Query 047964
Match_columns 168
No_of_seqs 147 out of 2034
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 04:59:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047964.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047964hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 9.3E-16 2E-20 122.4 8.9 77 47-127 203-279 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 1.4E-14 3E-19 83.3 2.4 44 78-122 1-44 (44)
3 KOG0317 Predicted E3 ubiquitin 99.3 1.1E-12 2.4E-17 101.5 5.3 58 69-130 231-288 (293)
4 COG5243 HRD1 HRD ubiquitin lig 99.3 6.2E-12 1.4E-16 100.2 8.3 51 74-125 284-344 (491)
5 COG5540 RING-finger-containing 99.3 3.5E-12 7.5E-17 99.2 3.9 52 76-127 322-373 (374)
6 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.2E-11 2.6E-16 78.7 3.7 45 77-122 19-73 (73)
7 PHA02929 N1R/p28-like protein; 99.2 2.4E-11 5.2E-16 93.3 5.8 51 75-126 172-227 (238)
8 PLN03208 E3 ubiquitin-protein 99.2 1E-11 2.3E-16 91.8 3.5 57 75-134 16-87 (193)
9 PF15227 zf-C3HC4_4: zinc fing 99.0 1.5E-10 3.2E-15 65.7 2.1 39 80-121 1-42 (42)
10 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.8E-10 3.9E-15 67.9 2.5 46 77-126 2-48 (50)
11 KOG0802 E3 ubiquitin ligase [P 99.0 7.5E-10 1.6E-14 94.9 6.8 54 75-129 289-344 (543)
12 KOG0823 Predicted E3 ubiquitin 99.0 1.6E-10 3.5E-15 87.1 2.2 57 74-133 44-102 (230)
13 cd00162 RING RING-finger (Real 99.0 8.7E-10 1.9E-14 62.6 4.0 45 79-125 1-45 (45)
14 PF13923 zf-C3HC4_2: Zinc fing 98.9 3.5E-10 7.6E-15 63.1 1.7 39 80-121 1-39 (39)
15 PHA02926 zinc finger-like prot 98.9 7.4E-10 1.6E-14 83.1 3.7 52 75-126 168-230 (242)
16 KOG0320 Predicted E3 ubiquitin 98.9 1.1E-09 2.4E-14 79.4 3.4 51 76-128 130-180 (187)
17 KOG0828 Predicted E3 ubiquitin 98.9 1.5E-09 3.2E-14 89.5 4.4 53 75-127 569-635 (636)
18 PF12861 zf-Apc11: Anaphase-pr 98.9 1.6E-09 3.4E-14 69.9 3.4 50 77-126 21-82 (85)
19 smart00504 Ubox Modified RING 98.9 3.4E-09 7.4E-14 65.1 4.2 55 78-136 2-56 (63)
20 TIGR00599 rad18 DNA repair pro 98.8 2.7E-09 5.9E-14 87.5 4.5 64 74-141 23-86 (397)
21 PF14634 zf-RING_5: zinc-RING 98.8 4E-09 8.6E-14 60.4 3.4 44 79-123 1-44 (44)
22 PF00097 zf-C3HC4: Zinc finger 98.8 2E-09 4.4E-14 60.6 2.0 40 80-121 1-41 (41)
23 smart00184 RING Ring finger. E 98.7 1.5E-08 3.3E-13 55.4 3.3 39 80-121 1-39 (39)
24 COG5574 PEX10 RING-finger-cont 98.7 9.8E-09 2.1E-13 78.8 3.0 53 75-130 213-266 (271)
25 KOG0287 Postreplication repair 98.7 1.2E-08 2.5E-13 80.9 3.1 66 76-145 22-87 (442)
26 KOG2164 Predicted E3 ubiquitin 98.6 1.9E-08 4.2E-13 83.5 2.4 51 77-130 186-240 (513)
27 PF04564 U-box: U-box domain; 98.5 5.6E-08 1.2E-12 61.7 2.6 65 77-144 4-68 (73)
28 KOG1734 Predicted RING-contain 98.5 4.1E-07 8.9E-12 70.2 6.3 57 75-131 222-286 (328)
29 TIGR00570 cdk7 CDK-activating 98.5 1.5E-07 3.2E-12 74.6 4.0 53 77-129 3-57 (309)
30 COG5432 RAD18 RING-finger-cont 98.4 9.3E-08 2E-12 74.5 2.2 52 77-132 25-76 (391)
31 PF13445 zf-RING_UBOX: RING-ty 98.4 2.9E-07 6.2E-12 52.3 2.8 34 80-114 1-35 (43)
32 COG5194 APC11 Component of SCF 98.4 4.5E-07 9.7E-12 57.3 3.4 28 97-125 53-80 (88)
33 KOG0824 Predicted E3 ubiquitin 98.3 4.9E-07 1.1E-11 70.8 3.5 52 77-131 7-58 (324)
34 KOG1493 Anaphase-promoting com 98.3 1.8E-07 3.9E-12 58.6 0.3 50 76-125 19-80 (84)
35 COG5219 Uncharacterized conser 98.2 5E-07 1.1E-11 79.9 2.1 54 73-126 1465-1523(1525)
36 KOG4172 Predicted E3 ubiquitin 98.2 4E-07 8.6E-12 53.4 0.6 46 77-125 7-53 (62)
37 KOG4265 Predicted E3 ubiquitin 98.2 1.5E-06 3.2E-11 69.7 3.5 47 75-125 288-335 (349)
38 KOG0804 Cytoplasmic Zn-finger 98.2 9.3E-07 2E-11 72.6 2.3 50 75-127 173-223 (493)
39 smart00744 RINGv The RING-vari 98.1 3.2E-06 6.8E-11 49.4 3.7 43 79-122 1-49 (49)
40 PF11793 FANCL_C: FANCL C-term 98.1 3.8E-07 8.1E-12 57.4 -0.5 49 77-125 2-65 (70)
41 KOG2177 Predicted E3 ubiquitin 98.1 1.1E-06 2.4E-11 68.8 1.9 45 75-123 11-55 (386)
42 KOG0978 E3 ubiquitin ligase in 98.1 1.5E-06 3.2E-11 75.5 1.6 53 76-131 642-694 (698)
43 PF14835 zf-RING_6: zf-RING of 98.0 1.4E-06 3E-11 53.1 0.0 56 77-137 7-62 (65)
44 KOG0827 Predicted E3 ubiquitin 97.9 6.4E-06 1.4E-10 66.6 2.0 46 77-122 4-52 (465)
45 KOG1039 Predicted E3 ubiquitin 97.8 1.1E-05 2.3E-10 65.3 2.2 51 75-125 159-220 (344)
46 KOG1785 Tyrosine kinase negati 97.7 1.1E-05 2.4E-10 65.6 0.7 50 75-127 367-417 (563)
47 KOG1645 RING-finger-containing 97.7 5.4E-05 1.2E-09 61.8 4.4 59 76-134 3-64 (463)
48 KOG0311 Predicted E3 ubiquitin 97.7 6.6E-06 1.4E-10 65.8 -0.8 49 76-126 42-90 (381)
49 KOG2930 SCF ubiquitin ligase, 97.7 3.7E-05 8.1E-10 51.1 2.8 28 97-125 80-107 (114)
50 KOG2879 Predicted E3 ubiquitin 97.5 0.00029 6.4E-09 54.8 5.7 50 75-126 237-287 (298)
51 KOG4159 Predicted E3 ubiquitin 97.4 0.00012 2.6E-09 60.4 3.1 49 75-127 82-130 (398)
52 KOG0297 TNF receptor-associate 97.3 0.00012 2.6E-09 60.7 2.4 55 75-132 19-73 (391)
53 KOG0825 PHD Zn-finger protein 97.3 7E-05 1.5E-09 65.6 0.3 48 78-126 124-171 (1134)
54 KOG2660 Locus-specific chromos 97.2 9E-05 2E-09 59.0 0.2 50 76-128 14-63 (331)
55 PF14570 zf-RING_4: RING/Ubox 97.1 0.00039 8.5E-09 40.1 2.1 46 80-125 1-47 (48)
56 KOG1428 Inhibitor of type V ad 97.1 0.00058 1.3E-08 63.6 3.8 53 75-127 3484-3545(3738)
57 KOG1941 Acetylcholine receptor 97.0 0.00026 5.6E-09 57.7 1.2 46 77-122 365-412 (518)
58 KOG0826 Predicted E3 ubiquitin 96.9 0.0062 1.3E-07 48.7 8.3 54 74-130 297-350 (357)
59 KOG1814 Predicted E3 ubiquitin 96.9 0.00034 7.5E-09 57.2 1.4 39 75-113 182-220 (445)
60 PHA02825 LAP/PHD finger-like p 96.9 0.0013 2.8E-08 47.4 4.0 48 75-126 6-59 (162)
61 COG5152 Uncharacterized conser 96.9 0.00041 8.8E-09 51.7 1.2 44 78-125 197-240 (259)
62 KOG3970 Predicted E3 ubiquitin 96.8 0.0013 2.8E-08 49.9 3.6 51 76-127 49-106 (299)
63 COG5175 MOT2 Transcriptional r 96.7 0.00087 1.9E-08 53.8 2.2 53 76-128 13-66 (480)
64 KOG1002 Nucleotide excision re 96.7 0.00099 2.2E-08 56.3 2.6 50 74-126 533-586 (791)
65 KOG4692 Predicted E3 ubiquitin 96.7 0.0026 5.7E-08 51.4 4.7 49 75-127 420-468 (489)
66 PF11789 zf-Nse: Zinc-finger o 96.7 0.00057 1.2E-08 41.1 0.7 43 76-120 10-53 (57)
67 PHA02862 5L protein; Provision 96.7 0.0019 4.2E-08 45.7 3.1 46 77-126 2-53 (156)
68 KOG4445 Uncharacterized conser 96.6 0.00087 1.9E-08 52.9 1.4 51 76-126 114-186 (368)
69 KOG1813 Predicted E3 ubiquitin 96.5 0.00084 1.8E-08 52.8 0.7 45 78-126 242-286 (313)
70 KOG1571 Predicted E3 ubiquitin 96.5 0.0021 4.6E-08 51.9 2.9 44 75-125 303-346 (355)
71 COG5236 Uncharacterized conser 96.4 0.0016 3.5E-08 52.4 1.6 49 74-125 58-107 (493)
72 PF10367 Vps39_2: Vacuolar sor 96.4 0.0027 5.9E-08 42.6 2.4 33 75-108 76-108 (109)
73 COG5222 Uncharacterized conser 96.3 0.0031 6.7E-08 49.9 2.9 43 78-123 275-318 (427)
74 KOG4185 Predicted E3 ubiquitin 96.3 0.005 1.1E-07 49.0 4.0 49 77-125 3-54 (296)
