHHHHHhc---CCCCccccc
Q 036833 141 SDCSVCLSEFQEH-ESLRLLPKCNHAFHLPCIDTWLKS---HSSCPLCRA 186 (352)
Q Consensus 141 ~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~ 186 (352)
..|.|| .++.+. ..+.-...|||+||..|+..|+.. +..||+|+-
T Consensus 5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 469999 555443 333333249999999999999964 357999993
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=3.7e-05 Score=55.63 Aligned_cols=46 Identities=30% Similarity=0.704 Sum_probs=35.3
Q ss_pred CCCCcccccccccCcceeccCCCCCc-ccHhHHHHHHh-cCCCCcccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLK-SHSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~-~~~~CP~CR~~i~ 189 (352)
.++|.||++...+ -.+-. |||. .+..|-...++ .+-.||+||++|.
T Consensus 7 ~dECTICye~pvd---sVlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch---HHHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3789999998544 22333 9999 89999776665 6788999999875
No 44
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=2.7e-05 Score=76.16 Aligned_cols=43 Identities=35% Similarity=0.725 Sum_probs=32.5
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
...|.||+++..+ ...+| |||+-+ |..-- +....||+||+.|.
T Consensus 305 p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3579999999876 77888 999965 65554 22345999999874
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=2.4e-05 Score=76.23 Aligned_cols=50 Identities=30% Similarity=0.645 Sum_probs=41.3
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHh-cCCCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-SHSSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~i~~~ 191 (352)
.+..|+|||+-++. .+..++|.|-||.+||..-++ .++.||.||+.+...
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 45679999999876 555668999999999999995 478899999987543
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.32 E-value=5.5e-05 Score=79.96 Aligned_cols=50 Identities=20% Similarity=0.511 Sum_probs=40.9
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
..|++|+..+.++....-.+ |+|.||..||..|-+.-.+||+||..+...
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 46999999887765444444 999999999999999999999999876543
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=0.00014 Score=71.78 Aligned_cols=52 Identities=35% Similarity=0.931 Sum_probs=39.6
Q ss_pred CCCCcccccccccCc----ceeccCCCCCcccHhHHHHHH--hc-----CCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHE----SLRLLPKCNHAFHLPCIDTWL--KS-----HSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl--~~-----~~~CP~CR~~i~~~ 191 (352)
...|.||++..-... ...+||.|.|.||..||..|- .+ .+.||.||....-.
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 568999999875532 134567899999999999997 33 36799999876543
No 48
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.06 E-value=0.00013 Score=54.78 Aligned_cols=46 Identities=30% Similarity=0.696 Sum_probs=23.1
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
-.|++|.+-++.. ..+..|.|+|+..||..-+. .-||+|+.+....
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 4699999998763 33446999999999988554 3599998876443
No 49
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.00039 Score=66.68 Aligned_cols=52 Identities=27% Similarity=0.462 Sum_probs=40.1
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc-CCCCcccccccccCCCcC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATIISFPAAQ 195 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~ 195 (352)
..+|+||+....- ...|+ |+|.||..||..-.+. ..+|++||.+|...-..+
T Consensus 7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~ 59 (324)
T KOG0824|consen 7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFE 59 (324)
T ss_pred CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcc
Confidence 4589999988544 35566 9999999999987755 456999999987654433
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00054 Score=68.12 Aligned_cols=48 Identities=31% Similarity=0.891 Sum_probs=36.1
Q ss_pred CCCCcccccccccC-cceeccCCCCCcccHhHHHHHHhc--CCCCcccccc
Q 036833 140 GSDCSVCLSEFQEH-ESLRLLPKCNHAFHLPCIDTWLKS--HSSCPLCRAT 187 (352)
Q Consensus 140 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~ 187 (352)
..+|+|||+.+... +.....+.|+|.|-.+||+.||.+ ...||.|...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 56899999998653 333333469999999999999942 3359999653
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00046 Score=73.33 Aligned_cols=46 Identities=30% Similarity=0.750 Sum_probs=36.8
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHh-cCCCCccccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-SHSSCPLCRATIIS 190 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~i~~ 190 (352)
-.|++|-..+++ +.+. +|+|+||..|+..-+. ++..||.|-+.+-.
T Consensus 644 LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 569999977665 4444 5999999999999994 56789999887643
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.78 E-value=0.00054 Score=67.92 Aligned_cols=46 Identities=28% Similarity=0.839 Sum_probs=38.4
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhc--CCCCcccccccccC
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS--HSSCPLCRATIISF 191 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~i~~~ 191 (352)
.|-||-++= ..+++-| |||..|..|+..|-.. .++||.||..|.-.
T Consensus 371 LCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 499998874 3488898 9999999999999633 57899999998653
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0017 Score=65.32 Aligned_cols=50 Identities=32% Similarity=0.817 Sum_probs=41.9
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
..+.+|.||+..+.. ...+| |||.|+..||++-+....-||.||..+.+.
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVEL 131 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCcccccccccc
Confidence 456789999888766 45667 999999999999887777899999999864
No 54
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.34 E-value=0.0012 Score=56.59 Aligned_cols=35 Identities=14% Similarity=0.567 Sum_probs=29.7
Q ss_pred CCCCcccccccccCcceeccCCCC------CcccHhHHHHHH
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCN------HAFHLPCIDTWL 175 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~------H~FH~~Ci~~Wl 175 (352)
..+|+||++.+...++++.++ |+ |.||.+|+.+|-
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 458999999998866677776 66 889999999994
No 55
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.20 E-value=0.0027 Score=71.15 Aligned_cols=66 Identities=26% Similarity=0.553 Sum_probs=45.3
Q ss_pred hcceeEeecCCCC-cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcC----------CCCcccccccccC
Q 036833 125 SITVCKYKKGDGL-VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSH----------SSCPLCRATIISF 191 (352)
Q Consensus 125 ~lp~~~~~~~~~~-~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~i~~~ 191 (352)
.||-...++.+.. ..++.|.||+.+--.....+.|. |+|+||.+|...-|.+. ..||+|..+|...
T Consensus 3470 CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred cccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 3444444433322 23567999998866556677786 99999999998766432 2599999987543
No 56
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0039 Score=57.71 Aligned_cols=50 Identities=26% Similarity=0.716 Sum_probs=42.2
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc--------CCCCcccccccccC
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS--------HSSCPLCRATIISF 191 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~i~~~ 191 (352)
...|..|-..+..++.+|+. |-|+||..|++.|-.. ...||.|-.+|++.
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 45699999999999988875 9999999999999642 23599999998864
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.07 E-value=0.0045 Score=61.45 Aligned_cols=45 Identities=40% Similarity=0.900 Sum_probs=36.4
Q ss_pred CCCcccccccccC-cceeccCCCCCcccHhHHHHHHhcC--CCCccccc
Q 036833 141 SDCSVCLSEFQEH-ESLRLLPKCNHAFHLPCIDTWLKSH--SSCPLCRA 186 (352)
Q Consensus 141 ~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~--~~CP~CR~ 186 (352)
--|..|-+.+... +.+--|| |.|+||..|+...|.++ .+||.||+
T Consensus 366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3599998887543 4567798 99999999999999654 47999984
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0023 Score=56.35 Aligned_cols=30 Identities=23% Similarity=0.748 Sum_probs=27.1
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccH
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHL 168 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~ 168 (352)
.+..+|+|||+++..++.+..|| |-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 34578999999999999999999 9999996
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=95.90 E-value=0.0041 Score=62.77 Aligned_cols=51 Identities=27% Similarity=0.659 Sum_probs=41.3
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
.+...|++|...+.+.-.. + .|||.|+..|+..|+..+..||.|+..+...
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchh
Confidence 3456899999998774321 3 4999999999999998899999998877543
No 60
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.62 E-value=0.0023 Score=61.19 Aligned_cols=43 Identities=26% Similarity=0.696 Sum_probs=34.3
Q ss_pred CCCCcccccccccCcceeccCCCCCc-ccHhHHHHHHhcCCCCccccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
...|+||++...+ +.+|+ |||. -|..|-... ..||+||+.|..
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHHH
Confidence 3569999998665 88998 9998 788886653 379999997753
No 61
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.49 E-value=0.0079 Score=44.26 Aligned_cols=41 Identities=24% Similarity=0.678 Sum_probs=27.0
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc--CCCCcc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS--HSSCPL 183 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~ 183 (352)
...|+|.+..|++. ++-. +|+|+|-...|..|++. ...||+
T Consensus 11 ~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 46799999999864 4444 49999999999999943 345998
No 62
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.05 Score=53.08 Aligned_cols=46 Identities=26% Similarity=0.533 Sum_probs=35.9
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRAT 187 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 187 (352)
....|+||+.....+-. +. .-|-+||..||-..+..+..||+=-.+
T Consensus 299 ~~~~CpvClk~r~Nptv--l~-vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTV--LE-VSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCCCce--EE-ecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 34679999998776432 22 379999999999999999999986443
No 63
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.16 E-value=0.012 Score=41.52 Aligned_cols=41 Identities=29% Similarity=0.955 Sum_probs=26.3
Q ss_pred CcccccccccCcceeccC-CCCC---cccHhHHHHHHh--cCCCCccc
Q 036833 143 CSVCLSEFQEHESLRLLP-KCNH---AFHLPCIDTWLK--SHSSCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~--~~~~CP~C 184 (352)
|-||++.-.... ..+.| .|.- ..|..|+..|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999876655 33456 3443 689999999995 45679987
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.14 E-value=0.015 Score=41.28 Aligned_cols=45 Identities=27% Similarity=0.678 Sum_probs=22.7
Q ss_pred CcccccccccCcceeccC-CCCCcccHhHHHHHHh-cCCCCccccccc
Q 036833 143 CSVCLSEFQEHESLRLLP-KCNHAFHLPCIDTWLK-SHSSCPLCRATI 188 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp-~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~i 188 (352)
|++|.+++...+ ..++| .|++..+..|...-+. .+..||-||.+.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984433 34556 6889999999888875 467899999864
No 65
>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=95.01 E-value=0.0083 Score=48.60 Aligned_cols=32 Identities=34% Similarity=0.862 Sum_probs=26.4
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHH
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCID 172 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~ 172 (352)
+...|++|-..+.. ....+.| |||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 35679999999977 4466778 99999999975
No 66
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.66 E-value=0.018 Score=52.51 Aligned_cols=44 Identities=18% Similarity=0.539 Sum_probs=37.0
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
..|.||-.+|+. .+++ .|||.||..|...-++....|-+|.+..
T Consensus 197 F~C~iCKkdy~s---pvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---PVVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---hhhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 479999999987 3445 4999999999999888888999997654
No 67
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.62 E-value=0.0091 Score=58.15 Aligned_cols=49 Identities=24% Similarity=0.599 Sum_probs=39.4
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
...+|.+|-.-|.+.. .+. .|-|.||..||...|.....||.|...|-.
T Consensus 14 ~~itC~LC~GYliDAT--TI~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDAT--TIT-ECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecch--hHH-HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 4568999988876532 233 499999999999999989999999876643
No 68
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.038 Score=52.71 Aligned_cols=48 Identities=25% Similarity=0.490 Sum_probs=36.6
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc--CCCCcccccccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS--HSSCPLCRATII 189 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~i~ 189 (352)
...+|++|-+..... ....+ |+|+||.-||..-+.. ..+||.|-.+..
T Consensus 238 ~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 457899998875543 33454 9999999999998754 368999977664
No 69
>PHA02862 5L protein; Provisional
Probab=94.07 E-value=0.04 Score=47.84 Aligned_cols=46 Identities=22% Similarity=0.593 Sum_probs=34.0
Q ss_pred CCCcccccccccCcceeccCCCC-----CcccHhHHHHHHhc--CCCCcccccccccC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCN-----HAFHLPCIDTWLKS--HSSCPLCRATIISF 191 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR~~i~~~ 191 (352)
+.|-||+++-.+. .-| |. ..-|..|+..|++. +..|++|+.+....
T Consensus 3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 5799999984332 345 44 45899999999954 45799999987543
No 70
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.94 E-value=0.043 Score=51.62 Aligned_cols=54 Identities=11% Similarity=0.232 Sum_probs=46.9
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCCCc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFPAA 194 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~~~ 194 (352)
..|+||.+.+.....+.+|..|||+|+.+|....+.....||+|-.++.+.+..
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 459999999998888877777999999999999999889999998888765543
No 71
>PHA03096 p28-like protein; Provisional
Probab=93.93 E-value=0.03 Score=54.16 Aligned_cols=36 Identities=25% Similarity=0.733 Sum_probs=28.6
Q ss_pred CCCcccccccccCc----ceeccCCCCCcccHhHHHHHHh
Q 036833 141 SDCSVCLSEFQEHE----SLRLLPKCNHAFHLPCIDTWLK 176 (352)
Q Consensus 141 ~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~Ci~~Wl~ 176 (352)
-.|.||++...... .--+|+.|.|.|+..||..|-.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 47999999876432 2346788999999999999974
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.84 E-value=0.028 Score=60.66 Aligned_cols=49 Identities=29% Similarity=0.790 Sum_probs=36.7
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc-C------CCCccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-H------SSCPLCRATI 188 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~------~~CP~CR~~i 188 (352)
..+|.||++.+...+.+---..|-|+||..||..|-.. . -.||.|....
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 46899999999876655332248899999999999853 1 1499998443
No 73
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.68 E-value=0.068 Score=47.20 Aligned_cols=49 Identities=20% Similarity=0.611 Sum_probs=35.5
Q ss_pred CCCCCcccccccccCcceeccC-CCCC---cccHhHHHHHHhc--CCCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLP-KCNH---AFHLPCIDTWLKS--HSSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp-~C~H---~FH~~Ci~~Wl~~--~~~CP~CR~~i~~~ 191 (352)
.+..|-||.++-.. . ..| .|.. ..|..|+..|+.. ...|++|+++....
T Consensus 7 ~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 45689999988532 2 245 3555 4699999999954 55799999987654
No 74
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.43 E-value=0.048 Score=52.58 Aligned_cols=48 Identities=31% Similarity=0.702 Sum_probs=35.7
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHH-hcCCCCccc-ccccccC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWL-KSHSSCPLC-RATIISF 191 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~C-R~~i~~~ 191 (352)
..|+.|-.-+... ++ +|-|+|.||.+||...| .....||.| |+++...