75 KOG3039 Uncharacterized conser 96.2 0.0049 1.1E-07 47.5 3.1 55 77-132 221-276 (303)
76 KOG4275 Predicted E3 ubiquitin 96.2 0.00099 2.2E-08 52.4 -0.7 41 77-125 300-341 (350)
77 KOG2114 Vacuolar assembly/sort 96.0 0.012 2.6E-07 52.4 5.2 44 76-125 839-882 (933)
78 KOG0801 Predicted E3 ubiquitin 96.0 0.0022 4.8E-08 46.3 0.6 30 75-104 175-204 (205)
79 PF12906 RINGv: RING-variant d 96.0 0.0045 9.8E-08 35.6 1.7 41 80-121 1-47 (47)
80 KOG1952 Transcription factor N 95.8 0.004 8.6E-08 55.3 1.4 50 75-124 189-245 (950)
81 PF14447 Prok-RING_4: Prokaryo 95.6 0.0052 1.1E-07 36.4 1.0 46 77-128 7-52 (55)
82 KOG4739 Uncharacterized protei 95.5 0.0058 1.3E-07 46.9 1.2 44 79-126 5-48 (233)
83 PF08746 zf-RING-like: RING-li 95.4 0.0099 2.1E-07 33.6 1.5 42 80-121 1-43 (43)
84 KOG3002 Zn finger protein [Gen 95.3 0.013 2.7E-07 47.0 2.5 43 76-126 47-91 (299)
85 PF05883 Baculo_RING: Baculovi 95.2 0.0082 1.8E-07 42.2 1.1 36 77-112 26-67 (134)
86 KOG3268 Predicted E3 ubiquitin 95.2 0.02 4.2E-07 42.1 3.0 31 96-126 188-228 (234)
87 PF04641 Rtf2: Rtf2 RING-finge 95.2 0.025 5.3E-07 44.4 3.7 52 75-128 111-163 (260)
88 KOG3800 Predicted E3 ubiquitin 95.0 0.026 5.7E-07 44.5 3.3 48 79-126 2-51 (300)
89 PHA03096 p28-like protein; Pro 94.9 0.019 4E-07 45.7 2.3 46 78-123 179-231 (284)
90 KOG1940 Zn-finger protein [Gen 94.6 0.027 5.9E-07 44.4 2.6 45 78-123 159-204 (276)
91 COG5220 TFB3 Cdk activating ki 94.5 0.019 4E-07 44.2 1.3 47 76-122 9-60 (314)
92 PF07800 DUF1644: Protein of u 94.3 0.054 1.2E-06 39.1 3.3 55 77-131 2-96 (162)
93 KOG1001 Helicase-like transcri 94.2 0.016 3.4E-07 51.3 0.4 51 78-132 455-506 (674)
94 KOG2932 E3 ubiquitin ligase in 94.1 0.021 4.6E-07 45.4 1.0 42 79-125 92-133 (389)
95 PF05290 Baculo_IE-1: Baculovi 93.9 0.49 1.1E-05 33.2 7.2 54 76-129 79-135 (140)
96 KOG2034 Vacuolar sorting prote 93.6 0.097 2.1E-06 47.1 4.3 37 75-112 815-851 (911)
97 COG5183 SSM4 Protein involved 93.6 0.069 1.5E-06 47.7 3.3 54 72-126 7-66 (1175)
98 PF10272 Tmpp129: Putative tra 93.5 0.057 1.2E-06 44.3 2.4 31 98-128 311-353 (358)
99 KOG1100 Predicted E3 ubiquitin 93.4 0.036 7.7E-07 42.1 1.2 38 80-125 161-199 (207)
100 KOG2817 Predicted E3 ubiquitin 93.3 0.09 2E-06 43.2 3.3 50 76-125 333-384 (394)
101 PF03854 zf-P11: P-11 zinc fin 92.7 0.042 9E-07 31.5 0.4 44 78-127 3-47 (50)
102 KOG3053 Uncharacterized conser 92.5 0.093 2E-06 40.8 2.2 52 74-125 17-81 (293)
103 KOG0309 Conserved WD40 repeat- 91.1 0.16 3.4E-06 45.2 2.3 24 96-120 1046-1069(1081)
104 KOG0827 Predicted E3 ubiquitin 90.7 0.019 4.2E-07 47.0 -3.2 52 77-129 196-248 (465)
105 KOG3899 Uncharacterized conser 90.1 0.19 4.2E-06 39.8 1.9 31 97-127 324-366 (381)
106 KOG0298 DEAD box-containing he 89.8 0.16 3.5E-06 47.5 1.4 48 75-125 1151-1198(1394)
107 KOG4362 Transcriptional regula 88.6 0.16 3.4E-06 44.8 0.4 53 77-132 21-75 (684)
108 KOG4367 Predicted Zn-finger pr 87.8 0.35 7.6E-06 40.5 2.0 36 75-113 2-37 (699)
109 KOG1812 Predicted E3 ubiquitin 86.2 2.4 5.2E-05 35.3 6.1 38 76-113 145-183 (384)
110 KOG3161 Predicted E3 ubiquitin 83.7 0.61 1.3E-05 40.9 1.5 40 77-119 11-51 (861)
111 KOG1609 Protein involved in mR 82.3 0.75 1.6E-05 36.6 1.5 52 75-126 76-134 (323)
112 PF02891 zf-MIZ: MIZ/SP-RING z 81.0 1.5 3.3E-05 25.3 2.1 44 78-124 3-50 (50)
113 KOG2807 RNA polymerase II tran 80.5 2.6 5.7E-05 34.1 3.9 65 56-123 311-375 (378)
114 KOG3005 GIY-YIG type nuclease 80.2 1.7 3.6E-05 34.2 2.7 48 78-125 183-242 (276)
115 COG5109 Uncharacterized conser 78.3 1.8 4E-05 34.8 2.4 47 77-123 336-384 (396)
116 KOG0269 WD40 repeat-containing 78.3 8.5 0.00018 34.7 6.6 40 79-120 781-820 (839)
117 KOG1815 Predicted E3 ubiquitin 76.5 4.1 9E-05 34.5 4.2 37 75-113 68-104 (444)
118 PF07975 C1_4: TFIIH C1-like d 75.8 2.3 4.9E-05 24.9 1.7 25 97-122 26-50 (51)
119 PF13901 DUF4206: Domain of un 75.3 2.6 5.7E-05 31.8 2.5 41 77-123 152-197 (202)
120 PF14446 Prok-RING_1: Prokaryo 74.3 4.5 9.8E-05 23.9 2.8 34 76-109 4-38 (54)
121 KOG2068 MOT2 transcription fac 73.4 2.6 5.6E-05 34.1 2.1 48 78-126 250-298 (327)
122 KOG1829 Uncharacterized conser 73.4 1.3 2.9E-05 38.6 0.5 24 96-123 535-558 (580)
123 KOG4718 Non-SMC (structural ma 72.5 2.2 4.8E-05 32.4 1.5 47 76-125 180-226 (235)
124 KOG3799 Rab3 effector RIM1 and 71.7 4.7 0.0001 28.5 2.8 52 74-125 62-117 (169)
125 KOG3113 Uncharacterized conser 69.6 3.8 8.2E-05 32.1 2.2 49 77-128 111-160 (293)
126 KOG1812 Predicted E3 ubiquitin 69.0 2.6 5.5E-05 35.1 1.2 43 77-120 306-350 (384)
127 KOG3579 Predicted E3 ubiquitin 67.7 2.9 6.4E-05 33.2 1.3 35 76-113 267-305 (352)
128 KOG0802 E3 ubiquitin ligase [P 64.4 2.6 5.6E-05 36.6 0.5 45 75-127 477-521 (543)
129 KOG0825 PHD Zn-finger protein 63.4 2.9 6.2E-05 37.8 0.5 51 76-126 95-154 (1134)
130 PF04423 Rad50_zn_hook: Rad50 63.2 3.7 8E-05 23.9 0.8 14 117-130 22-35 (54)
131 PF14569 zf-UDP: Zinc-binding 61.1 11 0.00025 23.9 2.8 51 76-126 8-62 (80)
132 KOG3039 Uncharacterized conser 60.6 9.1 0.0002 29.9 2.7 38 72-112 38-75 (303)
133 PRK09174 F0F1 ATP synthase sub 58.3 56 0.0012 24.7 6.7 30 9-38 53-82 (204)
134 PF02318 FYVE_2: FYVE-type zin 56.1 4.8 0.0001 27.6 0.6 34 76-109 53-88 (118)
135 PF06667 PspB: Phage shock pro 55.9 50 0.0011 20.9 5.2 21 10-30 4-24 (75)
136 smart00249 PHD PHD zinc finger 55.5 8.1 0.00017 20.8 1.4 30 80-109 2-31 (47)
137 KOG3842 Adaptor protein Pellin 55.4 15 0.00032 29.9 3.2 51 76-126 340-414 (429)
138 PF08114 PMP1_2: ATPase proteo 53.8 22 0.00049 19.6 2.8 21 12-32 11-31 (43)
139 PF12273 RCR: Chitin synthesis 53.6 14 0.0003 25.7 2.6 15 16-30 5-19 (130)
140 KOG0824 Predicted E3 ubiquitin 51.2 9.5 0.00021 30.6 1.5 49 75-126 103-151 (324)
141 COG4357 Zinc finger domain con 50.2 15 0.00032 24.4 2.1 29 97-127 64-92 (105)
142 KOG4185 Predicted E3 ubiquitin 50.1 2.6 5.7E-05 33.4 -1.8 48 77-124 207-265 (296)
143 smart00132 LIM Zinc-binding do 49.9 19 0.00041 18.5 2.2 36 80-125 2-37 (39)
144 PRK13454 F0F1 ATP synthase sub 49.5 1E+02 0.0022 22.6 6.9 19 11-29 33-51 (181)
145 PF00628 PHD: PHD-finger; Int 49.1 6.1 0.00013 22.4 0.1 31 80-110 2-32 (51)
146 smart00734 ZnF_Rad18 Rad18-lik 46.4 17 0.00036 17.9 1.5 11 117-127 3-13 (26)
147 PF02326 YMF19: Plant ATP synt 46.3 79 0.0017 20.4 5.9 21 3-23 7-27 (86)
148 cd04718 BAH_plant_2 BAH, or Br 45.9 4.2 9.1E-05 29.2 -1.1 61 102-162 2-65 (148)
149 PRK06569 F0F1 ATP synthase sub 45.8 1.1E+02 0.0025 22.1 7.0 31 8-38 9-39 (155)
150 PF12773 DZR: Double zinc ribb 44.9 15 0.00034 20.6 1.4 10 116-125 30-39 (50)
151 PF10497 zf-4CXXC_R1: Zinc-fin 44.4 33 0.00072 23.1 3.2 25 99-123 37-69 (105)
152 KOG2066 Vacuolar assembly/sort 44.2 10 0.00022 34.3 0.8 39 76-114 783-825 (846)
153 PRK14471 F0F1 ATP synthase sub 44.1 1.2E+02 0.0025 21.7 6.9 30 9-38 8-37 (164)