T Consensus 275 LkCplc~~Llrnp--~k-T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld 324 (427)
T COG5222 275 LKCPLCHCLLRNP--MK-TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD 324 (427)
T ss_pred ccCcchhhhhhCc--cc-CccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence 4699998877663 33 35699999999999887 567789999 4455443
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.30 E-value=0.041 Score=55.15 Aligned_cols=36 Identities=28% Similarity=0.820 Sum_probs=31.3
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHh
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK 176 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~ 176 (352)
...|.||+++..-..-...|| |+|+||..|+..++.
T Consensus 184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence 457999999977657788898 999999999999985
No 76
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=93.24 E-value=0.04 Score=56.78 Aligned_cols=50 Identities=20% Similarity=0.586 Sum_probs=37.4
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHh-----cCCCCcccccccccC
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-----SHSSCPLCRATIISF 191 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~~i~~~ 191 (352)
.+..+|-+|-+.-++ .+... |.|.||..||..++. .+.+||+|...+...
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 345689999887544 44454 999999999988874 256899998776543
No 77
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=0.07 Score=52.57 Aligned_cols=49 Identities=27% Similarity=0.615 Sum_probs=40.7
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
.+++.|+||+-..- ...+.| |+|.-|..||...|.+.+.|=.|++.+..
T Consensus 420 sEd~lCpICyA~pi---~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI---NAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccc---hhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 46778999986633 356778 99999999999999999999999987753
No 78
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.20 E-value=0.071 Score=52.40 Aligned_cols=50 Identities=26% Similarity=0.594 Sum_probs=38.5
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHH--HhcCCCCcccccccccC
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTW--LKSHSSCPLCRATIISF 191 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W--l~~~~~CP~CR~~i~~~ 191 (352)
.+...|.||-+.+.- ..++| |+|..|.-|--.. |...+.||+||+.+...
T Consensus 59 Een~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 59 EENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred cccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence 345579999887654 56788 9999998897654 55678899999987554
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.95 E-value=0.031 Score=52.40 Aligned_cols=49 Identities=27% Similarity=0.665 Sum_probs=34.7
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCCCc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFPAA 194 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~~~ 194 (352)
-|..|.---. ++...++- |.|+||..|...-.. ..||+|+..+......
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~ 53 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKASSP--DVCPLCKKSIRIIQLN 53 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccCCc--cccccccceeeeeecc
Confidence 3776655444 66677775 999999999776322 2899999987655433
No 80
>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=92.78 E-value=0.076 Score=36.79 Aligned_cols=41 Identities=24% Similarity=0.670 Sum_probs=23.5
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHhcCC--CCccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHS--SCPLC 184 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CP~C 184 (352)
|.+|-+-.-.|....-. .|+=.+|..|+..++.... .||.|
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 67787776666555333 4888999999999997654 79988
No 81
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.26 E-value=0.017 Score=57.47 Aligned_cols=52 Identities=19% Similarity=0.559 Sum_probs=44.0
Q ss_pred CCCCcccccccccC-cceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQEH-ESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~ 192 (352)
...|+||...++.. +++..+- |||.+|..|+..||.....||.||+.+....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 35799999999876 6676675 9999999999999988778999999886543
No 82
>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=92.26 E-value=0.15 Score=40.79 Aligned_cols=56 Identities=21% Similarity=0.183 Sum_probs=40.5
Q ss_pred eeecCCCceeecCCCCCCCCCCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036833 27 SIYCPQGCYTIFPPPPPFNLEDEDDDSGTDFSPLIIAVIGILASAFILVTYYTIISKYC 85 (352)
Q Consensus 27 ~~~~p~~~~~~f~pppp~~l~~~~~~s~~~f~~lii~iigil~~~~llv~~~~i~~~~~ 85 (352)
.++++...|.|++|..|.. ...++...|+.+..++|.+++++.++.+.|.++.|-|
T Consensus 7 ~~~~~~~~~~y~~P~~p~~---~p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDl 62 (91)
T PF01708_consen 7 QPFPSPQNYSYQTPRVPTA---APSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDL 62 (91)
T ss_pred cCCCCcccccccCCCCCCC---CCCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHH
Confidence 4556666677776665533 3456778899998888888888888888888777643
No 83
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.06 E-value=0.081 Score=38.59 Aligned_cols=43 Identities=23% Similarity=0.499 Sum_probs=31.4
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
.|..|... +.+-.++| |+|+.+..|.+.+ +.+-||.|-+++..
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence 45555444 33456788 9999999998876 55679999888754
No 84
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.01 E-value=0.15 Score=48.59 Aligned_cols=54 Identities=20% Similarity=0.389 Sum_probs=41.6
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCCC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFPA 193 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 193 (352)
....|+|...+|........|..|||+|-..++..- .....||+|-.++...+.
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDI 165 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCE
Confidence 446799999999665555555559999999999997 335579999888875543
No 85
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.89 E-value=0.063 Score=51.73 Aligned_cols=44 Identities=23% Similarity=0.473 Sum_probs=36.7
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
..|-||...|... ++. +|+|.||..|...-++....|++|-+.+
T Consensus 242 f~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc---hhh-cCCceeehhhhccccccCCcceeccccc
Confidence 4599999999873 334 5999999999999888888999997654
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.65 E-value=0.075 Score=57.53 Aligned_cols=40 Identities=28% Similarity=0.743 Sum_probs=30.9
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
..|..|-..+..+- ... .|+|.||.+|+. .....||-|+.
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 57999988876642 333 399999999998 34557999987
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.68 E-value=0.25 Score=44.47 Aligned_cols=30 Identities=33% Similarity=1.010 Sum_probs=24.1
Q ss_pred CCCCcccHhHHHHHHhc----CC-------CCccccccccc
Q 036833 161 KCNHAFHLPCIDTWLKS----HS-------SCPLCRATIIS 190 (352)
Q Consensus 161 ~C~H~FH~~Ci~~Wl~~----~~-------~CP~CR~~i~~ 190 (352)
.||.-||.-|+..||+. .+ .||.|-.++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 49999999999999963 11 49999887753
No 88
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.68 E-value=0.21 Score=48.07 Aligned_cols=47 Identities=28% Similarity=0.793 Sum_probs=38.1
Q ss_pred CCCcccccccccCcc---eeccCCCCCcccHhHHHHHHhc-CCCCccccccc
Q 036833 141 SDCSVCLSEFQEHES---LRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~---~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i 188 (352)
..|-||-++|...+. .++|. |||.|+..|+...+.. ...||.||...
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 579999999988743 35664 9999999999988754 45699999986
No 89
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=88.44 E-value=0.29 Score=47.18 Aligned_cols=44 Identities=23% Similarity=0.647 Sum_probs=36.6
Q ss_pred CCcccccccccCcc-eeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 142 DCSVCLSEFQEHES-LRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 142 ~C~ICl~~~~~~~~-~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
.|+||.+.+-.... +..++ |||..|..|+......+.+||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 49999998765543 55676 9999999999999877799999987
No 90
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=88.05 E-value=0.31 Score=47.92 Aligned_cols=59 Identities=15% Similarity=0.332 Sum_probs=39.7
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHh-cCCCCcccccccccCCCcCCC
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK-SHSSCPLCRATIISFPAAQAS 197 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~i~~~~~~~~~ 197 (352)
+.+-|+.|++++...++-..--.||...|.-|....-+ -+-.||-||+...+.+.....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~ 72 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVT 72 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEe
Confidence 45569999999988775433114887766666554432 245799999988877665443
No 91
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.55 E-value=0.59 Score=34.06 Aligned_cols=34 Identities=26% Similarity=0.842 Sum_probs=29.3
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHH
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDT 173 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~ 173 (352)
...|.+|-+.|..++.+.+-|.|+-.+|..|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4579999999997777888888999999999654
No 92
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.37 E-value=0.26 Score=53.78 Aligned_cols=35 Identities=23% Similarity=0.629 Sum_probs=28.3
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHH
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWL 175 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl 175 (352)
.++.|.+|...+... .-.+.| |||.||.+|+..-.
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 457899999887654 456777 99999999998765
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.22 E-value=0.24 Score=45.82 Aligned_cols=39 Identities=31% Similarity=0.763 Sum_probs=30.2
Q ss_pred CcccccccccCcceeccCCCCCc-ccHhHHHHHHhcCCCCcccccccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
|-.|-+. +..+.++| |.|. +|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 8888766 44588999 9998 89999665 246999987654
No 94
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.20 E-value=0.35 Score=51.96 Aligned_cols=23 Identities=30% Similarity=0.933 Sum_probs=20.9
Q ss_pred CCCCcccHhHHHHHHhcCCCCcc
Q 036833 161 KCNHAFHLPCIDTWLKSHSSCPL 183 (352)
Q Consensus 161 ~C~H~FH~~Ci~~Wl~~~~~CP~ 183 (352)
.|+|+.|..|...|+.....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 39999999999999999889984
No 95
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=87.05 E-value=1.4 Score=45.46 Aligned_cols=13 Identities=15% Similarity=0.258 Sum_probs=9.0
Q ss_pred cHhHHHHHHhcCC
Q 036833 167 HLPCIDTWLKSHS 179 (352)
Q Consensus 167 H~~Ci~~Wl~~~~ 179 (352)
+..|+..||+.|.
T Consensus 291 ~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 291 PKGSLCDYLKANT 303 (534)
T ss_pred cCCcHHHHHHhcc
Confidence 3567888887654
No 96
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=86.55 E-value=0.29 Score=52.84 Aligned_cols=49 Identities=24% Similarity=0.673 Sum_probs=38.0
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhc--CCCCcccccccccCCCc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS--HSSCPLCRATIISFPAA 194 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~i~~~~~~ 194 (352)
..|.||++ .+.+.+.+ |+|.|+..|+..-+.. ...||+||..+.+...-
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 68999999 33466666 9999999999988743 33599999988766544
No 97
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=86.45 E-value=0.78 Score=40.58 Aligned_cols=36 Identities=22% Similarity=0.570 Sum_probs=23.4
Q ss_pred CCCCcccccccccCc---------ceeccCCCCCc-ccHhHHHHHHh
Q 036833 140 GSDCSVCLSEFQEHE---------SLRLLPKCNHA-FHLPCIDTWLK 176 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~---------~~~~lp~C~H~-FH~~Ci~~Wl~ 176 (352)
+..|+|||+-..... .+|-.. |+-. -|..|++..-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHHH
Confidence 457999999865532 222222 5544 68899998754
No 98
>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=85.97 E-value=0.8 Score=45.77 Aligned_cols=28 Identities=36% Similarity=1.017 Sum_probs=20.9
Q ss_pred CCCcccHhHHHHHHhcC-------------CCCcccccccc
Q 036833 162 CNHAFHLPCIDTWLKSH-------------SSCPLCRATII 189 (352)
Q Consensus 162 C~H~FH~~Ci~~Wl~~~-------------~~CP~CR~~i~ 189 (352)
|.-.+|.+|+.+|+..+ -.||.||+.+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 44557889999999432 25999999764
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.31 E-value=0.34 Score=51.26 Aligned_cols=44 Identities=23% Similarity=0.512 Sum_probs=32.6
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
.-.|.||+..|-....+-+...|||..|.+|+..... .+|| |.+
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC-CCc
Confidence 3469999999877554433336999999999998754 5798 543
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=84.90 E-value=0.32 Score=55.02 Aligned_cols=46 Identities=26% Similarity=0.700 Sum_probs=37.2
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
..|.||++.+..-..+ . .|+|.++..|+..|+..+..||+|.....
T Consensus 1154 ~~c~ic~dil~~~~~I-~--~cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGI-A--GCGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred cchHHHHHHHHhcCCe-e--eechhHhhhHHHHHHHHhccCcchhhhhh
Confidence 4699999998753222 2 49999999999999999999999985443
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=84.78 E-value=0.42 Score=46.51 Aligned_cols=42 Identities=33% Similarity=0.771 Sum_probs=30.5
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
.|.-|--.+.. .-|+.| |.|+||.+|... ...+.||.|-..|
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 47778655443 346788 999999999765 3456899996655
No 102
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=82.30 E-value=2.2 Score=36.33 Aligned_cols=20 Identities=15% Similarity=0.363 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 036833 59 PLIIAVIGILASAFILVTYY 78 (352)
Q Consensus 59 ~lii~iigil~~~~llv~~~ 78 (352)
.++.+++|+++++++++++.
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi 84 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLI 84 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHH
T ss_pred ceeehhHHHHHHHHHHHHHH
Confidence 44556666666665554433
No 103
>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=80.56 E-value=3.7 Score=27.74 Aligned_cols=26 Identities=12% Similarity=0.220 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036833 61 IIAVIGILASAFILVTYYTIISKYCK 86 (352)
Q Consensus 61 ii~iigil~~~~llv~~~~i~~~~~~ 86 (352)
+.++.|++++++++++..+++..+++
T Consensus 6 IaIIv~V~vg~~iiii~~~~YaCcyk 31 (38)
T PF02439_consen 6 IAIIVAVVVGMAIIIICMFYYACCYK 31 (38)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34455555555555554444443333
No 104
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=78.86 E-value=1 Score=43.15 Aligned_cols=52 Identities=27% Similarity=0.786 Sum_probs=37.1
Q ss_pred CCCCcccccccccCcc-eeccCCCC-----CcccHhHHHHHHh--cCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQEHES-LRLLPKCN-----HAFHLPCIDTWLK--SHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~FH~~Ci~~Wl~--~~~~CP~CR~~i~~~~ 192 (352)
+..|-||..+...... ..+.| |. +..|..|++.|+. ....|.+|........
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~ 137 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVG 137 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceecc
Confidence 4679999997654322 33455 54 5589999999996 5667999988665543
No 105
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=78.54 E-value=1.6 Score=42.24 Aligned_cols=56 Identities=18% Similarity=0.434 Sum_probs=40.0
Q ss_pred CCccccccc-ccCc-ceeccCCCCCcccHhHHHHHHhc-CCCCcccccccccCCCcCCCC
Q 036833 142 DCSVCLSEF-QEHE-SLRLLPKCNHAFHLPCIDTWLKS-HSSCPLCRATIISFPAAQASA 198 (352)
Q Consensus 142 ~C~ICl~~~-~~~~-~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~~~~ 198 (352)
.|++|-... ...+ .+.+-+ |+|-.|..|++..+.. ...||.|-..+...+...+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~f 60 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTF 60 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhc
Confidence 588888763 2222 333445 9999999999999854 457999988887776665543
No 106
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.91 E-value=1.4 Score=46.38 Aligned_cols=47 Identities=32% Similarity=0.820 Sum_probs=39.0
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCCCc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFPAA 194 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~~~ 194 (352)
.+.|.||+.++ ..+..+ |. |..|+..|+..+..||+|+..+......
T Consensus 479 ~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 479 NDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred cCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 46799999998 366666 88 9999999999889999999988765443
No 107
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=76.39 E-value=2.2 Score=36.78 Aligned_cols=51 Identities=24% Similarity=0.493 Sum_probs=35.4
Q ss_pred CCCCcccccccccCcceeccC--CCCCcccHhHHHHHHh---cCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQEHESLRLLP--KCNHAFHLPCIDTWLK---SHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp--~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~i~~~~ 192 (352)
-.+|.||.+.-.+. -.+-| -||-..+.-|....++ .+..||+|++.+....
T Consensus 80 lYeCnIC~etS~ee--~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSAEE--RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccchh--hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 46899999885442 22223 3888888888665543 3778999999887653
No 108
>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=75.25 E-value=4 Score=39.89 Aligned_cols=24 Identities=33% Similarity=0.618 Sum_probs=14.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 59 PLIIAVIGILASAFILVTYYTIIS 82 (352)
Q Consensus 59 ~lii~iigil~~~~llv~~~~i~~ 82 (352)
.++..+++||+.+++++++|.+++
T Consensus 257 ~I~aSiiaIliIVLIMvIIYLILR 280 (299)
T PF02009_consen 257 AIIASIIAILIIVLIMVIIYLILR 280 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666665554
No 109
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=71.78 E-value=3 Score=40.37 Aligned_cols=76 Identities=20% Similarity=0.345 Sum_probs=37.1
Q ss_pred CCCCCCccCCCccccCCCceeeecCCCceeecCC-CCCCCCCCCCCCCC-CCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 7 NNQNPWAPYATYKDCSQAICSIYCPQGCYTIFPP-PPPFNLEDEDDDSG-TDFSPLIIAVIGILASAFILVTYYTIISKY 84 (352)
Q Consensus 7 ~~~~~~~~~~~~~~~~~g~~~~~~p~~~~~~f~p-ppp~~l~~~~~~s~-~~f~~lii~iigil~~~~llv~~~~i~~~~ 84 (352)
=+-..|.||..+.+=. +. |-.-..+|.. ..+|.. ..+... ..-..++|.+...|.++|+++++.+++.+.
T Consensus 183 ydG~~w~Py~~t~~~~-~~-----~gsi~~if~~~~~~~~~--s~~~~~l~~G~VVlIslAiALG~v~ll~l~Gii~~~~ 254 (281)
T PF12768_consen 183 YDGTSWTPYLLTSSSD-GQ-----PGSISSIFSESSSSFSS--SKGGKKLSRGFVVLISLAIALGTVFLLVLIGIILAYI 254 (281)
T ss_pred ECCCEEEEEEEEecCC-CC-----CcceeEEEEcCCCcccc--ccccccccceEEEEEehHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999877532 21 1111134444 444442 111122 222333444444455566666666666666
Q ss_pred hhccCc
Q 036833 85 CKRRSD 90 (352)
Q Consensus 85 ~~rr~~ 90 (352)
++||+.
T Consensus 255 ~r~~~~ 260 (281)
T PF12768_consen 255 RRRRQG 260 (281)
T ss_pred Hhhhcc
Confidence 555443
No 110
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=71.02 E-value=3.7 Score=44.82 Aligned_cols=56 Identities=21% Similarity=0.579 Sum_probs=39.8
Q ss_pred CCCCcccccccccCcceeccC-CCC---CcccHhHHHHHHhc--CCCCcccccccccCCCcCC
Q 036833 140 GSDCSVCLSEFQEHESLRLLP-KCN---HAFHLPCIDTWLKS--HSSCPLCRATIISFPAAQA 196 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp-~C~---H~FH~~Ci~~Wl~~--~~~CP~CR~~i~~~~~~~~ 196 (352)
...|-||..+=..++.+ .-| +|. ...|.+|+..|+.. ...|-+|+.++.-.....+
T Consensus 12 ~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e 73 (1175)
T COG5183 12 KRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE 73 (1175)
T ss_pred chhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence 35799999886665544 345 344 34899999999964 4469999998866555443
No 111
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=70.72 E-value=3.2 Score=44.98 Aligned_cols=40 Identities=23% Similarity=0.449 Sum_probs=30.1
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPL 183 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~ 183 (352)
.|.+|--.+.. . ....+.|+|.-|.+|+..|+..+.-||.
T Consensus 781 ~CtVC~~vi~G-~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG-V-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee-e-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 58888666543 1 2233479999999999999988887876
No 112
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=70.41 E-value=1.6 Score=41.16 Aligned_cols=57 Identities=21% Similarity=0.523 Sum_probs=40.1
Q ss_pred CCCCccccccc--ccCcceeccCCCCCcccHhHHHHHHhc-CCCCc--ccccccccCCCcCC
Q 036833 140 GSDCSVCLSEF--QEHESLRLLPKCNHAFHLPCIDTWLKS-HSSCP--LCRATIISFPAAQA 196 (352)
Q Consensus 140 ~~~C~ICl~~~--~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-~~~CP--~CR~~i~~~~~~~~ 196 (352)
+..|+||..+. .++-++-+-|.|-|-.|..|++..+.. ...|| -|-+-+.......+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~q 71 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQ 71 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhccccc
Confidence 45799999873 333345556689999999999999965 44699 88665544444333
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=70.31 E-value=1.6 Score=46.11 Aligned_cols=43 Identities=28% Similarity=0.738 Sum_probs=26.6
Q ss_pred CCCCcccccc-----cccCcceeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 140 GSDCSVCLSE-----FQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 140 ~~~C~ICl~~-----~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
...|.+|... |......+... |+++||..|+.. ....||.|-+
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCchHH
Confidence 3468888332 33222234454 999999999655 3445999943
No 114
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=69.96 E-value=3.1 Score=40.66 Aligned_cols=45 Identities=24% Similarity=0.449 Sum_probs=32.2
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATII 189 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~ 189 (352)
+--+|+||.+.+.... ..-. =||..|..|-.+ ....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi--~QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPI--FQCD-NGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcccc--eecC-CCcEehhhhhhh---hcccCCccccccc
Confidence 4468999999987642 2211 369998888653 4567999999875
No 115
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=69.85 E-value=1.9 Score=30.56 Aligned_cols=29 Identities=28% Similarity=0.802 Sum_probs=21.5
Q ss_pred CC-CcccHhHHHHHHhcCCCCccccccccc
Q 036833 162 CN-HAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 162 C~-H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
|+ |..+..|+...|.....||+|..+++.
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 66 999999999999888899999988753
No 116
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=69.02 E-value=6.5 Score=34.42 Aligned_cols=13 Identities=15% Similarity=0.284 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAF 72 (352)
Q Consensus 60 lii~iigil~~~~ 72 (352)
+++++++|++.++
T Consensus 31 m~tILiaIvVlii 43 (189)
T PF05568_consen 31 MYTILIAIVVLII 43 (189)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444333
No 117
>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=68.49 E-value=3.3 Score=29.85 Aligned_cols=43 Identities=28% Similarity=0.584 Sum_probs=22.1
Q ss_pred CcccccccccCc------ceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 143 CSVCLSEFQEHE------SLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 143 C~ICl~~~~~~~------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
|.-|+..|.... ....-|+|++.|+.+|=.---..-.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 556777766542 2344567999999999544323445799983
No 118
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=68.36 E-value=5.5 Score=33.78 Aligned_cols=6 Identities=33% Similarity=0.440 Sum_probs=2.4
Q ss_pred HhhccC
Q 036833 84 YCKRRS 89 (352)
Q Consensus 84 ~~~rr~ 89 (352)
+.+||+
T Consensus 22 ~~rRR~ 27 (130)
T PF12273_consen 22 HNRRRR 27 (130)
T ss_pred HHHHHh
Confidence 334433
No 119
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.21 E-value=3.8 Score=41.21 Aligned_cols=44 Identities=23% Similarity=0.459 Sum_probs=36.4
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCC---CCccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHS---SCPLC 184 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~---~CP~C 184 (352)
...|+|=.+.-.+......|. |||+...+-+.+..+... .||.|
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence 457999888877777777887 999999999999876543 59999
No 120
>PF15102 TMEM154: TMEM154 protein family
Probab=66.19 E-value=1.9 Score=37.63 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=6.4
Q ss_pred HhHHHHHHhc
Q 036833 168 LPCIDTWLKS 177 (352)
Q Consensus 168 ~~Ci~~Wl~~ 177 (352)
-.=+++|+..
T Consensus 127 meeldkwm~s 136 (146)
T PF15102_consen 127 MEELDKWMNS 136 (146)
T ss_pred HHHHHhHHHh
Confidence 4557788753
No 121
>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=65.40 E-value=8.2 Score=38.53 Aligned_cols=28 Identities=36% Similarity=0.768 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036833 58 SPLIIAVIGILASAFILVTYYTIISKYCK 86 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i~~~~~~ 86 (352)
..+++.+++|++.+++++++|.++ ||+|
T Consensus 310 t~IiaSiIAIvvIVLIMvIIYLIL-RYRR 337 (353)
T TIGR01477 310 TPIIASIIAILIIVLIMVIIYLIL-RYRR 337 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-Hhhh
Confidence 455666777777777777777664 4433
No 122
>PTZ00046 rifin; Provisional
Probab=64.12 E-value=8.8 Score=38.39 Aligned_cols=28 Identities=25% Similarity=0.655 Sum_probs=16.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036833 58 SPLIIAVIGILASAFILVTYYTIISKYCK 86 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i~~~~~~ 86 (352)
..+++.+++|++.+++++++|.++ ||+|
T Consensus 315 taIiaSiiAIvVIVLIMvIIYLIL-RYRR 342 (358)
T PTZ00046 315 TAIIASIVAIVVIVLIMVIIYLIL-RYRR 342 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-Hhhh
Confidence 344556677777666666666654 4433
No 123
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=63.99 E-value=5 Score=43.80 Aligned_cols=53 Identities=15% Similarity=0.280 Sum_probs=36.5
Q ss_pred CCCCCcccccccccCc---ceeccCCCCCcccHhHHHHHHhc------CCCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHE---SLRLLPKCNHAFHLPCIDTWLKS------HSSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~i~~~ 191 (352)
....|.+|..++...+ .+-.+..|+|.||..||..|+.+ +-.|+.|.+-|...
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 3567888888877622 22222369999999999999843 33588888766554
No 124
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=62.99 E-value=7.7 Score=32.50 Aligned_cols=46 Identities=22% Similarity=0.405 Sum_probs=33.8
Q ss_pred CCCCcccccccccCc----------ceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 140 GSDCSVCLSEFQEHE----------SLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~----------~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
...|--|+..|.... ....-++|++.|+.+|=.-+-..-.+||-|-
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 346999999886431 1122446999999999888877667899995
No 125
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.94 E-value=3.4 Score=41.71 Aligned_cols=37 Identities=27% Similarity=0.726 Sum_probs=27.1
Q ss_pred CCCCcccccccccC-cceeccCCCCCcccHhHHHHHHhc
Q 036833 140 GSDCSVCLSEFQEH-ESLRLLPKCNHAFHLPCIDTWLKS 177 (352)
Q Consensus 140 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~Ci~~Wl~~ 177 (352)
..+|.||..+.... +....+ +|+|.|+.+|+...+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 56899999554444 444434 69999999999988753
No 126
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.40 E-value=4.3 Score=38.71 Aligned_cols=52 Identities=23% Similarity=0.662 Sum_probs=34.4
Q ss_pred CCCCCcccccccccCcce-eccCCCC-----CcccHhHHHHHHhcC--------CCCcccccccccC
Q 036833 139 EGSDCSVCLSEFQEHESL-RLLPKCN-----HAFHLPCIDTWLKSH--------SSCPLCRATIISF 191 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~-~~lp~C~-----H~FH~~Ci~~Wl~~~--------~~CP~CR~~i~~~ 191 (352)
.+..|=||+..=++.... -+-| |. |-.|..|+..|+..+ -+||-|+++....
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 345799999875443222 2344 43 669999999999321 2599999876543
No 127
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.42 E-value=4.8 Score=39.06 Aligned_cols=29 Identities=21% Similarity=0.642 Sum_probs=22.3
Q ss_pred CCCcccHhHHHHHHhc-------------CCCCccccccccc
Q 036833 162 CNHAFHLPCIDTWLKS-------------HSSCPLCRATIIS 190 (352)
Q Consensus 162 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~i~~ 190 (352)
|...+|..|+..|+.. +-.||+||+.+-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 5677899999999842 2369999997644
No 128
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=60.53 E-value=6.1 Score=36.29 Aligned_cols=40 Identities=40% Similarity=0.890 Sum_probs=27.8
Q ss_pred CCCCcccccc-----cccCcceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 140 GSDCSVCLSE-----FQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 140 ~~~C~ICl~~-----~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
+..|-+|-+. |+.. .+..-++|+-+||..|... ..||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 3568888753 3332 3444557999999999763 5799994
No 129
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=58.80 E-value=14 Score=29.39 Aligned_cols=9 Identities=11% Similarity=0.043 Sum_probs=7.0
Q ss_pred CCCceeecC
Q 036833 31 PQGCYTIFP 39 (352)
Q Consensus 31 p~~~~~~f~ 39 (352)
|.|.|.||.