154 PF05568 ASFV_J13L: African sw 42.7 60 0.0013 23.3 4.3 28 7-34 25-52 (189)
155 TIGR02209 ftsL_broad cell divi 42.3 85 0.0018 19.6 6.1 9 11-19 6-14 (85)
156 PF06906 DUF1272: Protein of u 42.3 49 0.0011 19.7 3.2 46 78-127 6-53 (57)
157 PF15050 SCIMP: SCIMP protein 42.2 1.2E+02 0.0025 21.1 5.6 19 8-26 7-25 (133)
158 PF06305 DUF1049: Protein of u 42.1 75 0.0016 18.9 6.5 11 11-21 20-30 (68)
159 PF10669 Phage_Gp23: Protein g 41.5 1.1E+02 0.0023 20.5 7.3 26 20-45 23-48 (121)
160 PF00412 LIM: LIM domain; Int 41.1 11 0.00023 21.8 0.3 39 80-128 1-39 (58)
161 PF06844 DUF1244: Protein of u 40.6 21 0.00044 22.0 1.5 13 101-113 11-23 (68)
162 PLN02189 cellulose synthase 40.1 27 0.0006 32.8 2.9 51 76-126 33-87 (1040)
163 PF10961 DUF2763: Protein of u 39.7 46 0.001 21.8 3.2 19 4-22 20-38 (91)
164 PRK05759 F0F1 ATP synthase sub 39.4 1.3E+02 0.0029 21.1 6.7 25 10-34 5-29 (156)
165 PF15122 TMEM206: TMEM206 prot 39.1 87 0.0019 24.6 5.0 10 95-104 72-81 (298)
166 PF11044 TMEMspv1-c74-12: Plec 38.6 75 0.0016 17.9 5.6 16 11-26 7-22 (49)
167 PRK13453 F0F1 ATP synthase sub 38.4 1.5E+02 0.0033 21.5 6.9 26 10-35 19-44 (173)
168 PF04710 Pellino: Pellino; In 37.3 11 0.00024 31.4 0.0 50 77-126 328-401 (416)
169 PF10571 UPF0547: Uncharacteri 37.3 19 0.00042 17.7 0.9 9 117-125 2-10 (26)
170 PF13913 zf-C2HC_2: zinc-finge 37.2 25 0.00054 17.0 1.3 16 117-132 4-19 (25)
171 COG3813 Uncharacterized protei 35.9 76 0.0017 19.9 3.5 51 79-133 7-59 (84)
172 PF13771 zf-HC5HC2H: PHD-like 35.7 23 0.00049 22.5 1.3 33 77-109 36-68 (90)
173 TIGR00622 ssl1 transcription f 35.3 41 0.00088 23.0 2.5 45 77-122 55-110 (112)
174 KOG2041 WD40 repeat protein [G 35.3 1.7E+02 0.0037 27.0 6.8 47 74-125 1128-1184(1189)
175 PF07649 C1_3: C1-like domain; 35.1 31 0.00066 17.3 1.5 29 79-107 2-30 (30)
176 KOG1729 FYVE finger containing 35.0 7.5 0.00016 31.1 -1.3 36 79-114 216-251 (288)
177 PRK14472 F0F1 ATP synthase sub 34.8 1.8E+02 0.0038 21.1 6.9 25 11-35 20-44 (175)
178 COG4847 Uncharacterized protei 34.2 41 0.00088 22.3 2.2 35 77-112 6-40 (103)
179 PF13832 zf-HC5HC2H_2: PHD-zin 34.2 29 0.00063 23.0 1.7 31 77-109 55-87 (110)
180 PLN02436 cellulose synthase A 33.9 40 0.00087 31.9 2.9 51 76-126 35-89 (1094)
181 smart00064 FYVE Protein presen 33.4 40 0.00087 20.2 2.1 35 77-111 10-45 (68)
182 PF04835 Pox_A9: A9 protein co 33.2 1E+02 0.0022 18.1 3.5 25 6-30 20-44 (54)
183 PF04216 FdhE: Protein involve 32.7 3 6.6E-05 33.1 -3.9 47 77-124 172-220 (290)
184 cd00065 FYVE FYVE domain; Zinc 32.7 35 0.00076 19.6 1.7 34 78-111 3-37 (57)
185 PRK06231 F0F1 ATP synthase sub 32.3 2E+02 0.0044 21.6 6.2 16 16-31 55-70 (205)
186 KOG4218 Nuclear hormone recept 31.9 45 0.00097 27.6 2.6 12 76-87 14-25 (475)
187 PF00430 ATP-synt_B: ATP synth 31.7 1.6E+02 0.0035 19.8 5.2 22 13-34 3-24 (132)
188 PRK13460 F0F1 ATP synthase sub 31.1 2.1E+02 0.0045 20.7 6.2 24 11-34 18-41 (173)
189 PRK04778 septation ring format 31.1 1.1E+02 0.0023 27.0 5.0 34 8-42 2-35 (569)
190 PF07191 zinc-ribbons_6: zinc- 30.9 1.8 3.9E-05 27.0 -4.2 39 78-125 2-40 (70)
191 PF13717 zinc_ribbon_4: zinc-r 30.9 29 0.00062 18.5 1.0 13 79-91 4-16 (36)
192 PF09654 DUF2396: Protein of u 30.3 9.8 0.00021 27.0 -1.2 18 116-133 7-24 (161)
193 PF01363 FYVE: FYVE zinc finge 29.9 17 0.00037 21.9 -0.0 32 76-108 8-41 (69)
194 TIGR02652 conserved hypothetic 29.7 10 0.00022 27.0 -1.2 18 116-133 10-27 (163)
195 PLN02915 cellulose synthase A 29.4 65 0.0014 30.5 3.5 52 75-126 13-68 (1044)
196 PRK13461 F0F1 ATP synthase sub 29.4 2.1E+02 0.0045 20.3 7.0 24 11-34 7-30 (159)
197 PF04277 OAD_gamma: Oxaloaceta 29.3 1.1E+02 0.0024 18.8 3.7 21 9-29 6-26 (79)
198 PF10083 DUF2321: Uncharacteri 29.2 41 0.00089 24.4 1.8 23 99-125 27-49 (158)
199 PF14311 DUF4379: Domain of un 29.1 36 0.00078 19.7 1.3 7 115-121 49-55 (55)
200 PF10669 Phage_Gp23: Protein g 29.1 1.8E+02 0.0039 19.4 5.5 31 16-46 15-45 (121)
201 PF12292 DUF3624: Protein of u 28.4 16 0.00035 23.2 -0.3 23 103-125 3-25 (77)
202 KOG1245 Chromatin remodeling c 28.1 22 0.00047 34.7 0.3 50 76-125 1107-1159(1404)
203 PF09574 DUF2374: Protein of 27.9 1.2E+02 0.0025 16.8 3.9 28 3-30 2-35 (42)
204 PF07406 NICE-3: NICE-3 protei 27.6 40 0.00087 25.2 1.6 33 6-38 6-38 (186)
205 KOG2231 Predicted E3 ubiquitin 27.1 53 0.0011 29.5 2.4 45 79-126 2-52 (669)
206 TIGR02808 short_TIGR02808 cons 27.1 1.2E+02 0.0026 16.7 3.6 28 3-30 2-35 (42)
207 PF06637 PV-1: PV-1 protein (P 27.0 1.5E+02 0.0032 24.9 4.8 21 7-27 29-49 (442)
208 PLN02195 cellulose synthase A 27.0 82 0.0018 29.6 3.7 51 76-126 5-59 (977)
209 PRK07353 F0F1 ATP synthase sub 26.3 2.2E+02 0.0048 19.6 6.1 25 11-35 7-31 (140)
210 KOG2169 Zn-finger transcriptio 26.1 94 0.002 27.8 3.9 62 78-144 307-374 (636)
211 PF06750 DiS_P_DiS: Bacterial 26.1 1.1E+02 0.0025 19.9 3.4 43 77-132 33-75 (92)
212 PRK09458 pspB phage shock prot 25.5 1.7E+02 0.0036 18.5 3.8 15 16-30 10-24 (75)
213 KOG3726 Uncharacterized conser 25.3 47 0.001 29.8 1.8 40 78-121 655-695 (717)
214 PLN02638 cellulose synthase A 25.0 77 0.0017 30.1 3.2 51 76-126 16-70 (1079)
215 PF09943 DUF2175: Uncharacteri 24.2 77 0.0017 21.3 2.3 33 79-112 4-36 (101)
216 KOG2462 C2H2-type Zn-finger pr 24.0 48 0.001 26.4 1.5 59 78-136 162-237 (279)
217 PF11084 DUF2621: Protein of u 24.0 1.7E+02 0.0038 20.6 4.0 31 9-39 7-37 (141)
218 PHA01815 hypothetical protein 23.4 1.5E+02 0.0032 16.8 3.0 13 15-27 7-19 (55)
219 PRK09040 hypothetical protein; 23.4 3.3E+02 0.0072 20.6 7.3 29 4-32 17-45 (214)
220 KOG2789 Putative Zn-finger pro 23.2 21 0.00045 29.9 -0.7 32 78-110 75-106 (482)
221 KOG4323 Polycomb-like PHD Zn-f 23.2 55 0.0012 28.1 1.8 49 76-125 167-225 (464)
222 PRK11088 rrmA 23S rRNA methylt 22.8 56 0.0012 25.4 1.7 25 78-102 3-27 (272)
223 smart00647 IBR In Between Ring 22.8 11 0.00024 22.1 -1.9 14 97-110 45-58 (64)
224 COG3492 Uncharacterized protei 22.8 55 0.0012 21.5 1.3 12 102-113 43-54 (104)
225 KOG4443 Putative transcription 22.0 41 0.0009 30.0 0.8 47 78-124 19-71 (694)
226 PRK03564 formate dehydrogenase 22.0 39 0.00085 27.4 0.7 47 76-123 186-234 (309)
227 PLN02400 cellulose synthase 21.6 64 0.0014 30.7 2.0 51 76-126 35-89 (1085)
228 PRK10144 formate-dependent nit 21.6 1.1E+02 0.0024 21.4 2.8 7 117-123 42-48 (126)
229 TIGR01562 FdhE formate dehydro 20.9 16 0.00034 29.5 -1.8 45 77-123 184-232 (305)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=9.3e-16 Score=122.41 Aligned_cols=77 Identities=31% Similarity=0.780 Sum_probs=59.1
Q ss_pred hHHHhHHHHHHhCCCcccchhhhccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 47 TRTQYLNFIEEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
..+...+...++.+...+.+..... . ...|+||+|+|..++.++.+||+|.||..|+++|+.+....||+|++++.