T Consensus 10 ~~~~YEYY~ 18 (90)
T PF15183_consen 10 YYWSYEYYL 18 (90)
T ss_pred cceeeeehh
Confidence 668888875
No 130
>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=57.74 E-value=4 Score=33.36 Aligned_cols=17 Identities=18% Similarity=0.440 Sum_probs=6.9
Q ss_pred hhHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFIL 74 (352)
Q Consensus 58 ~~lii~iigil~~~~ll 74 (352)
..++++++++++.++++
T Consensus 62 ~iili~lls~v~IlVil 78 (101)
T PF06024_consen 62 NIILISLLSFVCILVIL 78 (101)
T ss_pred cchHHHHHHHHHHHHHH
Confidence 34444444444433333
No 131
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=57.56 E-value=13 Score=36.11 Aligned_cols=29 Identities=21% Similarity=0.432 Sum_probs=18.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~~~ 83 (352)
..|.|.-|+.+++|+.+++|+++|+++.|
T Consensus 256 aaF~Pcgiaalvllil~vvliiLYiWlyr 284 (295)
T TIGR01478 256 STFLPYGIAALVLIILTVVLIILYIWLYR 284 (295)
T ss_pred HhhcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44777777776666666666666665433
No 132
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=57.44 E-value=3.2 Score=44.68 Aligned_cols=47 Identities=34% Similarity=0.804 Sum_probs=35.9
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc---CCCCccccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS---HSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~i~~ 190 (352)
..+|.||+..+... ..+ +|.|.|+.-|+..-|.. ...||+|+..+..
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 35799999998775 334 59999999998877643 3469999976644
No 133
>PTZ00370 STEVOR; Provisional
Probab=56.57 E-value=13 Score=36.01 Aligned_cols=27 Identities=30% Similarity=0.490 Sum_probs=17.3
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTII 81 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~ 81 (352)
..|.|.-|+.+++++.+++|+++|+++
T Consensus 252 aaF~Pygiaalvllil~vvliilYiwl 278 (296)
T PTZ00370 252 SAFYPYGIAALVLLILAVVLIILYIWL 278 (296)
T ss_pred HhhcccHHHHHHHHHHHHHHHHHHHHH
Confidence 446777666666666666666666654
No 134
>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=55.66 E-value=13 Score=31.54 Aligned_cols=26 Identities=12% Similarity=0.331 Sum_probs=12.1
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHH
Q 036833 53 SGTDFSPLIIAVIGILASAFILVTYYT 79 (352)
Q Consensus 53 s~~~f~~lii~iigil~~~~llv~~~~ 79 (352)
...-..+++-++.|+++ +++|++|++
T Consensus 63 ~~~i~~Ii~gv~aGvIg-~Illi~y~i 88 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIG-IILLISYCI 88 (122)
T ss_dssp -TCHHHHHHHHHHHHHH-HHHHHHHHH
T ss_pred ccceeehhHHHHHHHHH-HHHHHHHHH
Confidence 33444444445555544 444555554
No 135
>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=55.09 E-value=8.3 Score=24.53 Aligned_cols=36 Identities=22% Similarity=0.553 Sum_probs=24.5
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
|..|-..+...+.. +.. =+..||..| ..|..|...|
T Consensus 2 C~~C~~~i~~~~~~-~~~-~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELV-LRA-LGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEE-EEe-CCccccccC--------CCCcccCCcC
Confidence 78888887665222 222 567899888 5688887765
No 136
>PHA02819 hypothetical protein; Provisional
Probab=54.81 E-value=19 Score=27.61 Aligned_cols=7 Identities=43% Similarity=0.206 Sum_probs=2.5
Q ss_pred chhHHHH
Q 036833 57 FSPLIIA 63 (352)
Q Consensus 57 f~~lii~ 63 (352)
|+.++++
T Consensus 46 ~~~~ii~ 52 (71)
T PHA02819 46 RYYLIIG 52 (71)
T ss_pred HHHHHHH
Confidence 3333333
No 137
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=54.40 E-value=6.7 Score=36.40 Aligned_cols=45 Identities=29% Similarity=0.711 Sum_probs=34.8
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
..|.+|..-.-.+ ++.-. |+--+|..|+...+++...||.|-.-+
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCchhccc
Confidence 4799998875543 34443 888899999999999988999995433
No 138
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=53.69 E-value=20 Score=25.50 Aligned_cols=25 Identities=20% Similarity=0.656 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCcc
Q 036833 67 ILASAFILVTYYTIISKYCKRRSDE 91 (352)
Q Consensus 67 il~~~~llv~~~~i~~~~~~rr~~~ 91 (352)
|++.+++.+-||+.+.+||+..++.
T Consensus 8 ivli~lv~~gy~~hmkrycrafrqd 32 (54)
T PF13260_consen 8 IVLIVLVVVGYFCHMKRYCRAFRQD 32 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3344456677888899999876543
No 139
>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=52.45 E-value=11 Score=25.88 Aligned_cols=12 Identities=25% Similarity=0.351 Sum_probs=5.9
Q ss_pred HHHHHHHhhccC
Q 036833 78 YTIISKYCKRRS 89 (352)
Q Consensus 78 ~~i~~~~~~rr~ 89 (352)
.++|+||..|++
T Consensus 27 ~~iYRKw~aRkr 38 (43)
T PF08114_consen 27 LFIYRKWQARKR 38 (43)
T ss_pred HHHHHHHHHHHH
Confidence 344556655443
No 140
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=52.23 E-value=32 Score=37.87 Aligned_cols=28 Identities=25% Similarity=0.669 Sum_probs=14.5
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHHHhhccC
Q 036833 62 IAVIGILAS-AFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 62 i~iigil~~-~~llv~~~~i~~~~~~rr~ 89 (352)
+++++||.+ +++++++++++..||+|+.
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~yCrrkc 301 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCYCRRKC 301 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 444555553 3334445555666676643
No 141
>PHA03054 IMV membrane protein; Provisional
Probab=51.90 E-value=18 Score=27.75 Aligned_cols=7 Identities=43% Similarity=0.377 Sum_probs=2.5
Q ss_pred chhHHHH
Q 036833 57 FSPLIIA 63 (352)
Q Consensus 57 f~~lii~ 63 (352)
|+.++++
T Consensus 48 ~~~~ii~ 54 (72)
T PHA03054 48 WYWLIII 54 (72)
T ss_pred HHHHHHH
Confidence 3333333
No 142
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.14 E-value=12 Score=35.73 Aligned_cols=50 Identities=20% Similarity=0.253 Sum_probs=37.0
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccCC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISFP 192 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~~ 192 (352)
..|+|---+|........|..|||+|-..-+... ...+|++|.+.+.+..
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 4599988777665555555669999998887775 3568999988775543
No 143
>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 KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.90 E-value=5.6 Score=43.37 Aligned_cols=44 Identities=20% Similarity=0.510 Sum_probs=31.7
Q ss_pred CCCCcccccccccC----cceeccCCCCCcccHhHHHHHHhcCCCCcccc
Q 036833 140 GSDCSVCLSEFQEH----ESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 140 ~~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
...|.-|.+..-.. ..+.++- |+|+||..|+..-..+++ |-.|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChhh
Confidence 45799999876532 3455664 999999999998876555 66663
No 145
>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=50.63 E-value=15 Score=26.04 Aligned_cols=42 Identities=21% Similarity=0.613 Sum_probs=17.7
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHHHHHHhc-----CCCCcccccc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS-----HSSCPLCRAT 187 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~ 187 (352)
.|+|....+... +|... |.|.-+++ +..||.. .-.||+|.++
T Consensus 4 ~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 588887776553 55554 99873322 3344432 2259999763
No 146
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=49.18 E-value=13 Score=36.62 Aligned_cols=46 Identities=26% Similarity=0.492 Sum_probs=34.0
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
...|-.|.++.......+.- .|.|+||.+|-.---..-..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 34599998777766656555 49999999996654455567999964
No 147
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=48.03 E-value=11 Score=23.28 Aligned_cols=23 Identities=30% Similarity=0.749 Sum_probs=12.7
Q ss_pred CCcccccccccCcceeccCCCCCcc
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAF 166 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~F 166 (352)
.|+-|...+... .+.-|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 466666665332 33445577766
No 148
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=47.80 E-value=31 Score=26.87 Aligned_cols=10 Identities=20% Similarity=0.332 Sum_probs=4.3
Q ss_pred HHHHhhccCc
Q 036833 81 ISKYCKRRSD 90 (352)
Q Consensus 81 ~~~~~~rr~~ 90 (352)
+.+|..+++.
T Consensus 23 ~lHY~sk~~~ 32 (75)
T PF06667_consen 23 ILHYRSKWKS 32 (75)
T ss_pred HHHHHHhccc
Confidence 3344444443
No 149
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=47.63 E-value=9.3 Score=39.09 Aligned_cols=32 Identities=34% Similarity=0.717 Sum_probs=25.9
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHH
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWL 175 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl 175 (352)
...|+||-.-|++ .++|| |+|..|..|...-+
T Consensus 4 elkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 4 ELKCPVCGSFYRE---PIILP-CSHNLCQACARNIL 35 (699)
T ss_pred cccCceehhhccC---ceEee-cccHHHHHHHHhhc
Confidence 4579999999887 67888 99999988876543
No 150
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=47.35 E-value=18 Score=31.76 Aligned_cols=30 Identities=17% Similarity=0.373 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCcc
Q 036833 62 IAVIGILASAFILVTYYTIISKYCKRRSDE 91 (352)
Q Consensus 62 i~iigil~~~~llv~~~~i~~~~~~rr~~~ 91 (352)
.-++.||+.+++++++++++..+|.+|.++
T Consensus 29 thm~tILiaIvVliiiiivli~lcssRKkK 58 (189)
T PF05568_consen 29 THMYTILIAIVVLIIIIIVLIYLCSSRKKK 58 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 555666666666666666666666666543
No 151
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=47.30 E-value=36 Score=25.92 Aligned_cols=21 Identities=24% Similarity=0.399 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i 80 (352)
+.+.++|+.+++++|++++.+
T Consensus 5 l~i~i~Gm~iVF~~L~lL~~~ 25 (79)
T PF04277_consen 5 LQIMIIGMGIVFLVLILLILV 25 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666655555444
No 152
>PHA02650 hypothetical protein; Provisional
Probab=46.82 E-value=52 Score=25.86 Aligned_cols=29 Identities=7% Similarity=-0.092 Sum_probs=15.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTIISKY 84 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~~~~ 84 (352)
..++.+.+.++.++++++++++ .++|.|.
T Consensus 44 ~~~~~~~~~ii~i~~v~i~~l~-~flYLK~ 72 (81)
T PHA02650 44 VSWFNGQNFIFLIFSLIIVALF-SFFVFKG 72 (81)
T ss_pred cCCchHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 4466677777775554444444 3444443
No 153
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=46.59 E-value=12 Score=35.94 Aligned_cols=48 Identities=29% Similarity=0.657 Sum_probs=34.6
Q ss_pred CCCcccccccccCcceec---cCCCCCcccHhHHHHHHh-c--------CCCCccccccc
Q 036833 141 SDCSVCLSEFQEHESLRL---LPKCNHAFHLPCIDTWLK-S--------HSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~---lp~C~H~FH~~Ci~~Wl~-~--------~~~CP~CR~~i 188 (352)
.+|-+|..++.+.+..+. -+.|+-.+|..|+..-+. . .-.||.|++.+
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 589999999955454443 236888999999999442 1 23599998854
No 154
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=45.89 E-value=27 Score=27.58 Aligned_cols=20 Identities=25% Similarity=0.632 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 036833 62 IAVIGILASAFILVTYYTII 81 (352)
Q Consensus 62 i~iigil~~~~llv~~~~i~ 81 (352)
++++++++++++.+++|.+.
T Consensus 7 ~~iialiv~~iiaIvvW~iv 26 (81)
T PF00558_consen 7 LAIIALIVALIIAIVVWTIV 26 (81)
T ss_dssp -HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444455555553
No 155
>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=45.37 E-value=12 Score=26.33 Aligned_cols=39 Identities=18% Similarity=0.374 Sum_probs=27.3
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCcccccccccC
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
|+.|-..+...+.+. .. -+..||..| ..|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~-~~-~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KA-MGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEE-EE-TTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEE-Ee-CCcEEEccc--------cccCCCCCccCCC
Confidence 677888877655432 22 678899888 5799998887543
No 156
>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=45.34 E-value=15 Score=34.21 Aligned_cols=30 Identities=20% Similarity=0.609 Sum_probs=12.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 036833 56 DFSPLIIAVIGILASAFILVTYYTIISKYCKR 87 (352)
Q Consensus 56 ~f~~lii~iigil~~~~llv~~~~i~~~~~~r 87 (352)
..++++.+|.|+++++++ ++...+.|||+.
T Consensus 36 ~~~I~iaiVAG~~tVILV--I~i~v~vR~CRq 65 (221)
T PF08374_consen 36 YVKIMIAIVAGIMTVILV--IFIVVLVRYCRQ 65 (221)
T ss_pred ceeeeeeeecchhhhHHH--HHHHHHHHHHhh
Confidence 344444444444433332 223333465653
No 157
>PF15050 SCIMP: SCIMP protein
Probab=44.33 E-value=45 Score=28.35 Aligned_cols=25 Identities=20% Similarity=0.311 Sum_probs=10.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH
Q 036833 56 DFSPLIIAVIGILASAFILVTYYTII 81 (352)
Q Consensus 56 ~f~~lii~iigil~~~~llv~~~~i~ 81 (352)
+||+++.+. .|++++.+.+++|+++
T Consensus 7 nFWiiLAVa-II~vS~~lglIlyCvc 31 (133)
T PF15050_consen 7 NFWIILAVA-IILVSVVLGLILYCVC 31 (133)
T ss_pred chHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 355443332 3334444444455443
No 158
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.85 E-value=13 Score=38.09 Aligned_cols=36 Identities=25% Similarity=0.722 Sum_probs=29.0
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS 177 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~ 177 (352)
....|-||.+.+.. .+..+. |+|.|+..|+...+..
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 34689999999876 355565 9999999999999854
No 159
>PF15102 TMEM154: TMEM154 protein family
Probab=43.16 E-value=6.9 Score=34.28 Aligned_cols=6 Identities=33% Similarity=0.562 Sum_probs=2.9
Q ss_pred CCCCCc
Q 036833 52 DSGTDF 57 (352)
Q Consensus 52 ~s~~~f 57 (352)
++...|
T Consensus 52 ~~q~ef 57 (146)
T PF15102_consen 52 SSQLEF 57 (146)
T ss_pred CCCcce
Confidence 344555
No 160
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=43.12 E-value=42 Score=29.53 Aligned_cols=29 Identities=24% Similarity=0.492 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 036833 61 IIAVIGILASAFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 61 ii~iigil~~~~llv~~~~i~~~~~~rr~ 89 (352)
+|+.+.+.+++.+++++|+++-.++.||.
T Consensus 121 lilaisvtvv~~iliii~CLiei~shr~a 149 (154)
T PF14914_consen 121 LILAISVTVVVMILIIIFCLIEICSHRRA 149 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 44444555556666667777666666654
No 161
>PRK14710 hypothetical protein; Provisional
Probab=42.84 E-value=18 Score=27.79 Aligned_cols=26 Identities=23% Similarity=0.421 Sum_probs=19.1
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i 80 (352)
.+.++++|.+++|++.+++.+.-|..
T Consensus 6 sn~skm~ififaiii~v~lcv~tyly 31 (86)
T PRK14710 6 SNLSKMIIFIFAIIIIVVLCVITYLY 31 (86)
T ss_pred cchhHHHHHHHHHHHHHHHHHhhhee
Confidence 45688888888888777777665544
No 162
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=41.93 E-value=60 Score=21.99 Aligned_cols=28 Identities=21% Similarity=0.394 Sum_probs=13.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036833 58 SPLIIAVIGILASAFILVTYYTIISKYCK 86 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i~~~~~~ 86 (352)
..+..+++|+. .+++.+++|....|..+
T Consensus 7 aIIv~V~vg~~-iiii~~~~YaCcykk~~ 34 (38)
T PF02439_consen 7 AIIVAVVVGMA-IIIICMFYYACCYKKHR 34 (38)
T ss_pred hHHHHHHHHHH-HHHHHHHHHHHHHcccc
Confidence 34444444544 44555555554444433
No 163
>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=41.85 E-value=35 Score=32.16 Aligned_cols=21 Identities=48% Similarity=0.692 Sum_probs=8.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFILVTYY 78 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~ 78 (352)
.+++|++|.|.+.+|+|+-+|
T Consensus 191 lpvvIaliVitl~vf~LvgLy 211 (259)
T PF07010_consen 191 LPVVIALIVITLSVFTLVGLY 211 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444433
No 164
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=41.72 E-value=14 Score=30.22 Aligned_cols=27 Identities=30% Similarity=0.353 Sum_probs=21.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTII 81 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~ 81 (352)
.......++++++++.+.+++++|.++
T Consensus 56 ~~~~~~~iili~lls~v~IlVily~Iy 82 (101)
T PF06024_consen 56 SKQNNGNIILISLLSFVCILVILYAIY 82 (101)
T ss_pred cccccccchHHHHHHHHHHHHHHhhhe
Confidence 456778888999988888888888765
No 165
>PHA02975 hypothetical protein; Provisional
Probab=40.97 E-value=71 Score=24.41 Aligned_cols=25 Identities=28% Similarity=0.171 Sum_probs=13.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYT 79 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~ 79 (352)
...+.+.+.++.++++++++++.+.
T Consensus 39 ~~~~~~~~~ii~i~~v~~~~~~~fl 63 (69)
T PHA02975 39 KKSSLSIILIIFIIFITCIAVFTFL 63 (69)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHHH
Confidence 3555666777765554444444433
No 166
>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=40.67 E-value=32 Score=25.30 Aligned_cols=45 Identities=22% Similarity=0.680 Sum_probs=31.4
Q ss_pred CCcccccccccCc-ceeccCCCCC--cccHhHHHHHHhcCCCCcccccccccC
Q 036833 142 DCSVCLSEFQEHE-SLRLLPKCNH--AFHLPCIDTWLKSHSSCPLCRATIISF 191 (352)
Q Consensus 142 ~C~ICl~~~~~~~-~~~~lp~C~H--~FH~~Ci~~Wl~~~~~CP~CR~~i~~~ 191 (352)
.|-.|-.++..+. ..++ |.+ .|+..|.+.-| +..||.|-..+..-
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 4777777766554 2322 664 49999999987 46899998776543
No 167
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=38.33 E-value=10 Score=36.86 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC
Q 036833 65 IGILASAFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 65 igil~~~~llv~~~~i~~~~~~rr~ 89 (352)
+++++++++|++..++...|++||.
T Consensus 151 paVVI~~iLLIA~iIa~icyrrkR~ 175 (290)
T PF05454_consen 151 PAVVIAAILLIAGIIACICYRRKRK 175 (290)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 3333333333333333333444443
No 168
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=38.31 E-value=16 Score=24.21 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=9.1
Q ss_pred CCcccccccccCc
Q 036833 142 DCSVCLSEFQEHE 154 (352)
Q Consensus 142 ~C~ICl~~~~~~~ 154 (352)
+|+-|-..|...+
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5777877776654
No 169
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=38.20 E-value=65 Score=26.41 Aligned_cols=36 Identities=6% Similarity=0.175 Sum_probs=21.8
Q ss_pred CCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 49 EDDDSGTDFSPLIIAVIGILASAFILVTYYTIISKY 84 (352)
Q Consensus 49 ~~~~s~~~f~~lii~iigil~~~~llv~~~~i~~~~ 84 (352)
+...+-.-|.+++|.++++++++=+++-+++.++++
T Consensus 10 KPsGsL~PWeIfLItLasVvvavGl~aGLfFcvR~~ 45 (106)
T PF14654_consen 10 KPSGSLKPWEIFLITLASVVVAVGLFAGLFFCVRNS 45 (106)
T ss_pred ccCCCccchHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 444455567777777777776666666555544443
No 170
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.08 E-value=13 Score=37.56 Aligned_cols=44 Identities=23% Similarity=0.511 Sum_probs=31.8
Q ss_pred CCCCcccccccccCcce--eccCCCCCcccHhHHHHHHhcCCCCccc
Q 036833 140 GSDCSVCLSEFQEHESL--RLLPKCNHAFHLPCIDTWLKSHSSCPLC 184 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~--~~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 184 (352)
-..|+.|.-.+.-...+ ..-. |+|-|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 35699988776554433 2333 89999999999998777777655
No 171
>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=37.52 E-value=16 Score=25.30 Aligned_cols=43 Identities=28% Similarity=0.624 Sum_probs=28.9
Q ss_pred CcccccccccCcceeccCCCCCcccHhHHHHHHh------cCCCCccccc
Q 036833 143 CSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLK------SHSSCPLCRA 186 (352)
Q Consensus 143 C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~------~~~~CP~CR~ 186 (352)
|.||...-..++.+.-- .|+..||..|+..-.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcC-CCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 88898854444444444 5999999999876542 1346888853
No 172
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=37.44 E-value=40 Score=27.93 Aligned_cols=7 Identities=14% Similarity=0.596 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 036833 63 AVIGILA 69 (352)
Q Consensus 63 ~iigil~ 69 (352)
+++++++
T Consensus 5 ~il~llL 11 (107)
T PF15330_consen 5 GILALLL 11 (107)
T ss_pred HHHHHHH
Confidence 3444443
No 173
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=36.64 E-value=25 Score=34.11 Aligned_cols=17 Identities=12% Similarity=0.327 Sum_probs=9.3
Q ss_pred ccCCCccccC-CCceeee
Q 036833 13 APYATYKDCS-QAICSIY 29 (352)
Q Consensus 13 ~~~~~~~~~~-~g~~~~~ 29 (352)
+|...+-.|. +-.+.|.
T Consensus 219 tp~g~SY~C~seq~i~lt 236 (306)
T PF01299_consen 219 TPVGHSYKCNSEQSINLT 236 (306)
T ss_pred ccCCceeECCCCCEEEec
Confidence 3666666676 3444444
No 174
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=36.63 E-value=41 Score=29.03 Aligned_cols=14 Identities=43% Similarity=0.724 Sum_probs=5.9
Q ss_pred HHHHHHHHHHhhcc
Q 036833 75 VTYYTIISKYCKRR 88 (352)
Q Consensus 75 v~~~~i~~~~~~rr 88 (352)
++.+.++.+|++||
T Consensus 137 ~l~~~~~~~~r~~r 150 (154)
T PF09835_consen 137 FLVYFLVRKYRKRR 150 (154)
T ss_pred HHHHHHHHHHHHHH
Confidence 33334444444443
No 175
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=36.47 E-value=55 Score=27.11 Aligned_cols=21 Identities=24% Similarity=0.381 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036833 63 AVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 63 ~iigil~~~~llv~~~~i~~~ 83 (352)
++++|++.++++.+++.++..
T Consensus 2 ~Ll~il~llLll~l~asl~~w 22 (107)
T PF15330_consen 2 LLLGILALLLLLSLAASLLAW 22 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 466777666666655555443
No 176
>KOG1766 consensus Enhancer of rudimentary [General function prediction only]
Probab=35.55 E-value=3.4 Score=33.51 Aligned_cols=23 Identities=26% Similarity=0.894 Sum_probs=20.8
Q ss_pred CCCCCccCCCccccCCCceeeec
Q 036833 8 NQNPWAPYATYKDCSQAICSIYC 30 (352)
Q Consensus 8 ~~~~~~~~~~~~~~~~g~~~~~~ 30 (352)
.-++|.-|+...+|-+|+|++|-
T Consensus 15 esRT~~DYesv~e~megiCk~yE 37 (104)
T KOG1766|consen 15 ESRTWGDYESVTECMEGICKMYE 37 (104)
T ss_pred ccccccchHhHHHHHHHHHHHHH
Confidence 45789999999999999999984
No 177
>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=35.45 E-value=12 Score=28.21 Aligned_cols=9 Identities=11% Similarity=0.279 Sum_probs=0.0
Q ss_pred HHHHHHHHH
Q 036833 64 VIGILASAF 72 (352)
Q Consensus 64 iigil~~~~ 72 (352)
+.|++++++
T Consensus 15 IaG~Vvgll 23 (64)
T PF01034_consen 15 IAGGVVGLL 23 (64)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 333333333
No 178
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=34.75 E-value=62 Score=25.15 Aligned_cols=9 Identities=33% Similarity=0.582 Sum_probs=3.9
Q ss_pred HHHHhhccC
Q 036833 81 ISKYCKRRS 89 (352)
Q Consensus 81 ~~~~~~rr~ 89 (352)
+.+|..+++
T Consensus 23 ~lHY~~k~~ 31 (75)
T TIGR02976 23 ILHYRSKRK 31 (75)
T ss_pred HHHHHhhhc
Confidence 344444443
No 179
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.41 E-value=29 Score=33.15 Aligned_cols=36 Identities=17% Similarity=0.202 Sum_probs=28.9
Q ss_pred cCCCCCcccccccccCcceeccCCCCCcccHhHHHHHHhc
Q 036833 138 VEGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKS 177 (352)
Q Consensus 138 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~ 177 (352)
..-+.|+.||..+.. ..+.| =||+|+..||...+..
T Consensus 41 K~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYILA 76 (303)
T ss_pred CCcceeeeecccccC---CccCC-CCeeeeHHHHHHHHHH
Confidence 345789999999877 44566 8999999999998743
No 180
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=34.08 E-value=76 Score=24.52 Aligned_cols=25 Identities=20% Similarity=0.259 Sum_probs=14.9
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYT 79 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~ 79 (352)
..++.+++++++++++++++++.+.
T Consensus 43 ~~~~~~~~~ii~ii~v~ii~~l~fl 67 (72)
T PF12575_consen 43 NKNFNWIILIISIIFVLIIVLLTFL 67 (72)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHH
Confidence 3345566777777766665555443
No 181
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.43 E-value=22 Score=34.51 Aligned_cols=38 Identities=18% Similarity=0.472 Sum_probs=27.8
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcC
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSH 178 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~ 178 (352)
..|.+|.+.+++..-|..-..-.|.||+.|-..-++.+
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 57999999988755442222346999999999988653
No 182
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=32.80 E-value=15 Score=37.95 Aligned_cols=23 Identities=13% Similarity=0.222 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i 80 (352)
..++++++|++++++++++++++
T Consensus 352 ~~~l~vVlgvavlivVv~viv~v 374 (439)
T PF02480_consen 352 AALLGVVLGVAVLIVVVGVIVWV 374 (439)
T ss_dssp -----------------------
T ss_pred cchHHHHHHHHHHHHHHHHHhhe
Confidence 34444444444444444333333
No 183
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=31.97 E-value=55 Score=25.89 Aligned_cols=29 Identities=10% Similarity=0.291 Sum_probs=9.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 036833 59 PLIIAVIGILASAFILVTYYTIISKYCKR 87 (352)
Q Consensus 59 ~lii~iigil~~~~llv~~~~i~~~~~~r 87 (352)
.++..++++++++++..+.|..|++..+.
T Consensus 8 ~iialiv~~iiaIvvW~iv~ieYrk~~rq 36 (81)
T PF00558_consen 8 AIIALIVALIIAIVVWTIVYIEYRKIKRQ 36 (81)
T ss_dssp HHHHHHHHHHHHHHHHHHH----------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555556666655443
No 184
>PHA02844 putative transmembrane protein; Provisional
Probab=31.43 E-value=79 Score=24.56 Aligned_cols=28 Identities=18% Similarity=0.075 Sum_probs=14.9
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~~~ 83 (352)
...+.+.+.++.+++++++++ +..+|.|
T Consensus 43 ~~~~~~~~~ii~i~~v~~~~~-~~flYLK 70 (75)
T PHA02844 43 VCSSSTKIWILTIIFVVFATF-LTFLYLK 70 (75)
T ss_pred cCChhHHHHHHHHHHHHHHHH-HHHHHHh
Confidence 445777777766554444433 3334444
No 185
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=31.17 E-value=1.1e+02 Score=25.66 Aligned_cols=13 Identities=38% Similarity=0.978 Sum_probs=6.8
Q ss_pred ecCCCceeecCCC
Q 036833 29 YCPQGCYTIFPPP 41 (352)
Q Consensus 29 ~~p~~~~~~f~pp 41 (352)
.||-..-..||+.
T Consensus 33 lcP~~sQhlf~le 45 (128)
T PF15145_consen 33 LCPAGSQHLFPLE 45 (128)
T ss_pred CCcccccCCCChH
Confidence 3565544556554
No 186
>PRK09458 pspB phage shock protein B; Provisional
Probab=30.60 E-value=61 Score=25.24 Aligned_cols=11 Identities=18% Similarity=0.392 Sum_probs=5.2
Q ss_pred HHHHHhhccCc
Q 036833 80 IISKYCKRRSD 90 (352)
Q Consensus 80 i~~~~~~rr~~ 90 (352)
++.+|..+++.