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~---~-~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDED---A-TDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccC---C-CceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 4444555555666666665443221 1 25999999999999999999999999999999999987556999999885
Q ss_pred C
Q 047964 127 P 127 (168)
Q Consensus 127 ~ 127 (168)
+
T Consensus 279 ~ 279 (348)
T KOG4628|consen 279 T 279 (348)
T ss_pred C
Confidence 3
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.49 E-value=1.4e-14 Score=83.31 Aligned_cols=44 Identities=52% Similarity=1.331 Sum_probs=38.7
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr 122 (168)
++|+||++.+..+..+..++|||.||.+|+..|++.+ .+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence 4799999999888888888999999999999999985 7999997
No 3
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=1.1e-12 Score=101.45 Aligned_cols=58 Identities=31% Similarity=0.808 Sum_probs=48.3
Q ss_pred hccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964 69 LMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130 (168)
Q Consensus 69 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~ 130 (168)
.....++....|.+|++....|.. +||||.||..||..|.... ..||+||..+.++++
T Consensus 231 ~~~~i~~a~~kC~LCLe~~~~pSa---TpCGHiFCWsCI~~w~~ek-~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 231 SLSSIPEATRKCSLCLENRSNPSA---TPCGHIFCWSCILEWCSEK-AECPLCREKFQPSKV 288 (293)
T ss_pred CCccCCCCCCceEEEecCCCCCCc---CcCcchHHHHHHHHHHccc-cCCCcccccCCCcce
Confidence 333444567899999999888877 8999999999999999864 679999999977664
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=6.2e-12 Score=100.24 Aligned_cols=51 Identities=31% Similarity=0.935 Sum_probs=41.0
Q ss_pred CCcccccccccccc-cCC---------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 74 PSESKDCAVCLSDF-EDG---------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 74 ~~~~~~C~IC~~~~-~~~---------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
..+|..|.||++++ ..+ .....+||||.+|..|++.|+++ +++||.||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcc
Confidence 35678999999994 333 12234899999999999999996 48999999995
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=3.5e-12 Score=99.24 Aligned_cols=52 Identities=44% Similarity=1.097 Sum_probs=47.0
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
.+-+|+|||+.+...+.++.+||+|.||..|+..|+...+..||+||++++|
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3468999999999999999999999999999999999766789999999865
No 6
>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=99.21 E-value=1.2e-11 Score=78.65 Aligned_cols=45 Identities=40% Similarity=0.950 Sum_probs=34.9
Q ss_pred ccccccccccccCC----------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964 77 SKDCAVCLSDFEDG----------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122 (168)
Q Consensus 77 ~~~C~IC~~~~~~~----------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr 122 (168)
++.|+||++.+..+ ..+...+|||.||..||.+|++.+ ..||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~-~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN-NTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS-SB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC-CcCCCCC
Confidence 45699999999432 234445899999999999999875 6899997
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.20 E-value=2.4e-11 Score=93.25 Aligned_cols=51 Identities=41% Similarity=0.935 Sum_probs=40.5
Q ss_pred CcccccccccccccCCcc-----eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGEM-----VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~-----~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
..+.+|+||++.+..+.. ...++|+|.||..|+..|+..+ .+||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-NTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-CCCCCCCCEee
Confidence 346799999998765431 2235899999999999999864 78999999874
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.20 E-value=1e-11 Score=91.78 Aligned_cols=57 Identities=30% Similarity=0.728 Sum_probs=45.2
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh---------------CCCCCCCCCCcCCCchHHhhH
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE---------------YLATCPLCRTKVLPDEIVAKY 134 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~---------------~~~~CP~Cr~~~~~~~~~~~~ 134 (168)
.++.+|+||++.+.++.. ++|||.||..|+..|+.. ++..||.||..+...++.+.+
T Consensus 16 ~~~~~CpICld~~~dPVv---T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiy 87 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVV---TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIY 87 (193)
T ss_pred CCccCCccCCCcCCCcEE---cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEee
Confidence 456799999999877754 799999999999999852 124799999999766655543
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.01 E-value=1.5e-10 Score=65.65 Aligned_cols=39 Identities=41% Similarity=0.991 Sum_probs=30.8
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC---CCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA---TCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~---~CP~C 121 (168)
|+||++.+.+|.. ++|||.||..|+..|++.... .||.|
T Consensus 1 CpiC~~~~~~Pv~---l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVS---LPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccc---cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999877 899999999999999975433 59987
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.01 E-value=1.8e-10 Score=67.86 Aligned_cols=46 Identities=30% Similarity=0.863 Sum_probs=36.7
Q ss_pred ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
+..|.||++.... ...+||||. ||..|+..|+.. ...||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 5689999998544 444799999 999999999985 478999999874
No 11
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=7.5e-10 Score=94.93 Aligned_cols=54 Identities=33% Similarity=0.845 Sum_probs=43.7
Q ss_pred CcccccccccccccCCcc--eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964 75 SESKDCAVCLSDFEDGEM--VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~--~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~ 129 (168)
..+..|+||++.+..+.. ...++|+|.||..|+..|+++ +++||+||..+....
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYDYV 344 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhccc
Confidence 457899999999988533 334899999999999999997 589999999554333
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.6e-10 Score=87.09 Aligned_cols=57 Identities=33% Similarity=0.674 Sum_probs=45.9
Q ss_pred CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC--CCCCCCCCCcCCCchHHhh
Q 047964 74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVLPDEIVAK 133 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~~~~~~~~~ 133 (168)
.....+|.||++.-++|.. +.|||.||+.|+..|+..+ .+.||+|+..+..+++.+.
T Consensus 44 ~~~~FdCNICLd~akdPVv---TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVV---TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred CCCceeeeeeccccCCCEE---eecccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence 3456799999999777765 8999999999999999854 2359999999876665554
No 13
>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=98.97 E-value=8.7e-10 Score=62.60 Aligned_cols=45 Identities=47% Similarity=1.120 Sum_probs=35.7
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.|+||++.+..+. ...+|+|.||..|+..|++.....||.||..+
T Consensus 1 ~C~iC~~~~~~~~--~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPV--VLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCce--EecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999884333 23469999999999999987446799998753
No 14
>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=98.94 E-value=3.5e-10 Score=63.13 Aligned_cols=39 Identities=33% Similarity=1.036 Sum_probs=31.8
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C 121 (168)
|+||++.+.++. ..++|||.||..|+..|++. ...||.|
T Consensus 1 C~iC~~~~~~~~--~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPV--VVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEE--EECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcC--EECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 899999988753 34799999999999999998 5889987
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=98.94 E-value=7.4e-10 Score=83.14 Aligned_cols=52 Identities=27% Similarity=0.693 Sum_probs=38.3
Q ss_pred CcccccccccccccCCc------ceEeeCCCCcchHHHHHHHHHhC-----CCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGE------MVRKLNCKHTFHRDCLDKWLQEY-----LATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~------~~~~~~C~H~f~~~Ci~~w~~~~-----~~~CP~Cr~~~~ 126 (168)
+.+.+|+||++....+. .-...+|+|.||..||..|...+ ..+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 45689999999763321 11124899999999999999753 235999999873
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=1.1e-09 Score=79.42 Aligned_cols=51 Identities=27% Similarity=0.709 Sum_probs=41.2
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
+...|+|||+.+.....+ .+.|||+||..||+..++.. ..||+|++.+...
T Consensus 130 ~~~~CPiCl~~~sek~~v-sTkCGHvFC~~Cik~alk~~-~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPV-STKCGHVFCSQCIKDALKNT-NKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhcccc-ccccchhHHHHHHHHHHHhC-CCCCCcccccchh
Confidence 456899999998765542 37999999999999999864 7899999876443
No 17
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=1.5e-09 Score=89.53 Aligned_cols=53 Identities=32% Similarity=0.884 Sum_probs=40.9
Q ss_pred CcccccccccccccCC--------------cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDG--------------EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~--------------~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
....+|+|||.++.-- .....+||.|.||..|+.+|+...+-.||.||+++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3456899999876411 1123469999999999999999665689999999864
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.88 E-value=1.6e-09 Score=69.92 Aligned_cols=50 Identities=30% Similarity=0.749 Sum_probs=37.6
Q ss_pred ccccccccccccCC--------c--ceEeeCCCCcchHHHHHHHHHhC--CCCCCCCCCcCC
Q 047964 77 SKDCAVCLSDFEDG--------E--MVRKLNCKHTFHRDCLDKWLQEY--LATCPLCRTKVL 126 (168)
Q Consensus 77 ~~~C~IC~~~~~~~--------~--~~~~~~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~~ 126 (168)
++.|.||...|... + .+..-.|+|.||..||..|+... +..||+||+++.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 77899998887621 1 11222799999999999999853 457999999874
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.86 E-value=3.4e-09 Score=65.13 Aligned_cols=55 Identities=20% Similarity=0.438 Sum_probs=45.0
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHh
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQH 136 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~ 136 (168)
..|+||.+.+.+|.. ++|||+|+..|+..|+.+ ...||.|+.++..+.+..+...
T Consensus 2 ~~Cpi~~~~~~~Pv~---~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~~~l 56 (63)
T smart00504 2 FLCPISLEVMKDPVI---LPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPNLAL 56 (63)
T ss_pred cCCcCCCCcCCCCEE---CCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeCHHH
Confidence 469999999988744 799999999999999987 4789999999866665554433
No 20
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.85 E-value=2.7e-09 Score=87.46 Aligned_cols=64 Identities=23% Similarity=0.560 Sum_probs=50.0
Q ss_pred CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhh
Q 047964 74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQ 141 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 141 (168)
.+....|+||.+.+..+.. ++|||.||..|+..|+... ..||.||..+....+..+......++
T Consensus 23 Le~~l~C~IC~d~~~~Pvi---tpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~~Lr~N~~L~~iVe 86 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVPVL---TSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQESKLRSNWLVSEIVE 86 (397)
T ss_pred cccccCCCcCchhhhCccC---CCCCCchhHHHHHHHHhCC-CCCCCCCCccccccCccchHHHHHHH
Confidence 3456799999999988764 7999999999999999864 67999999887655655544444443
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.83 E-value=4e-09 Score=60.41 Aligned_cols=44 Identities=30% Similarity=0.813 Sum_probs=36.1
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
.|++|++.+........++|||.||..|+..+. .....||.||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 489999999555566778999999999999987 33367999985
No 22
>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=98.82 E-value=2e-09 Score=60.59 Aligned_cols=40 Identities=53% Similarity=1.169 Sum_probs=33.6
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHH-hCCCCCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ-EYLATCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~~CP~C 121 (168)
|+||++.+..+. ..++|||.||..|+..|++ .....||.|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987776 3479999999999999999 444579987
No 23
>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=98.71 E-value=1.5e-08 Score=55.44 Aligned_cols=39 Identities=44% Similarity=1.081 Sum_probs=31.1
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C 121 (168)
|+||++... ....++|+|.||..|+..|+......||.|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789988833 334479999999999999998554679987
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=9.8e-09 Score=78.82 Aligned_cols=53 Identities=34% Similarity=0.738 Sum_probs=43.4
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHH-HHHhCCCCCCCCCCcCCCchH
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDK-WLQEYLATCPLCRTKVLPDEI 130 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~-w~~~~~~~CP~Cr~~~~~~~~ 130 (168)
..+..|+||++....+.. ++|||+||..|+.. |-.+...-||+||+-..++++
T Consensus 213 ~~d~kC~lC~e~~~~ps~---t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSC---TPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCccc---ccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 357789999999777766 89999999999999 766543349999998877654
No 25
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.68 E-value=1.2e-08 Score=80.93 Aligned_cols=66 Identities=23% Similarity=0.557 Sum_probs=54.8
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhhh
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLDY 145 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~ 145 (168)
+...|.||.+.|..|.. +||+|.||..||+..+.. +..||.|+.++....+..+.-..+.++.++.