T Consensus 22 L~LHY~sk~~~ 32 (75)
T PRK09458 22 LWLHYRSKRQG 32 (75)
T ss_pred HHHhhcccccC
Confidence 34455554444
No 187
>PF15179 Myc_target_1: Myc target protein 1
Probab=30.57 E-value=83 Score=28.71 Aligned_cols=33 Identities=21% Similarity=0.431 Sum_probs=19.4
Q ss_pred CchhHHHHH-HHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 56 DFSPLIIAV-IGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 56 ~f~~lii~i-igil~~~~llv~~~~i~~~~~~rr 88 (352)
+|-.+|+++ +.++++++|..++|.++...-+||
T Consensus 17 ~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 17 DWEDLILAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344555544 566666666677777665555444
No 188
>PF14927 Neurensin: Neurensin
Probab=30.28 E-value=80 Score=27.53 Aligned_cols=8 Identities=38% Similarity=0.970 Sum_probs=5.7
Q ss_pred CCccccCC
Q 036833 16 ATYKDCSQ 23 (352)
Q Consensus 16 ~~~~~~~~ 23 (352)
-+|.||+.
T Consensus 10 ~FYedctg 17 (140)
T PF14927_consen 10 QFYEDCTG 17 (140)
T ss_pred HHccCCcc
Confidence 36889973
No 189
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=30.26 E-value=1.2e+02 Score=22.88 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=21.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 57 FSPLIIAVIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 57 f~~lii~iigil~~~~llv~~~~i~~~~~~rr 88 (352)
+...++.+..++++++++++++.++.+..++.
T Consensus 5 l~i~i~Gm~iVF~~L~lL~~~i~l~~~~~~~~ 36 (79)
T PF04277_consen 5 LQIMIIGMGIVFLVLILLILVISLMSKLIRKF 36 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45566777777777777777777777665443
No 190
>PF14979 TMEM52: Transmembrane 52
Probab=29.77 E-value=94 Score=27.35 Aligned_cols=6 Identities=33% Similarity=0.916 Sum_probs=2.8
Q ss_pred HhhccC
Q 036833 84 YCKRRS 89 (352)
Q Consensus 84 ~~~rr~ 89 (352)
+|.||+
T Consensus 45 CClrk~ 50 (154)
T PF14979_consen 45 CCLRKQ 50 (154)
T ss_pred HHhccc
Confidence 444444
No 191
>PHA03164 hypothetical protein; Provisional
Probab=29.74 E-value=42 Score=26.24 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=7.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFILVTYY 78 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~ 78 (352)
..++++-++|...+|+++++|
T Consensus 59 tFlvLtgLaIamILfiifvly 79 (88)
T PHA03164 59 TFLVLTGLAIAMILFIIFVLY 79 (88)
T ss_pred ehHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333
No 192
>PHA03054 IMV membrane protein; Provisional
Probab=29.61 E-value=1.1e+02 Score=23.48 Aligned_cols=24 Identities=17% Similarity=0.148 Sum_probs=14.3
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYY 78 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~ 78 (352)
...+.+.+.++.++++++++++++
T Consensus 43 ~~~~~~~~~ii~l~~v~~~~l~~f 66 (72)
T PHA03054 43 TGCWGWYWLIIIFFIVLILLLLIY 66 (72)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHH
Confidence 446777777777555544444443
No 193
>PHA02819 hypothetical protein; Provisional
Probab=28.65 E-value=1.2e+02 Score=23.25 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=14.0
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYY 78 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~ 78 (352)
...+.+.+.++.++++++++++++
T Consensus 41 ~~~~~~~~~ii~l~~~~~~~~~~f 64 (71)
T PHA02819 41 KKSFLRYYLIIGLVTIVFVIIFII 64 (71)
T ss_pred cCChhHHHHHHHHHHHHHHHHHHH
Confidence 446777777777555544444433
No 194
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=28.60 E-value=41 Score=33.31 Aligned_cols=47 Identities=28% Similarity=0.711 Sum_probs=34.7
Q ss_pred CCCcccccccccCcceeccC-CCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 141 SDCSVCLSEFQEHESLRLLP-KCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp-~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
..|+||.+.....+. -.+| .|+|..|..|...-...+..||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d~-~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDS-NFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCccccccc-ccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 579999998754443 2344 4777778888888777888999999544
No 195
>PLN02189 cellulose synthase
Probab=27.68 E-value=80 Score=36.00 Aligned_cols=53 Identities=19% Similarity=0.493 Sum_probs=35.7
Q ss_pred CCCCccccccccc---CcceeccCCCCCcccHhHHHHHH-hcCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQE---HESLRLLPKCNHAFHLPCIDTWL-KSHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~---~~~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~i~~~~ 192 (352)
...|.||-+++.. |+.-+....|+--.|..|.+-=- ..++.||.|++......
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 3479999999753 33222222477678999985433 34778999999887554
No 196
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=27.56 E-value=1.5e+02 Score=20.98 Aligned_cols=19 Identities=16% Similarity=0.375 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 036833 61 IIAVIGILASAFILVTYYT 79 (352)
Q Consensus 61 ii~iigil~~~~llv~~~~ 79 (352)
+..-+|+++++|+.++.+.
T Consensus 9 L~~~F~~lIC~Fl~~~~~F 27 (54)
T PF06716_consen 9 LLLAFGFLICLFLFCLVVF 27 (54)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344555655555544333
No 197
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=27.50 E-value=69 Score=31.18 Aligned_cols=22 Identities=18% Similarity=0.218 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHhhccC
Q 036833 68 LASAFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 68 l~~~~llv~~~~i~~~~~~rr~ 89 (352)
|+.+++.|++.++|...+|||.
T Consensus 266 lvllil~vvliiLYiWlyrrRK 287 (295)
T TIGR01478 266 LVLIILTVVLIILYIWLYRRRK 287 (295)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 3333333444444444445543
No 198
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=27.48 E-value=2.1e+02 Score=22.80 Aligned_cols=38 Identities=26% Similarity=0.506 Sum_probs=29.5
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
...|.-|...+.--+. .| |-.|+..+-.|..|+++|..
T Consensus 33 rS~C~~C~~~L~~~~l---IP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDL---IP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCccccc---ch----------HHHHHHhCCCCcccCCCCCh
Confidence 4579999888776443 46 77899888899999998753
No 199
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=27.44 E-value=1e+02 Score=22.50 Aligned_cols=8 Identities=25% Similarity=0.405 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 036833 63 AVIGILAS 70 (352)
Q Consensus 63 ~iigil~~ 70 (352)
++++++++
T Consensus 24 il~~f~~G 31 (68)
T PF06305_consen 24 ILIAFLLG 31 (68)
T ss_pred HHHHHHHH
Confidence 33333333
No 200
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=27.34 E-value=50 Score=26.67 Aligned_cols=34 Identities=24% Similarity=0.360 Sum_probs=22.0
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHH
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTW 174 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W 174 (352)
...|.||......--..... .|...||..|...+
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~-~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHP-GCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCCC-CCCcCCCHHHHHHC
Confidence 45799999873221122222 48889999998664
No 201
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=27.32 E-value=80 Score=32.14 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHhhccCc
Q 036833 71 AFILVTYYTIISKYCKRRSD 90 (352)
Q Consensus 71 ~~llv~~~~i~~~~~~rr~~ 90 (352)
+.++++++.++.++|.|+..
T Consensus 32 l~Ll~ll~yl~~~CC~r~~~ 51 (406)
T PF04906_consen 32 LSLLFLLIYLICRCCCRRPR 51 (406)
T ss_pred HHHHHHHHHHHHHhhCCCCC
Confidence 33434444444555655533
No 202
>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=27.09 E-value=26 Score=25.92 Aligned_cols=36 Identities=19% Similarity=0.444 Sum_probs=17.1
Q ss_pred CCCCCcccccccccCcceeccCCCCCcccHhHHHHH
Q 036833 139 EGSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTW 174 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~W 174 (352)
+...|.+|...|..-..-..-..||++|+..|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 456899999999653222222259999998887544
No 203
>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=27.04 E-value=1.5e+02 Score=23.83 Aligned_cols=20 Identities=20% Similarity=0.227 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 036833 61 IIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 61 ii~iigil~~~~llv~~~~i 80 (352)
+.+++++++.++++.+..+.
T Consensus 37 ~lvI~~iFil~VilwfvCC~ 56 (94)
T PF05393_consen 37 FLVICGIFILLVILWFVCCK 56 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433
No 204
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=26.72 E-value=46 Score=33.34 Aligned_cols=25 Identities=24% Similarity=0.448 Sum_probs=16.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYT 79 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~ 79 (352)
..|++++|.++++.+++-+++++..
T Consensus 313 d~~S~lvi~i~~vgLG~P~l~li~G 337 (350)
T PF15065_consen 313 DSFSPLVIMIMAVGLGVPLLLLILG 337 (350)
T ss_pred cchhHHHHHHHHHHhhHHHHHHHHh
Confidence 4578888877777766655554443
No 205
>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=26.71 E-value=60 Score=35.01 Aligned_cols=34 Identities=12% Similarity=0.265 Sum_probs=16.3
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCc
Q 036833 54 GTDFSPLIIAVIGILASAFILVTYYTIISKYCKRRSD 90 (352)
Q Consensus 54 ~~~f~~lii~iigil~~~~llv~~~~i~~~~~~rr~~ 90 (352)
..+.|+++.+++.+++++++++++ +.++|++.+.
T Consensus 266 ~~NlWII~gVlvPv~vV~~Iiiil---~~~LCRk~K~ 299 (684)
T PF12877_consen 266 PNNLWIIAGVLVPVLVVLLIIIIL---YWKLCRKNKL 299 (684)
T ss_pred CCCeEEEehHhHHHHHHHHHHHHH---HHHHhccccc
Confidence 456666555554444443333333 3345655443
No 206
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=26.49 E-value=72 Score=25.24 Aligned_cols=14 Identities=29% Similarity=0.441 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHH
Q 036833 69 ASAFILVTYYTIIS 82 (352)
Q Consensus 69 ~~~~llv~~~~i~~ 82 (352)
+.+|+++++|+++.
T Consensus 77 ~~~f~~~v~yI~~r 90 (92)
T PF03908_consen 77 FLFFLLVVLYILWR 90 (92)
T ss_pred HHHHHHHHHHHhhh
Confidence 44556666666543
No 207
>PF11884 DUF3404: Domain of unknown function (DUF3404); InterPro: IPR021821 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 260 amino acids in length. This domain is found associated with PF02518 from PFAM, PF00512 from PFAM.
Probab=26.46 E-value=1.1e+02 Score=29.36 Aligned_cols=29 Identities=28% Similarity=0.411 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 60 LIIAVIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i~~~~~~rr 88 (352)
+.+.+++++++.+++++.+.++.+..+||
T Consensus 231 ~~~~~i~L~~~~i~l~~gw~~y~~~~krr 259 (262)
T PF11884_consen 231 LRISMIALVLANILLVLGWSLYRWNQKRR 259 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555566666677766655554
No 208
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=26.33 E-value=33 Score=22.61 Aligned_cols=13 Identities=15% Similarity=0.746 Sum_probs=9.1
Q ss_pred CCcccccccccCc
Q 036833 142 DCSVCLSEFQEHE 154 (352)
Q Consensus 142 ~C~ICl~~~~~~~ 154 (352)
+|+=|...|...+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5777877776654
No 209
>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=26.33 E-value=22 Score=36.05 Aligned_cols=26 Identities=35% Similarity=0.942 Sum_probs=0.0
Q ss_pred ccCCCCCcccHhHHHHHHh------cCCCCcccccc
Q 036833 158 LLPKCNHAFHLPCIDTWLK------SHSSCPLCRAT 187 (352)
Q Consensus 158 ~lp~C~H~FH~~Ci~~Wl~------~~~~CP~CR~~ 187 (352)
.| +|||++-. ..|-. ....||+||..
T Consensus 306 Yl-~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 306 YL-NCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ------------------------------------
T ss_pred ec-cccceeee---cccccccccccccccCCCcccc
Confidence 45 59998542 35642 13579999874
No 210
>PTZ00370 STEVOR; Provisional
Probab=26.25 E-value=75 Score=30.99 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHhhccC
Q 036833 73 ILVTYYTIISKYCKRRS 89 (352)
Q Consensus 73 llv~~~~i~~~~~~rr~ 89 (352)
+.|++.++|...+|||.
T Consensus 267 l~vvliilYiwlyrrRK 283 (296)
T PTZ00370 267 LAVVLIILYIWLYRRRK 283 (296)
T ss_pred HHHHHHHHHHHHHHhhc
Confidence 33334444444444443
No 211
>PHA02692 hypothetical protein; Provisional
Probab=26.02 E-value=1.7e+02 Score=22.46 Aligned_cols=29 Identities=21% Similarity=-0.031 Sum_probs=16.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~~~ 83 (352)
...+.+.+.++..++.+++++++..+|.|
T Consensus 40 ~~~~~~~~~ii~~~~~~~~~vll~flYLK 68 (70)
T PHA02692 40 SKGVPWTTVFLIGLIAAAIGVLLCFHYLK 68 (70)
T ss_pred cCCcchHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45677787777744444444444444433
No 212
>PRK11677 hypothetical protein; Provisional
Probab=25.61 E-value=61 Score=28.02 Aligned_cols=22 Identities=18% Similarity=0.147 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAFILVTYYTII 81 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i~ 81 (352)
|+++++++++++++.+++..+.