T Consensus 22 ~lLRC~IC~eyf~ip~i---tpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~ 87 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMI---TPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLRNNRILDEIVKSLNF 87 (442)
T ss_pred HHHHHhHHHHHhcCcee---ccccchHHHHHHHHHhcc-CCCCCceecccchhhhhhhhHHHHHHHHHHH
Confidence 34689999999998865 799999999999999986 4889999999987778777766666665553
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.9e-08 Score=83.51 Aligned_cols=51 Identities=24% Similarity=0.632 Sum_probs=40.6
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC----CCCCCCCCCcCCCchH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY----LATCPLCRTKVLPDEI 130 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~~CP~Cr~~~~~~~~ 130 (168)
+..||||+++...+.. +.|||+||..||..++... ...||+||..+...++
T Consensus 186 ~~~CPICL~~~~~p~~---t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR---TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCCCcccc---cccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 6789999998666554 7899999999999888654 1269999998876443
No 27
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.53 E-value=5.6e-08 Score=61.70 Aligned_cols=65 Identities=17% Similarity=0.370 Sum_probs=48.5
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQQNLQNLD 144 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 144 (168)
...|+|+.+.+.+|.. +++||.|...||..|+..+...||.|+.++....+.++.......++..
T Consensus 4 ~f~CpIt~~lM~dPVi---~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 4 EFLCPITGELMRDPVI---LPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC 68 (73)
T ss_dssp GGB-TTTSSB-SSEEE---ETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred ccCCcCcCcHhhCcee---CCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence 5689999999999876 7999999999999999985578999999998877777766665554443
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=4.1e-07 Score=70.20 Aligned_cols=57 Identities=32% Similarity=0.625 Sum_probs=44.3
Q ss_pred CcccccccccccccCCc-------ceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCCchHH
Q 047964 75 SESKDCAVCLSDFEDGE-------MVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIV 131 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~-------~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~~~~~ 131 (168)
-++..|++|-..+.... ...++.|+|.||..||+-|..-+ ++.||.|+..+..+...
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf 286 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF 286 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence 35779999998876555 55668999999999999999744 45799998877544433
No 29
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.47 E-value=1.5e-07 Score=74.62 Aligned_cols=53 Identities=21% Similarity=0.561 Sum_probs=39.5
Q ss_pred cccccccccc-ccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964 77 SKDCAVCLSD-FEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129 (168)
Q Consensus 77 ~~~C~IC~~~-~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~ 129 (168)
+..||+|... +..+.. +...+|||.||..|+...+..+...||.|+.++...+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4689999985 333432 2223799999999999987766568999998886555
No 30
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.44 E-value=9.3e-08 Score=74.47 Aligned_cols=52 Identities=23% Similarity=0.508 Sum_probs=42.8
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA 132 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~ 132 (168)
-..|.||-+.+..+.. ++|||.||..||...+.. +..||.||.+.....+..
T Consensus 25 ~lrC~IC~~~i~ip~~---TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrlr~ 76 (391)
T COG5432 25 MLRCRICDCRISIPCE---TTCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRLRG 76 (391)
T ss_pred HHHhhhhhheeeccee---cccccchhHHHHHHHhcC-CCCCccccccHHhhhccc
Confidence 4689999999888766 899999999999999986 488999998775443333
No 31
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.39 E-value=2.9e-07 Score=52.26 Aligned_cols=34 Identities=35% Similarity=0.758 Sum_probs=21.1
Q ss_pred cccccccccCCcc-eEeeCCCCcchHHHHHHHHHhC
Q 047964 80 CAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEY 114 (168)
Q Consensus 80 C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~ 114 (168)
|+||.+ +..+.. ...++|||+||.+|+..+..++
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 655333 3447999999999999999854
No 32
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.36 E-value=4.5e-07 Score=57.31 Aligned_cols=28 Identities=39% Similarity=0.993 Sum_probs=25.6
Q ss_pred CCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 97 NCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.|+|.||..||.+|+.. +..||++|+++
T Consensus 53 ~CnHaFH~HCI~rWL~T-k~~CPld~q~w 80 (88)
T COG5194 53 VCNHAFHDHCIYRWLDT-KGVCPLDRQTW 80 (88)
T ss_pred ecchHHHHHHHHHHHhh-CCCCCCCCcee
Confidence 69999999999999987 47899999987
No 33
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=4.9e-07 Score=70.79 Aligned_cols=52 Identities=23% Similarity=0.422 Sum_probs=42.9
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~ 131 (168)
..+|+||+....-|.. ++|+|.||+.|++-.....+..|++||.++...-..
T Consensus 7 ~~eC~IC~nt~n~Pv~---l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVN---LYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred CCcceeeeccCCcCcc---ccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 5689999988666644 899999999999988887777899999999654443
No 34
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=1.8e-07 Score=58.59 Aligned_cols=50 Identities=30% Similarity=0.771 Sum_probs=35.2
Q ss_pred cccccccccccccCC--------cc-eEee-CCCCcchHHHHHHHHHhC--CCCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDG--------EM-VRKL-NCKHTFHRDCLDKWLQEY--LATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~--------~~-~~~~-~C~H~f~~~Ci~~w~~~~--~~~CP~Cr~~~ 125 (168)
.++.|-||.-+|... +. .... .|.|.||..||.+|+... +..||+||+.+
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 345788888777421 11 1112 699999999999999743 34699999976
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.23 E-value=5e-07 Score=79.90 Aligned_cols=54 Identities=35% Similarity=0.834 Sum_probs=39.4
Q ss_pred CCCcccccccccccccC--Ccce--EeeCCCCcchHHHHHHHHHhCC-CCCCCCCCcCC
Q 047964 73 SPSESKDCAVCLSDFED--GEMV--RKLNCKHTFHRDCLDKWLQEYL-ATCPLCRTKVL 126 (168)
Q Consensus 73 ~~~~~~~C~IC~~~~~~--~~~~--~~~~C~H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~ 126 (168)
..++.++|+||+..+.. ...+ +...|+|.||..|+..|+..+. .+||+||+.+.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34678899999987651 1111 1136999999999999998543 46999998763
No 36
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=4e-07 Score=53.40 Aligned_cols=46 Identities=24% Similarity=0.662 Sum_probs=35.9
Q ss_pred ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
+++|.||++...+... ..|||. .|+.|-.+.++..+..||+||+++
T Consensus 7 ~dECTICye~pvdsVl---YtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVL---YTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchHHH---HHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 4799999997544432 489997 899998777765557899999987
No 37
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=1.5e-06 Score=69.65 Aligned_cols=47 Identities=28% Similarity=0.729 Sum_probs=37.3
Q ss_pred CcccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
+...+|.||+.+.. ....+||.|. .|..|.+...-+ ...||+||+++
T Consensus 288 ~~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHh-hcCCCccccch
Confidence 44679999998844 3445899997 899999887644 36899999988
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.17 E-value=9.3e-07 Score=72.55 Aligned_cols=50 Identities=36% Similarity=0.903 Sum_probs=40.4
Q ss_pred CcccccccccccccCCc-ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGE-MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
.+.+.||+|+|.+.... .+..+.|.|.||..|+..|.. .+||+||-...+
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~p 223 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQSP 223 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcCc
Confidence 35679999999998765 344568999999999999953 679999976654
No 39
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.15 E-value=3.2e-06 Score=49.41 Aligned_cols=43 Identities=28% Similarity=0.774 Sum_probs=31.2
Q ss_pred ccccccccccCCcceEeeCCC-----CcchHHHHHHHHHhC-CCCCCCCC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCK-----HTFHRDCLDKWLQEY-LATCPLCR 122 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~-~~~CP~Cr 122 (168)
.|.||++.. .+......||. |.+|..|+..|+..+ ..+||+|.
T Consensus 1 ~CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999833 33343456874 789999999999754 34799994
No 40
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.13 E-value=3.8e-07 Score=57.41 Aligned_cols=49 Identities=31% Similarity=0.779 Sum_probs=22.9
Q ss_pred cccccccccccc-CCcceEe----eCCCCcchHHHHHHHHHhC--CC--------CCCCCCCcC
Q 047964 77 SKDCAVCLSDFE-DGEMVRK----LNCKHTFHRDCLDKWLQEY--LA--------TCPLCRTKV 125 (168)
Q Consensus 77 ~~~C~IC~~~~~-~~~~~~~----~~C~H~f~~~Ci~~w~~~~--~~--------~CP~Cr~~~ 125 (168)
+.+|.||+.... .+..... ..|+..||..|+.+|+... .+ .||.|++++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 468999999765 3222222 2689999999999999731 11 499999887
No 41
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.1e-06 Score=68.83 Aligned_cols=45 Identities=36% Similarity=0.824 Sum_probs=38.6
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
.+...|+||++.+..+ ..++|+|.||..|+..++. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 4567999999999999 3379999999999999987 4467999994
No 42
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.5e-06 Score=75.51 Aligned_cols=53 Identities=23% Similarity=0.615 Sum_probs=43.3
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHH
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIV 131 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~ 131 (168)
+-..|+.|-....+.. ++.|+|.||..|+.+.+..+++.||.|-+.|.++++.
T Consensus 642 ~~LkCs~Cn~R~Kd~v---I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAV---ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred hceeCCCccCchhhHH---HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 3457999997655443 3799999999999999998888999999999877654
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.98 E-value=1.4e-06 Score=53.11 Aligned_cols=56 Identities=21% Similarity=0.589 Sum_probs=27.3
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhhHHhH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAKYQHQ 137 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~~~~~ 137 (168)
...|++|.+.+..|..+ ..|.|.||..|+..-+. ..||+|+.+.-.++++-+.+..