T Consensus 3 W~~a~i~livG~iiG~~~~R~~ 24 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFG 24 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 4566667666666666555543
No 213
>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=25.53 E-value=34 Score=21.95 Aligned_cols=19 Identities=26% Similarity=0.632 Sum_probs=11.6
Q ss_pred CCCcccHhHHHHHHhcCCCCccccc
Q 036833 162 CNHAFHLPCIDTWLKSHSSCPLCRA 186 (352)
Q Consensus 162 C~H~FH~~Ci~~Wl~~~~~CP~CR~ 186 (352)
|||++-..- ....||+|.+
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666654332 2347999965
No 214
>TIGR03758 conj_TIGR03758 integrating conjugative element protein, PFL_4701 family. Members of this family of small, hydrophobic proteins are found occasionally on plasmids such as the Pseudomonas putida TOL (toluene catabolic) plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=25.45 E-value=1.8e+02 Score=22.08 Aligned_cols=35 Identities=17% Similarity=0.385 Sum_probs=26.5
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 036833 53 SGTDFSPLIIAVIGILASAFILVTYYTIISKYCKR 87 (352)
Q Consensus 53 s~~~f~~lii~iigil~~~~llv~~~~i~~~~~~r 87 (352)
|+..-..+-.+++|++++++++...+.++.-|+.-
T Consensus 12 SG~~p~~l~~l~lG~~~~vllLW~aWal~~ayrGW 46 (65)
T TIGR03758 12 SGIDPQAMNTLILGLVLAVLFLWGAWALLTAYRGW 46 (65)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445566778899999999999999888777653
No 215
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=25.44 E-value=73 Score=33.80 Aligned_cols=13 Identities=23% Similarity=0.319 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHHH
Q 036833 63 AVIGILASAFILV 75 (352)
Q Consensus 63 ~iigil~~~~llv 75 (352)
++|+|++++++++
T Consensus 5 ~ii~i~ii~i~~~ 17 (569)
T PRK04778 5 LIIAIVVIIIIAY 17 (569)
T ss_pred HHHHHHHHHHHHH
Confidence 3334333333333
No 216
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=25.40 E-value=1.8e+02 Score=19.50 Aligned_cols=25 Identities=16% Similarity=0.232 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 64 VIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 64 iigil~~~~llv~~~~i~~~~~~rr 88 (352)
+.||++.++.+.+.-.++.-|.+-|
T Consensus 6 L~GiVlGli~vtl~Glfv~Ay~QY~ 30 (37)
T PF02529_consen 6 LSGIVLGLIPVTLAGLFVAAYLQYR 30 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHh
Confidence 3445444444444444444444433
No 217
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=25.25 E-value=99 Score=27.64 Aligned_cols=22 Identities=18% Similarity=0.303 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 036833 59 PLIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 59 ~lii~iigil~~~~llv~~~~i 80 (352)
-.+++++|+.+.+++++++..+
T Consensus 96 R~~~Vl~g~s~l~i~yfvir~~ 117 (163)
T PF06679_consen 96 RALYVLVGLSALAILYFVIRTF 117 (163)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555444
No 218
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.98 E-value=82 Score=27.16 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=20.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 56 DFSPLIIAVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 56 ~f~~lii~iigil~~~~llv~~~~i~~~ 83 (352)
.|..+++++||+++++++.+++..+...
T Consensus 4 t~~~W~~a~igLvvGi~IG~li~Rlt~~ 31 (138)
T COG3105 4 TFMTWEYALIGLVVGIIIGALIARLTNR 31 (138)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcch
Confidence 4566778888888888887777766443
No 219
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=24.85 E-value=46 Score=23.73 Aligned_cols=23 Identities=30% Similarity=0.827 Sum_probs=13.2
Q ss_pred CCCCcccHhHHHHHHhcCCCCccc
Q 036833 161 KCNHAFHLPCIDTWLKSHSSCPLC 184 (352)
Q Consensus 161 ~C~H~FH~~Ci~~Wl~~~~~CP~C 184 (352)
.|||.|...=-.. ......||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-ccCCCCCCCC
Confidence 4677665443322 2445679988
No 220
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=24.84 E-value=1.3e+02 Score=27.76 Aligned_cols=10 Identities=20% Similarity=0.109 Sum_probs=3.8
Q ss_pred hHHHHHHHHH
Q 036833 59 PLIIAVIGIL 68 (352)
Q Consensus 59 ~lii~iigil 68 (352)
.+++.+|.++
T Consensus 55 ~l~w~~I~Fl 64 (204)
T PRK09174 55 QLLWLAITFG 64 (204)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 221
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=24.78 E-value=1.4e+02 Score=19.97 Aligned_cols=25 Identities=8% Similarity=0.162 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 64 VIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 64 iigil~~~~llv~~~~i~~~~~~rr 88 (352)
+.||++.++.+.+.-.++.-|.+.|
T Consensus 6 L~GiVLGlipiTl~GlfvaAylQYr 30 (37)
T PRK00665 6 LCGIVLGLIPVTLAGLFVAAWNQYK 30 (37)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHh
Confidence 3455555444444444444444433
No 222
>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=24.61 E-value=45 Score=25.35 Aligned_cols=12 Identities=25% Similarity=0.969 Sum_probs=8.7
Q ss_pred cccHhHHHHHHh
Q 036833 165 AFHLPCIDTWLK 176 (352)
Q Consensus 165 ~FH~~Ci~~Wl~ 176 (352)
-||..|+..|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 223
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=24.41 E-value=51 Score=20.50 Aligned_cols=29 Identities=21% Similarity=0.485 Sum_probs=10.0
Q ss_pred CCcccccccccCcceeccCCCCCcccHhHH
Q 036833 142 DCSVCLSEFQEHESLRLLPKCNHAFHLPCI 171 (352)
Q Consensus 142 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci 171 (352)
.|.+|-.....+..-.-. .|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~-~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS-ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T-TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc-cCCCccChhcC
Confidence 477888776652333444 49999999985
No 224
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.21 E-value=78 Score=31.34 Aligned_cols=49 Identities=20% Similarity=0.608 Sum_probs=33.4
Q ss_pred CCCCcccccccc---------------cCc-ceeccCCCCCcccHhHHHHHHhc---------CCCCcccccccc
Q 036833 140 GSDCSVCLSEFQ---------------EHE-SLRLLPKCNHAFHLPCIDTWLKS---------HSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~---------------~~~-~~~~lp~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~i~ 189 (352)
..+|++|+..=. .|. .....| |||+.-..-..-|-+. +..||.|-+.+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 467999997511 010 123566 9999988888899752 346999977664
No 225
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=23.99 E-value=1.2e+02 Score=23.74 Aligned_cols=19 Identities=16% Similarity=0.219 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAFILVTYY 78 (352)
Q Consensus 60 lii~iigil~~~~llv~~~ 78 (352)
+.+.++|+.+++++|++++
T Consensus 8 ~~l~v~GM~~VF~fL~lLi 26 (82)
T TIGR01195 8 ATLTVLGMGIVFLFLSLLI 26 (82)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455666666555554433
No 226
>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=23.97 E-value=70 Score=34.55 Aligned_cols=36 Identities=22% Similarity=0.288 Sum_probs=20.6
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCccc
Q 036833 55 TDFSPLIIAVIGILASAFILVTYYTIISKYCKRRSDET 92 (352)
Q Consensus 55 ~~f~~lii~iigil~~~~llv~~~~i~~~~~~rr~~~~ 92 (352)
..-..-+++|+|+++. +++++++++..|+.--+.+.
T Consensus 263 ~s~~~NlWII~gVlvP--v~vV~~Iiiil~~~LCRk~K 298 (684)
T PF12877_consen 263 KSPPNNLWIIAGVLVP--VLVVLLIIIILYWKLCRKNK 298 (684)
T ss_pred CCCCCCeEEEehHhHH--HHHHHHHHHHHHHHHhcccc
Confidence 3334456666676543 33445667777777665444
No 227
>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=23.86 E-value=63 Score=22.72 Aligned_cols=35 Identities=20% Similarity=0.399 Sum_probs=23.5
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHH
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWL 175 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl 175 (352)
..|.+|-..|.....-..-..||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46899988876643222222599999999876653
No 228
>PF15018 InaF-motif: TRP-interacting helix
Probab=23.75 E-value=94 Score=21.05 Aligned_cols=24 Identities=17% Similarity=0.416 Sum_probs=15.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFILVTYYTII 81 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i~ 81 (352)
-.++..++++-++++++.+||.++
T Consensus 8 ~tV~~Yl~~VSl~Ai~LsiYY~f~ 31 (38)
T PF15018_consen 8 LTVVAYLFSVSLAAIVLSIYYIFF 31 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhee
Confidence 344555667777777777777664
No 229
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=23.74 E-value=1.4e+02 Score=23.49 Aligned_cols=54 Identities=20% Similarity=0.500 Sum_probs=20.2
Q ss_pred CCCCCcccccccccCc--ceec-cCCCCCcccHhHHHHHHh-cCCCCcccccccccCC
Q 036833 139 EGSDCSVCLSEFQEHE--SLRL-LPKCNHAFHLPCIDTWLK-SHSSCPLCRATIISFP 192 (352)
Q Consensus 139 ~~~~C~ICl~~~~~~~--~~~~-lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~i~~~~ 192 (352)
....|-||-+++.... .+.+ .-.|+--.+..|..-=.+ .++.||-|++......
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHK 65 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----T
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccccc
Confidence 3457999998864422 1222 113666678888876553 4778999998876543
No 230
>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=23.71 E-value=11 Score=36.22 Aligned_cols=45 Identities=24% Similarity=0.299 Sum_probs=20.2
Q ss_pred CCCCcccccccccCcceeccC--CCCCcccHhHHHHHHhcCCCCcccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLP--KCNHAFHLPCIDTWLKSHSSCPLCR 185 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp--~C~H~FH~~Ci~~Wl~~~~~CP~CR 185 (352)
...|+||-.....+. ++.-. +-.|.+|.-|-..|-.....||.|-
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg 218 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCG 218 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT-
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCC
Confidence 468999988754321 11110 1235677788889977777899993
No 231
>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=23.70 E-value=60 Score=26.39 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=4.4
Q ss_pred CccccCCCcee
Q 036833 17 TYKDCSQAICS 27 (352)
Q Consensus 17 ~~~~~~~g~~~ 27 (352)
+..|| +|.-+
T Consensus 5 ~~g~c-~g~~s 14 (98)
T PF07204_consen 5 SSGSC-NGATS 14 (98)
T ss_pred CCCCc-ccHHH
Confidence 34555 24444
No 232
>PRK01844 hypothetical protein; Provisional
Probab=23.60 E-value=1.6e+02 Score=22.78 Aligned_cols=27 Identities=19% Similarity=0.224 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036833 60 LIIAVIGILASAFILVTYYTIISKYCK 86 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i~~~~~~ 86 (352)
+++++++|++.++-++.-|++-+++..
T Consensus 4 ~~~I~l~I~~li~G~~~Gff~ark~~~ 30 (72)
T PRK01844 4 WLGILVGVVALVAGVALGFFIARKYMM 30 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666555555555555444443
No 233
>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=23.47 E-value=99 Score=30.30 Aligned_cols=30 Identities=27% Similarity=0.311 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHH-HHHHHhhcc
Q 036833 59 PLIIAVIGILASAFILVTYYT-IISKYCKRR 88 (352)
Q Consensus 59 ~lii~iigil~~~~llv~~~~-i~~~~~~rr 88 (352)
.+-.++++.++++++++++.+ +|..++.||
T Consensus 253 ~~~t~I~aSiiaIliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 253 SLTTAIIASIIAILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555444 444444444
No 234
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=23.27 E-value=1.5e+02 Score=19.83 Aligned_cols=24 Identities=13% Similarity=0.235 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 036833 64 VIGILASAFILVTYYTIISKYCKR 87 (352)
Q Consensus 64 iigil~~~~llv~~~~i~~~~~~r 87 (352)
+.||++.++.+.+.-.++.-|.+.
T Consensus 6 L~GiVLGlipvTl~GlfvaAylQY 29 (37)
T CHL00008 6 LFGIVLGLIPITLAGLFVTAYLQY 29 (37)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHH
Confidence 344444444444444444444433
No 235
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=23.27 E-value=1.3e+02 Score=23.93 Aligned_cols=21 Identities=10% Similarity=0.121 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i 80 (352)
+.+.++|+.+++++|++++.+
T Consensus 12 ~~lm~~GM~~VF~fL~lLi~~ 32 (85)
T PRK03814 12 ATLMLTGMGVVFIFLTLLVYL 32 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345666776666655555444
No 236
>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=23.18 E-value=29 Score=24.67 Aligned_cols=11 Identities=36% Similarity=0.981 Sum_probs=5.7
Q ss_pred CCccccccccc
Q 036833 180 SCPLCRATIIS 190 (352)
Q Consensus 180 ~CP~CR~~i~~ 190 (352)
.||+|.+++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999988754
No 237
>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=23.16 E-value=78 Score=25.23 Aligned_cols=33 Identities=21% Similarity=0.385 Sum_probs=15.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 036833 57 FSPLIIAVIGILASAFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 57 f~~lii~iigil~~~~llv~~~~i~~~~~~rr~ 89 (352)
+.++++.+|+..++.++++.+...+..||.|.+
T Consensus 12 lp~~~yyiiA~gga~llL~~v~l~vvL~C~r~~ 44 (87)
T PF11980_consen 12 LPPYWYYIIAMGGALLLLVAVCLGVVLYCHRFH 44 (87)
T ss_pred CCceeeHHHhhccHHHHHHHHHHHHHHhhhhhc
Confidence 344445555555555555544434444454443
No 238
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=23.14 E-value=67 Score=27.67 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=5.6
Q ss_pred ccCCCceeee
Q 036833 20 DCSQAICSIY 29 (352)
Q Consensus 20 ~~~~g~~~~~ 29 (352)
-|-+|.|...
T Consensus 52 YClHG~C~yI 61 (139)
T PHA03099 52 YCLHGDCIHA 61 (139)
T ss_pred EeECCEEEee
Confidence 3666666543
No 239
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=22.67 E-value=1.7e+02 Score=23.05 Aligned_cols=8 Identities=50% Similarity=0.563 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 036833 61 IIAVIGIL 68 (352)
Q Consensus 61 ii~iigil 68 (352)
+.+++.|+
T Consensus 44 l~a~~iI~ 51 (84)
T PRK13718 44 LAAVFVIL 51 (84)
T ss_pred HHHHHHHH
Confidence 33333344
No 240
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.60 E-value=24 Score=30.58 Aligned_cols=51 Identities=25% Similarity=0.586 Sum_probs=26.3
Q ss_pred CCcCCCCCcccccc-cccCcceeccCCCCCcccHhHHHHH-HhcCC---CCcccccc
Q 036833 136 GLVEGSDCSVCLSE-FQEHESLRLLPKCNHAFHLPCIDTW-LKSHS---SCPLCRAT 187 (352)
Q Consensus 136 ~~~~~~~C~ICl~~-~~~~~~~~~lp~C~H~FH~~Ci~~W-l~~~~---~CP~CR~~ 187 (352)
+..+..+|-||+.. |.+|-.....- |.--||..|--.- |++++ .|-+|+..
T Consensus 61 Gv~ddatC~IC~KTKFADG~GH~C~Y-Cq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFADGCGHNCSY-CQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred ccCcCcchhhhhhcccccccCcccch-hhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 44456789999864 54432222221 3333555554433 23333 48888754
No 241
>PF01307 Plant_vir_prot: Plant viral movement protein; InterPro: IPR001896 This family of membrane/coat proteins are found in a number of different ssRNA plant virus families that include Potexvirus, Hordeivirus and Carlavirus.