T Consensus 7 lLrCs~C~~~l~~pv~l--~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~NrqLd 62 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCL--GGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQINRQLD 62 (65)
T ss_dssp TTS-SSS-S--SS-B-----SSS--B-TTTGGGGTT---TB-SSS--B-S-SS----HHHH
T ss_pred hcCCcHHHHHhcCCcee--ccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHhhhhhh
Confidence 45799999999888652 58999999999977432 3599999998766666655443
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=6.4e-06 Score=66.64 Aligned_cols=46 Identities=26% Similarity=0.888 Sum_probs=34.1
Q ss_pred ccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCC--CCCCCC
Q 047964 77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLA--TCPLCR 122 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~--~CP~Cr 122 (168)
...|.||.+-+.....+..+ .|||+||..|+..|++.... .||.|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 35799995544444444444 59999999999999985433 699998
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.1e-05 Score=65.33 Aligned_cols=51 Identities=31% Similarity=0.834 Sum_probs=38.5
Q ss_pred CcccccccccccccCCc-----ceEeeCCCCcchHHHHHHHHHhCC------CCCCCCCCcC
Q 047964 75 SESKDCAVCLSDFEDGE-----MVRKLNCKHTFHRDCLDKWLQEYL------ATCPLCRTKV 125 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~-----~~~~~~C~H~f~~~Ci~~w~~~~~------~~CP~Cr~~~ 125 (168)
..+..|.||++...... .-...+|.|.||..|+..|-...+ +.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 45789999999876544 111147999999999999985333 5799999865
No 46
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.69 E-value=1.1e-05 Score=65.62 Aligned_cols=50 Identities=28% Similarity=0.661 Sum_probs=38.6
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~ 127 (168)
.....|.||-+. ...+.+-||||..|..|+..|-... .+.||.||..+..
T Consensus 367 sTFeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 367 STFELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred chHHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 345679999886 4444446999999999999998543 4579999988853
No 47
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=5.4e-05 Score=61.79 Aligned_cols=59 Identities=32% Similarity=0.799 Sum_probs=44.1
Q ss_pred cccccccccccccCCcceE--eeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCCCchHHhhH
Q 047964 76 ESKDCAVCLSDFEDGEMVR--KLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVLPDEIVAKY 134 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~--~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~~~~~~~~~ 134 (168)
....|+||++.+..+...+ .+.|||.|..+|++.|+.+. +..||.|........+.+.+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~ 64 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY 64 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence 3578999999987765444 35899999999999999532 23699998776555555543
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=6.6e-06 Score=65.85 Aligned_cols=49 Identities=33% Similarity=0.611 Sum_probs=40.6
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
.+..|+||++-++.... ...|.|.||..||...+......||.||+.+.
T Consensus 42 ~~v~c~icl~llk~tmt--tkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMT--TKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhccHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 45689999998877654 13799999999999988877678999998774
No 49
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=3.7e-05 Score=51.06 Aligned_cols=28 Identities=36% Similarity=0.961 Sum_probs=25.4
Q ss_pred CCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 97 NCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.|+|.||..||.+|++++ ..||+|.++.
T Consensus 80 ~CNHaFH~hCisrWlktr-~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTR-NVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhc-CcCCCcCcce
Confidence 699999999999999986 7899998765
No 50
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=0.00029 Score=54.79 Aligned_cols=50 Identities=24% Similarity=0.447 Sum_probs=38.6
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~ 126 (168)
..+.+|++|-+....|..+ .+|+|+||+.|+..-..-. ...||.|-.+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~--~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVI--GKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeee--ccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4578999999987766652 4799999999998876522 247999987764
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.00012 Score=60.44 Aligned_cols=49 Identities=31% Similarity=0.748 Sum_probs=41.5
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
..+..|.||+..+..+.. +||||.||..|+.+-+.. ...||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv~---tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVV---TPCGHSFCLECLDRSLDQ-ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCcc---ccccccccHHHHHHHhcc-CCCCccccccccc
Confidence 356799999999888877 799999999999997664 3679999999864
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.34 E-value=0.00012 Score=60.71 Aligned_cols=55 Identities=29% Similarity=0.633 Sum_probs=45.7
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA 132 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~ 132 (168)
..+..|++|+..+.+|... +.|||.||..|+..|+.. +..||.|+..+...+...
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELP 73 (391)
T ss_pred cccccCccccccccCCCCC--CCCCCcccccccchhhcc-CcCCcccccccchhhccC
Confidence 5568999999998888762 489999999999999987 588999999886555444
No 53
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.27 E-value=7e-05 Score=65.57 Aligned_cols=48 Identities=25% Similarity=0.549 Sum_probs=36.3
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
..|++|+..+.+.......+|+|.||..|+..|-... ..||+||..+.
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a-qTCPiDR~EF~ 171 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA-QTCPVDRGEFG 171 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc-ccCchhhhhhh
Confidence 3566666655544444345899999999999998864 78999998874
No 54
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.20 E-value=9e-05 Score=58.96 Aligned_cols=50 Identities=28% Similarity=0.660 Sum_probs=42.1
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
....|.+|-..+.++..+ +.|-|.||..||...+... ..||.|...+...
T Consensus 14 ~~itC~LC~GYliDATTI--~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTI--TECLHTFCKSCIVKYLEES-KYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecchhH--HHHHHHHHHHHHHHHHHHh-ccCCccceeccCc
Confidence 456899999999888763 5899999999999999974 7899999877433
No 55
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.09 E-value=0.00039 Score=40.12 Aligned_cols=46 Identities=22% Similarity=0.569 Sum_probs=22.5
Q ss_pred cccccccccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 80 CAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 80 C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
|++|.+++..... ...-+|+..+|..|...-++.....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899998844432 111267899999999888764446899999874
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.05 E-value=0.00058 Score=63.64 Aligned_cols=53 Identities=25% Similarity=0.699 Sum_probs=40.6
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC---------CCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL---------ATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~---------~~CP~Cr~~~~~ 127 (168)
..++.|.||..+--.......+.|+|.||..|.+..++++= -+||+|..++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 45789999997655444445589999999999998887531 179999998853
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.01 E-value=0.00026 Score=57.69 Aligned_cols=46 Identities=33% Similarity=0.770 Sum_probs=35.9
Q ss_pred cccccccccccc-CCcceEeeCCCCcchHHHHHHHHHhC-CCCCCCCC
Q 047964 77 SKDCAVCLSDFE-DGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPLCR 122 (168)
Q Consensus 77 ~~~C~IC~~~~~-~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~Cr 122 (168)
+..|-.|=+.+. .+..+.-+||.|+||..|+.+.+.++ .++||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 457999988764 33445557999999999999999754 34799999
No 58
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.0062 Score=48.69 Aligned_cols=54 Identities=20% Similarity=0.505 Sum_probs=41.2
Q ss_pred CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchH
Q 047964 74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEI 130 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~ 130 (168)
+.+...|++|+...++|..+ .--|-+||+.|+..++.++ ..||+--.+..-+++
T Consensus 297 ~~~~~~CpvClk~r~Nptvl--~vSGyVfCY~Ci~~Yv~~~-~~CPVT~~p~~v~~l 350 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVL--EVSGYVFCYPCIFSYVVNY-GHCPVTGYPASVDHL 350 (357)
T ss_pred CCccccChhHHhccCCCceE--EecceEEeHHHHHHHHHhc-CCCCccCCcchHHHH
Confidence 34567999999998888763 3568999999999999865 789987666544333
No 59
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00034 Score=57.25 Aligned_cols=39 Identities=23% Similarity=0.640 Sum_probs=33.0
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE 113 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~ 113 (168)
.....|.||++...-......+||+|+||..|+..++..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI 220 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence 346789999998776677778899999999999999863
No 60
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.93 E-value=0.0013 Score=47.36 Aligned_cols=48 Identities=21% Similarity=0.639 Sum_probs=34.4
Q ss_pred CcccccccccccccCCcceEeeCCCC-----cchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKH-----TFHRDCLDKWLQEY-LATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~-~~~CP~Cr~~~~ 126 (168)
..+..|-||.+.-.... .||.. ..|..|+..|+..+ ...|+.|..+..
T Consensus 6 ~~~~~CRIC~~~~~~~~----~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDVVT----NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCCcc----CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 45679999998843221 36543 35999999999854 347999998773
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.88 E-value=0.00041 Score=51.65 Aligned_cols=44 Identities=25% Similarity=0.572 Sum_probs=37.2
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
..|.||-.+|..|.. +.|||.||..|...-++.. ..|-.|-...
T Consensus 197 F~C~iCKkdy~spvv---t~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVV---TECGHSFCSLCAIRKYQKG-DECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhh---hhcchhHHHHHHHHHhccC-Ccceecchhh
Confidence 479999999999887 8999999999988777654 6799997654
No 62
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.0013 Score=49.92 Aligned_cols=51 Identities=29% Similarity=0.788 Sum_probs=42.2
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC-------CCCCCCCCcCCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL-------ATCPLCRTKVLP 127 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~-------~~CP~Cr~~~~~ 127 (168)
....|..|-..+..++.++ +-|-|.||.+|+.+|-.+-. ..||.|..++.+
T Consensus 49 Y~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 3568999999999998876 78999999999999986421 279999998854
No 63
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.75 E-value=0.00087 Score=53.76 Aligned_cols=53 Identities=21% Similarity=0.434 Sum_probs=36.8
Q ss_pred cccccccccccccCCcceEe-eCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 76 ESKDCAVCLSDFEDGEMVRK-LNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
+++.|+.|++++...+.-.. -+||-..|..|...--+.-..+||-||+....+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 34569999999876654222 378988888887665443334799999866543
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.75 E-value=0.00099 Score=56.35 Aligned_cols=50 Identities=26% Similarity=0.687 Sum_probs=39.5
Q ss_pred CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC----CCCCCCCCCcCC
Q 047964 74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY----LATCPLCRTKVL 126 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~----~~~CP~Cr~~~~ 126 (168)
..+..+|.+|.++-++... ..|.|.||..|+.++.... .-+||.|...+.
T Consensus 533 nk~~~~C~lc~d~aed~i~---s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIE---SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhhhhHh---hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 3456799999998777665 7999999999998887532 237999988774
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=0.0026 Score=51.36 Aligned_cols=49 Identities=24% Similarity=0.533 Sum_probs=39.6
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
.++..|+||... |......||+|.-|+.||.+-+.+. +.|=.|+..+.+
T Consensus 420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~-k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNC-KRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcC-CeeeEecceeee
Confidence 567899999876 4443347999999999999999876 789999887754
No 66
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.72 E-value=0.00057 Score=41.10 Aligned_cols=43 Identities=30% Similarity=0.654 Sum_probs=28.2
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC-CCCCCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY-LATCPL 120 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~-~~~CP~ 120 (168)
....|||....+.+|.. ...|+|.|-...|..|+.++ ...||.