Probab=22.52 E-value=97 Score=25.55 Aligned_cols=8 Identities=38% Similarity=1.194 Sum_probs=4.8
Q ss_pred CCCCcccc
Q 036833 178 HSSCPLCR 185 (352)
Q Consensus 178 ~~~CP~CR 185 (352)
...|+.|.
T Consensus 97 ~~~C~~C~ 104 (104)
T PF01307_consen 97 RRRCPHCS 104 (104)
T ss_pred CCcCCCCC
Confidence 34677773
No 242
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.45 E-value=42 Score=29.74 Aligned_cols=44 Identities=25% Similarity=0.477 Sum_probs=29.7
Q ss_pred cccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccccc
Q 036833 144 SVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATIIS 190 (352)
Q Consensus 144 ~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i~~ 190 (352)
.||+.--...+....-|.=.+.||..|-..-.. .||.|.++|.-
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG 51 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRG 51 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCC
Confidence 366665444444444444557799999888765 59999888754
No 243
>PHA03286 envelope glycoprotein E; Provisional
Probab=22.25 E-value=1.2e+02 Score=31.50 Aligned_cols=34 Identities=21% Similarity=0.265 Sum_probs=15.6
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 036833 56 DFSPLIIAVIGILASAFILVTYYTIISKYCKRRS 89 (352)
Q Consensus 56 ~f~~lii~iigil~~~~llv~~~~i~~~~~~rr~ 89 (352)
....+++.-+++.++++++++.+++...|+|||+
T Consensus 387 ~~~~~l~~s~~~~~~~~~~~~~~~~~~~~~r~~~ 420 (492)
T PHA03286 387 VIYSLLVSSMAAGAILVVLLFALCIAGLYRRRRR 420 (492)
T ss_pred EEHHHHHHHHHHHHHHHHHHHHHHhHhHhhhhhh
Confidence 3444555555555544444444444333433333
No 244
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=21.99 E-value=1.3e+02 Score=26.65 Aligned_cols=34 Identities=12% Similarity=0.299 Sum_probs=14.4
Q ss_pred CchhHHHHHHHHHHHHHHH-HHHHHHHHHHhhccC
Q 036833 56 DFSPLIIAVIGILASAFIL-VTYYTIISKYCKRRS 89 (352)
Q Consensus 56 ~f~~lii~iigil~~~~ll-v~~~~i~~~~~~rr~ 89 (352)
+|+.+++.+|.+++.++++ .++|--+......|+
T Consensus 17 ~~~t~~~~iInFliL~~lL~~~l~~pi~~~l~~R~ 51 (173)
T PRK13453 17 EWGTVIVTVLTFIVLLALLKKFAWGPLKDVMDKRE 51 (173)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555555555444433333 223333444444443
No 245
>PF11157 DUF2937: Protein of unknown function (DUF2937); InterPro: IPR022584 This family of proteins with unknown function appears to be found mainly in Proteobacteria.
Probab=21.81 E-value=1.6e+02 Score=26.31 Aligned_cols=32 Identities=16% Similarity=0.388 Sum_probs=18.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 57 FSPLIIAVIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 57 f~~lii~iigil~~~~llv~~~~i~~~~~~rr 88 (352)
...+++.+++.++..+++-++..++.+.++||
T Consensus 133 ~~gi~~g~vg~l~~~~l~~~l~~l~~~~~rr~ 164 (167)
T PF11157_consen 133 PEGIVFGLVGALLGALLVELLLGLLRRPFRRR 164 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34556666666666666666666555554444
No 246
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=21.80 E-value=1.1e+02 Score=26.06 Aligned_cols=17 Identities=12% Similarity=0.278 Sum_probs=6.6
Q ss_pred CCCCchhHHHHHHHHHH
Q 036833 53 SGTDFSPLIIAVIGILA 69 (352)
Q Consensus 53 s~~~f~~lii~iigil~ 69 (352)
+..+++++.+.++++++
T Consensus 33 tpWNysiL~Ls~vvlvi 49 (125)
T PF15048_consen 33 TPWNYSILALSFVVLVI 49 (125)
T ss_pred CCcchHHHHHHHHHHHH
Confidence 34344444333333333
No 247
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=21.58 E-value=1.3e+02 Score=24.13 Aligned_cols=14 Identities=14% Similarity=0.159 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHH
Q 036833 67 ILASAFILVTYYTI 80 (352)
Q Consensus 67 il~~~~llv~~~~i 80 (352)
.+++++++++.|.+
T Consensus 9 ~~~~v~~~i~~y~~ 22 (87)
T PF10883_consen 9 GVGAVVALILAYLW 22 (87)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333444433433
No 248
>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=21.55 E-value=31 Score=35.02 Aligned_cols=49 Identities=20% Similarity=0.560 Sum_probs=0.0
Q ss_pred CCCCcccccccc-------------cC---cceeccCCCCCcccHhHHHHHHhc---------CCCCcccccccc
Q 036833 140 GSDCSVCLSEFQ-------------EH---ESLRLLPKCNHAFHLPCIDTWLKS---------HSSCPLCRATII 189 (352)
Q Consensus 140 ~~~C~ICl~~~~-------------~~---~~~~~lp~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~i~ 189 (352)
..+|++|+..=. .+ -.....| |||+--.....-|-+. +..||.|-..|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 568999997511 11 1234567 9999999999999642 246999988775
No 249
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=21.39 E-value=37 Score=33.03 Aligned_cols=31 Identities=19% Similarity=0.246 Sum_probs=14.2
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 54 GTDFSPLIIAVIGILASAFILVTYYTIISKY 84 (352)
Q Consensus 54 ~~~f~~lii~iigil~~~~llv~~~~i~~~~ 84 (352)
+.+.+--++.+|.++.++++++++.+++.|+
T Consensus 270 s~S~s~~l~piil~IG~vl~i~~Ig~~ifK~ 300 (305)
T PF04639_consen 270 SKSVSDSLLPIILIIGGVLLIVFIGYFIFKR 300 (305)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhhheeeEe
Confidence 3344444454544444444444444444443
No 250
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=21.39 E-value=1.3e+02 Score=26.65 Aligned_cols=26 Identities=23% Similarity=0.329 Sum_probs=12.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036833 58 SPLIIAVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 58 ~~lii~iigil~~~~llv~~~~i~~~ 83 (352)
..+..+++|++..++..+++++++.|
T Consensus 8 ~~~~~i~iGl~~f~iYyfvF~flI~k 33 (161)
T PRK09702 8 MMLTQIAIGLCFTLLYFVVFRTLILQ 33 (161)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566665544444444444433
No 251
>PF08119 Toxin_31: Scorpion acidic alpha-KTx toxin family; InterPro: IPR012635 This entry represents proteins that are acidic alpha-KTx short chain scorpion toxins. These toxins are named parabutoxins, that binds and inhibit voltage-sensitive potassium channels and inhibit the vertebrate potassium channel Kv1.1 with low affinity. Furthermore, they lack the crucial pore-plugging lysine. In addition, the second important residue of the dyad, the hydrophobic residue (Phe or Tyr) is also missing [].; GO: 0019870 potassium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region
Probab=21.32 E-value=60 Score=21.07 Aligned_cols=19 Identities=37% Similarity=0.920 Sum_probs=14.5
Q ss_pred CccccCCCceeeecCCCce
Q 036833 17 TYKDCSQAICSIYCPQGCY 35 (352)
Q Consensus 17 ~~~~~~~g~~~~~~p~~~~ 35 (352)
+-..||+..|.+||----|
T Consensus 4 pketcsdemcviyckgeey 22 (37)
T PF08119_consen 4 PKETCSDEMCVIYCKGEEY 22 (37)
T ss_pred ccccccCceEEEEecCcee
Confidence 4467999999999965443
No 252
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=21.28 E-value=17 Score=30.53 Aligned_cols=8 Identities=75% Similarity=1.278 Sum_probs=0.0
Q ss_pred HHhhccCc
Q 036833 83 KYCKRRSD 90 (352)
Q Consensus 83 ~~~~rr~~ 90 (352)
.||+||..
T Consensus 45 WYckRRSG 52 (118)
T PF14991_consen 45 WYCKRRSG 52 (118)
T ss_dssp --------
T ss_pred eeeeecch
Confidence 35666654
No 253
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=21.23 E-value=66 Score=31.81 Aligned_cols=47 Identities=9% Similarity=-0.045 Sum_probs=32.7
Q ss_pred CCcCCCCCcccccccccCcceeccCCCCCc-ccHhHHHHHHhcCCCCccccccc
Q 036833 136 GLVEGSDCSVCLSEFQEHESLRLLPKCNHA-FHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 136 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
++....+|..|-...-. ..+.+ |+|. |+-.|.. +.-..+||+|-+..
T Consensus 339 ~~~s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred cchhhcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 33345678888766543 45566 9998 8888877 45567899997654
No 254
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=21.19 E-value=1.7e+02 Score=23.96 Aligned_cols=37 Identities=11% Similarity=-0.002 Sum_probs=0.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcccc
Q 036833 57 FSPLIIAVIGILASAFILVTYYTIISKYCKRRSDETG 93 (352)
Q Consensus 57 f~~lii~iigil~~~~llv~~~~i~~~~~~rr~~~~~ 93 (352)
|+.+++.+|+|+++.+.+...+.-..++..++++...
T Consensus 22 w~FWlv~~liill~c~c~~~~~r~r~~~~~q~rq~e~ 58 (102)
T PF11669_consen 22 WYFWLVWVLIILLSCCCACRHRRRRRRLQQQQRQREI 58 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccc
No 255
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=21.10 E-value=89 Score=28.52 Aligned_cols=23 Identities=13% Similarity=0.103 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 036833 63 AVIGILASAFILVTYYTIISKYC 85 (352)
Q Consensus 63 ~iigil~~~~llv~~~~i~~~~~ 85 (352)
+|-||++++-++.++|++|+.|+
T Consensus 163 FiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 163 FIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhHHHHHHHHHHHHHHHhhhcc
No 256
>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=21.05 E-value=1.6e+02 Score=27.93 Aligned_cols=27 Identities=19% Similarity=0.392 Sum_probs=11.4
Q ss_pred chhHHH-HHHHHHHHHHHHHHHHHHHHH
Q 036833 57 FSPLII-AVIGILASAFILVTYYTIISK 83 (352)
Q Consensus 57 f~~lii-~iigil~~~~llv~~~~i~~~ 83 (352)
++.+|+ ++|+++++.++++++..+|+.
T Consensus 186 ~S~vilpvvIaliVitl~vf~LvgLyr~ 213 (259)
T PF07010_consen 186 YSSVILPVVIALIVITLSVFTLVGLYRM 213 (259)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344443 344444444444444444433
No 257
>PLN02436 cellulose synthase A
Probab=20.80 E-value=1.3e+02 Score=34.53 Aligned_cols=53 Identities=21% Similarity=0.549 Sum_probs=34.8
Q ss_pred CCCCccccccccc---CcceeccCCCCCcccHhHHHHHH-hcCCCCcccccccccCC
Q 036833 140 GSDCSVCLSEFQE---HESLRLLPKCNHAFHLPCIDTWL-KSHSSCPLCRATIISFP 192 (352)
Q Consensus 140 ~~~C~ICl~~~~~---~~~~~~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~i~~~~ 192 (352)
...|-||-+++.. |+.-.-...|+--.|..|.+-=- ..++.||.|++......
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 3479999998633 33222222366668999985433 34678999999887544
No 258
>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=20.63 E-value=79 Score=29.55 Aligned_cols=21 Identities=29% Similarity=0.539 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036833 60 LIIAVIGILASAFILVTYYTI 80 (352)
Q Consensus 60 lii~iigil~~~~llv~~~~i 80 (352)
+|=++|||++++++++.+++|
T Consensus 15 iLNiaI~IV~lLIiiva~~lf 35 (217)
T PF07423_consen 15 ILNIAIGIVSLLIIIVAYQLF 35 (217)
T ss_pred hHHHHHHHHHHHHHHHhhhhe
Confidence 333444444443444444433
No 259
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=20.50 E-value=64 Score=30.92 Aligned_cols=41 Identities=17% Similarity=0.345 Sum_probs=29.4
Q ss_pred CCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCC--CCccc
Q 036833 141 SDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHS--SCPLC 184 (352)
Q Consensus 141 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~--~CP~C 184 (352)
..|+|-+..+... + +-.+|||+|-.+-|...+.... .||+=
T Consensus 177 ~rdPis~~~I~nP--v-iSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--V-ISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhch--h-hhcCcCcchhhhhHHHHhccCceeecccc
Confidence 5688887776653 2 2236999999999999986633 47763
No 260
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=20.37 E-value=31 Score=33.58 Aligned_cols=39 Identities=26% Similarity=0.756 Sum_probs=29.8
Q ss_pred CCCCcccccccccCcceeccCCCCCcccHhHHHHHHhcCCCCccccccc
Q 036833 140 GSDCSVCLSEFQEHESLRLLPKCNHAFHLPCIDTWLKSHSSCPLCRATI 188 (352)
Q Consensus 140 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~i 188 (352)
++.|+.|.+-+-..+.+|.. =.|+||.+|.. |-+|.+.+
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L 130 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQL 130 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhccc
Confidence 46799999998887777764 57999999954 66665554
No 261
>PF11660 DUF3262: Protein of unknown function (DUF3262); InterPro: IPR021676 This entry represents small, hydrophobic proteins that are found occasionally on plasmids such as the Pseudomonas putida TOL (toluene catabolic) plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=20.33 E-value=2.4e+02 Score=21.77 Aligned_cols=36 Identities=28% Similarity=0.394 Sum_probs=27.4
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 036833 53 SGTDFSPLIIAVIGILASAFILVTYYTIISKYCKRR 88 (352)
Q Consensus 53 s~~~f~~lii~iigil~~~~llv~~~~i~~~~~~rr 88 (352)
++.+...+-++++|++++++++...|.+...|+.-.
T Consensus 13 sG~~p~~l~~li~g~~~avllLW~aWa~~~~y~Gw~ 48 (76)
T PF11660_consen 13 SGFTPSQLSLLILGILFAVLLLWAAWALWSAYRGWA 48 (76)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556677888899999999999998888776543
Done!