T Consensus 10 ~~~~CPiT~~~~~~PV~--s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVK--SKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEE--ESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcC--cCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 35689999999988754 35899999999999999432 236997
No 67
>PHA02862 5L protein; Provisional
Probab=96.65 E-value=0.0019 Score=45.72 Aligned_cols=46 Identities=26% Similarity=0.606 Sum_probs=33.4
Q ss_pred ccccccccccccCCcceEeeCCC-----CcchHHHHHHHHHhCC-CCCCCCCCcCC
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCK-----HTFHRDCLDKWLQEYL-ATCPLCRTKVL 126 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~w~~~~~-~~CP~Cr~~~~ 126 (168)
++.|-||.+.-.+.. -||. ...|..|+.+|+..++ ..||.|+.+..
T Consensus 2 ~diCWIC~~~~~e~~----~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDERN----NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCCc----ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 467999998744332 4653 2479999999997443 36999998874
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.64 E-value=0.00087 Score=52.90 Aligned_cols=51 Identities=31% Similarity=0.783 Sum_probs=40.6
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHh-----------------C-----CCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE-----------------Y-----LATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-----------------~-----~~~CP~Cr~~~~ 126 (168)
....|.||+--|..+.....++|.|.||..|+-+++.. + +..||+||-.+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 35689999999998887777899999999999877631 0 115999998774
No 69
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.00084 Score=52.83 Aligned_cols=45 Identities=24% Similarity=0.453 Sum_probs=38.2
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
..|-||..+|..|.. +.|+|.||..|...-++.. ..|++|-++..
T Consensus 242 f~c~icr~~f~~pVv---t~c~h~fc~~ca~~~~qk~-~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVV---TKCGHYFCEVCALKPYQKG-EKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccchh---hcCCceeehhhhccccccC-Ccceecccccc
Confidence 469999999999987 8999999999987766653 67999988763
No 70
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0021 Score=51.88 Aligned_cols=44 Identities=27% Similarity=0.674 Sum_probs=31.2
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
...+.|.||.++..+... +||||.-| |..-.. +...||+||+.+
T Consensus 303 ~~p~lcVVcl~e~~~~~f---vpcGh~cc--ct~cs~--~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVF---VPCGHVCC--CTLCSK--HLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccceee---ecCCcEEE--chHHHh--hCCCCchhHHHH
Confidence 346789999998665443 89999855 544332 335699999876
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.39 E-value=0.0016 Score=52.40 Aligned_cols=49 Identities=24% Similarity=0.569 Sum_probs=35.8
Q ss_pred CCcccccccccccccCCcceEeeCCCCcchHHHHHHHHH-hCCCCCCCCCCcC
Q 047964 74 PSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ-EYLATCPLCRTKV 125 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~-~~~~~CP~Cr~~~ 125 (168)
.++...|.||-+.+..... +||+|..|--|..+.-. -.++.||.||...
T Consensus 58 DEen~~C~ICA~~~TYs~~---~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGSTTYSAR---YPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccceeEEecCCceEEEe---ccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3556789999987655443 79999999889654332 2346899999876
No 72
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.35 E-value=0.0027 Score=42.63 Aligned_cols=33 Identities=27% Similarity=0.680 Sum_probs=26.3
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHH
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLD 108 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~ 108 (168)
.++..|++|...+..+.. ...||||.+|..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f-~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVF-VVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceE-EEeCCCeEEeccccc
Confidence 346789999999887543 346999999999974
No 73
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.34 E-value=0.0031 Score=49.89 Aligned_cols=43 Identities=26% Similarity=0.592 Sum_probs=36.7
Q ss_pred cccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 78 KDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
..|+.|..-+.++.. + .|+|.||..||...+......||.|.+
T Consensus 275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCccc
Confidence 689999988777765 5 689999999999988876678999976
No 74
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.005 Score=49.01 Aligned_cols=49 Identities=31% Similarity=0.776 Sum_probs=39.2
Q ss_pred ccccccccccccCCc---ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 77 SKDCAVCLSDFEDGE---MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~---~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
...|-||-++|...+ ..+.+.|||.+|..|+...+......||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 357999999987653 3444689999999999988876655799999983
No 75
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.17 E-value=0.0049 Score=47.45 Aligned_cols=55 Identities=15% Similarity=0.321 Sum_probs=45.2
Q ss_pred ccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964 77 SKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA 132 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~ 132 (168)
...|++|.+.+.+......+ +|||+++.+|.+..+... ..||+|-.++...++-.
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-MVDPVTDKPLKDRDIIG 276 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-ccccCCCCcCcccceEe
Confidence 45799999999988876666 999999999999987654 78999999887666543
No 76
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.00099 Score=52.37 Aligned_cols=41 Identities=27% Similarity=0.699 Sum_probs=31.9
Q ss_pred ccccccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
+..|+||++. |.....++|||. -|.+|-... ..||+||+-+
T Consensus 300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKRM-----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcC---CcceEEeecCcEEeehhhcccc-----ccCchHHHHH
Confidence 6689999987 444455899996 699997653 4799999865
No 77
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.03 E-value=0.012 Score=52.45 Aligned_cols=44 Identities=23% Similarity=0.705 Sum_probs=35.0
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
+...|..|-..+.-|... -.|||.||..|+. .+...||.|+...
T Consensus 839 q~skCs~C~~~LdlP~Vh--F~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVH--FLCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccceee--eecccHHHHHhhc----cCcccCCccchhh
Confidence 357899999988887652 4899999999997 2346799998744
No 78
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.02 E-value=0.0022 Score=46.26 Aligned_cols=30 Identities=30% Similarity=0.928 Sum_probs=26.2
Q ss_pred CcccccccccccccCCcceEeeCCCCcchH
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHR 104 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~ 104 (168)
.+..+|.||+|++..++.+..+||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 345699999999999999999999988885
No 79
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.98 E-value=0.0045 Score=35.65 Aligned_cols=41 Identities=37% Similarity=0.941 Sum_probs=25.4
Q ss_pred cccccccccCCcceEeeCC--CC---cchHHHHHHHHHhC-CCCCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNC--KH---TFHRDCLDKWLQEY-LATCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C--~H---~f~~~Ci~~w~~~~-~~~CP~C 121 (168)
|-||++.-.....+ ..|| +- ..|..|+..|+... ...|+.|
T Consensus 1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 67898876555422 2465 33 57999999999843 3468877
No 80
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.81 E-value=0.004 Score=55.35 Aligned_cols=50 Identities=26% Similarity=0.713 Sum_probs=37.1
Q ss_pred CcccccccccccccCCcce-EeeCCCCcchHHHHHHHHHhCC------CCCCCCCCc
Q 047964 75 SESKDCAVCLSDFEDGEMV-RKLNCKHTFHRDCLDKWLQEYL------ATCPLCRTK 124 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~w~~~~~------~~CP~Cr~~ 124 (168)
.+..+|.||.+.+.....+ .-..|-|+||..||..|-.+.. ..||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4567999999988755432 1136889999999999996432 279999854
No 81
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.63 E-value=0.0052 Score=36.36 Aligned_cols=46 Identities=26% Similarity=0.507 Sum_probs=31.7
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
...|..|...-..+. .++|+|..|..|..-+ +-+.||.|-+++...
T Consensus 7 ~~~~~~~~~~~~~~~---~~pCgH~I~~~~f~~~---rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGT---VLPCGHLICDNCFPGE---RYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEccccccccc---cccccceeeccccChh---hccCCCCCCCcccCC
Confidence 345666665533333 3799999999997654 335799999988654
No 82
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.54 E-value=0.0058 Score=46.90 Aligned_cols=44 Identities=25% Similarity=0.602 Sum_probs=31.5
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
-|--|..--. ++...++.|+|+||..|...- ....||+|++++.
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccC---Cccccccccceee
Confidence 3666655433 566667899999999998653 2237999999873
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.38 E-value=0.0099 Score=33.56 Aligned_cols=42 Identities=26% Similarity=0.767 Sum_probs=22.8
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC-CCCCC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLC 121 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~-~CP~C 121 (168)
|.+|.+....+..-....|+-.+|..|+..++..... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 5677777666654322358889999999999975433 59987
No 84
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.33 E-value=0.013 Score=46.97 Aligned_cols=43 Identities=28% Similarity=0.634 Sum_probs=35.0
Q ss_pred cccccccccccccCCcceEeeCC--CCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNC--KHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C--~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
+-.+||||.+.+..|+. .| ||..|..|-... ...||.||-++.
T Consensus 47 ~lleCPvC~~~l~~Pi~----QC~nGHlaCssC~~~~----~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIF----QCDNGHLACSSCRTKV----SNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcccce----ecCCCcEehhhhhhhh----cccCCccccccc
Confidence 45689999999998874 67 799999997542 357999999986
No 85
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=95.25 E-value=0.0082 Score=42.16 Aligned_cols=36 Identities=19% Similarity=0.624 Sum_probs=27.6
Q ss_pred ccccccccccccCCcceEeeCCC------CcchHHHHHHHHH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCK------HTFHRDCLDKWLQ 112 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~------H~f~~~Ci~~w~~ 112 (168)
..+|.||++.+.....+..++|| |.||..|+..|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 56899999999884444445663 6799999999943
No 86
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.02 Score=42.13 Aligned_cols=31 Identities=32% Similarity=0.962 Sum_probs=24.6
Q ss_pred eCCCCcchHHHHHHHHHh----CCC------CCCCCCCcCC
Q 047964 96 LNCKHTFHRDCLDKWLQE----YLA------TCPLCRTKVL 126 (168)
Q Consensus 96 ~~C~H~f~~~Ci~~w~~~----~~~------~CP~Cr~~~~ 126 (168)
..||.-||.-|+..|+.. +++ .||.|..++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 479999999999999963 212 6999988873
No 87
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.18 E-value=0.025 Score=44.44 Aligned_cols=52 Identities=19% Similarity=0.372 Sum_probs=39.2
Q ss_pred CcccccccccccccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 75 SESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
.....|||....+........+ +|||+|...++...- ....||.|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccC
Confidence 4456899999998654443334 999999999999873 235799999988644
No 88
>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=94.98 E-value=0.026 Score=44.45 Aligned_cols=48 Identities=23% Similarity=0.611 Sum_probs=36.3
Q ss_pred cccccccc-ccCCcceEee-CCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 79 DCAVCLSD-FEDGEMVRKL-NCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 79 ~C~IC~~~-~~~~~~~~~~-~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
.||+|... |.+|...... +|+|..|..|....+..+...||-|-..+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 58888764 4444433323 899999999999999887778999976653
No 89
>PHA03096 p28-like protein; Provisional
Probab=94.90 E-value=0.019 Score=45.67 Aligned_cols=46 Identities=30% Similarity=0.575 Sum_probs=31.2
Q ss_pred cccccccccccCCcc----eEe-eCCCCcchHHHHHHHHHhCC--CCCCCCCC
Q 047964 78 KDCAVCLSDFEDGEM----VRK-LNCKHTFHRDCLDKWLQEYL--ATCPLCRT 123 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~----~~~-~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~ 123 (168)
..|.||++....... -.. ..|.|.||..|+..|..... ..||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 689999997543211 111 37999999999999997442 24555554
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.61 E-value=0.027 Score=44.39 Aligned_cols=45 Identities=27% Similarity=0.615 Sum_probs=35.8
Q ss_pred cccccccccccCCcc-eEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 78 KDCAVCLSDFEDGEM-VRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
..||||.+.+..... +..++|||..|..|.......+ ..||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 349999997755443 2236999999999999988776 89999988
No 91
>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=94.47 E-value=0.019 Score=44.20 Aligned_cols=47 Identities=30% Similarity=0.716 Sum_probs=35.5
Q ss_pred ccccccccccc-ccCCcceEee-C-CCCcchHHHHHHHHHhCCCCCC--CCC
Q 047964 76 ESKDCAVCLSD-FEDGEMVRKL-N-CKHTFHRDCLDKWLQEYLATCP--LCR 122 (168)
Q Consensus 76 ~~~~C~IC~~~-~~~~~~~~~~-~-C~H~f~~~Ci~~w~~~~~~~CP--~Cr 122 (168)
.+..||+|..+ +-+|.....+ | |-|.+|..|..+-+..+...|| -|-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 35689999975 3444433323 5 9999999999999998877899 664
No 92
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=94.33 E-value=0.054 Score=39.09 Aligned_cols=55 Identities=27% Similarity=0.672 Sum_probs=35.2
Q ss_pred ccccccccccccCCcceEe---------eCCCCc-chHHHHHHHHHhC------------------------------CC
Q 047964 77 SKDCAVCLSDFEDGEMVRK---------LNCKHT-FHRDCLDKWLQEY------------------------------LA 116 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~---------~~C~H~-f~~~Ci~~w~~~~------------------------------~~ 116 (168)
+-.|+|||+...+...+.- .-|+.. -|..|+++.-+.. +-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 5689999998655543221 125544 4788998765321 11
Q ss_pred CCCCCCCcCCCchHH
Q 047964 117 TCPLCRTKVLPDEIV 131 (168)
Q Consensus 117 ~CP~Cr~~~~~~~~~ 131 (168)
.||+||..+..+...
T Consensus 82 ~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 82 ACPLCRGEVKGWTVV 96 (162)
T ss_pred cCccccCceeceEEc
Confidence 599999999766544
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.16 E-value=0.016 Score=51.32 Aligned_cols=51 Identities=27% Similarity=0.628 Sum_probs=38.2
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC-CCCCCCCcCCCchHHh
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA-TCPLCRTKVLPDEIVA 132 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~-~CP~Cr~~~~~~~~~~ 132 (168)
..|.+|.+ ......++|+|.||..|+...+..... .||.||..+....+..
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 223334799999999999988875433 5999998875555444
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.09 E-value=0.021 Score=45.44 Aligned_cols=42 Identities=31% Similarity=0.588 Sum_probs=26.8
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.|.-|=-.+. +.=+.++|+|+||.+|...- ..+.||.|-..+
T Consensus 92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~~---~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIPCKHVFCLECARSD---SDKICPLCDDRV 133 (389)
T ss_pred eecccCCcce--eeecccccchhhhhhhhhcC---ccccCcCcccHH
Confidence 4666643322 22234699999999998642 236899996543
No 95
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.85 E-value=0.49 Score=33.24 Aligned_cols=54 Identities=15% Similarity=0.485 Sum_probs=38.4
Q ss_pred cccccccccccccCCcceEee-CCCCcchHHHHHHHHHh--CCCCCCCCCCcCCCch
Q 047964 76 ESKDCAVCLSDFEDGEMVRKL-NCKHTFHRDCLDKWLQE--YLATCPLCRTKVLPDE 129 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~w~~~--~~~~CP~Cr~~~~~~~ 129 (168)
.-.+|-||.|...+...+..- -||-..|.-|.-..|+- -...||.|++++.+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 357999999987665542211 48999999997776652 2347999999985543
No 96
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.65 E-value=0.097 Score=47.12 Aligned_cols=37 Identities=27% Similarity=0.554 Sum_probs=28.3
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHH
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ 112 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~ 112 (168)
+.++.|.+|...+..... .+-||||.||..|+..-..
T Consensus 815 ep~d~C~~C~~~ll~~pF-~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPF-YVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhcCcc-eeeeccchHHHHHHHHHHH
Confidence 457899999988765433 2359999999999987653
No 97
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.64 E-value=0.069 Score=47.73 Aligned_cols=54 Identities=20% Similarity=0.575 Sum_probs=38.0
Q ss_pred CCCCcccccccccccccCCcceEeeCCCC-----cchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964 72 KSPSESKDCAVCLSDFEDGEMVRKLNCKH-----TFHRDCLDKWLQEY-LATCPLCRTKVL 126 (168)
Q Consensus 72 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H-----~f~~~Ci~~w~~~~-~~~CP~Cr~~~~ 126 (168)
.+.+++..|.||..+-..+..+. -||+. ..|.+|+.+|+.-+ +..|-.|..++.
T Consensus 7 ~mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 7 PMNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CCCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 34466789999998755555422 36643 27999999999843 336999997764
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=93.46 E-value=0.057 Score=44.26 Aligned_cols=31 Identities=29% Similarity=0.809 Sum_probs=24.0
Q ss_pred CCCcchHHHHHHHHHhCCC------------CCCCCCCcCCCc
Q 047964 98 CKHTFHRDCLDKWLQEYLA------------TCPLCRTKVLPD 128 (168)
Q Consensus 98 C~H~f~~~Ci~~w~~~~~~------------~CP~Cr~~~~~~ 128 (168)
|....|.+|+-+|+..++. .||+||+.+.-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 5666799999999975432 699999988643
No 99
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.44 E-value=0.036 Score=42.12 Aligned_cols=38 Identities=32% Similarity=0.721 Sum_probs=29.1
Q ss_pred cccccccccCCcceEeeCCCCc-chHHHHHHHHHhCCCCCCCCCCcC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHT-FHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
|..|.+. +..+..+||.|. +|..|-.. ...||+|+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES-----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc-----CccCCCCcChh
Confidence 8888775 566667899987 78888643 35699998865
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.26 E-value=0.09 Score=43.22 Aligned_cols=50 Identities=22% Similarity=0.376 Sum_probs=40.0
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCC--CCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYL--ATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~--~~CP~Cr~~~ 125 (168)
....|||=.+.-.+...+..+.|||+...+.+....+++. ..||.|-..-
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 3457999888776666667789999999999999888775 4699996554
No 101
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=92.67 E-value=0.042 Score=31.47 Aligned_cols=44 Identities=23% Similarity=0.660 Sum_probs=23.5
Q ss_pred cccccccccccCCcceEeeCCC-CcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCK-HTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~-H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
..|.-|+-. .... +.|. |..|..|+...+..+ ..||+|..+++.
T Consensus 3 ~nCKsCWf~--~k~L---i~C~dHYLCl~CLt~ml~~s-~~C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWFA--NKGL---IKCSDHYLCLNCLTLMLSRS-DRCPICGKPLPT 47 (50)
T ss_dssp ----SS-S----SSE---EE-SS-EEEHHHHHHT-SSS-SEETTTTEE---
T ss_pred ccChhhhhc--CCCe---eeecchhHHHHHHHHHhccc-cCCCcccCcCcc
Confidence 346667643 2222 5784 888999999888764 789999888743
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.48 E-value=0.093 Score=40.79 Aligned_cols=52 Identities=27% Similarity=0.713 Sum_probs=34.3
Q ss_pred CCcccccccccccccCCcce-EeeCC-----CCcchHHHHHHHHHhCCC-------CCCCCCCcC
Q 047964 74 PSESKDCAVCLSDFEDGEMV-RKLNC-----KHTFHRDCLDKWLQEYLA-------TCPLCRTKV 125 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~-~~~~C-----~H~f~~~Ci~~w~~~~~~-------~CP~Cr~~~ 125 (168)
.+.+..|-||...=.+...- -.-|| .|..|..|+..|..+.+. +||.|++..
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 34567899998753322210 01265 366899999999964322 699999876
No 103
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=91.06 E-value=0.16 Score=45.25 Aligned_cols=24 Identities=29% Similarity=0.783 Sum_probs=20.7
Q ss_pred eCCCCcchHHHHHHHHHhCCCCCCC
Q 047964 96 LNCKHTFHRDCLDKWLQEYLATCPL 120 (168)
Q Consensus 96 ~~C~H~f~~~Ci~~w~~~~~~~CP~ 120 (168)
..|+|+.|..|...|+..+ ..||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcC-CcCCC
Confidence 4799999999999999976 67874
No 104
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.019 Score=46.97 Aligned_cols=52 Identities=21% Similarity=0.600 Sum_probs=41.4
Q ss_pred ccccccccccccCC-cceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCch
Q 047964 77 SKDCAVCLSDFEDG-EMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDE 129 (168)
Q Consensus 77 ~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~ 129 (168)
...|+||.+.+... ..+..+-|||.+|..|+..|+.. ...||.|++.+....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhhhh
Confidence 45899999988755 33334689999999999999987 377999999885443
No 105
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.13 E-value=0.19 Score=39.85 Aligned_cols=31 Identities=26% Similarity=0.623 Sum_probs=24.0
Q ss_pred CCCCcchHHHHHHHHHhCCC------------CCCCCCCcCCC
Q 047964 97 NCKHTFHRDCLDKWLQEYLA------------TCPLCRTKVLP 127 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w~~~~~~------------~CP~Cr~~~~~ 127 (168)
-|....|..|+-+|+..++. .||+||+.+.-
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 36777899999999964422 79999998753
No 106
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.84 E-value=0.16 Score=47.53 Aligned_cols=48 Identities=25% Similarity=0.622 Sum_probs=37.9
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.+...|.||.+.+..-..+ ..|||.+|..|...|+..+ ..||.|....
T Consensus 1151 ~~~~~c~ic~dil~~~~~I--~~cgh~~c~~c~~~~l~~~-s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGI--AGCGHEPCCRCDELWLYAS-SRCPICKSIK 1198 (1394)
T ss_pred hcccchHHHHHHHHhcCCe--eeechhHhhhHHHHHHHHh-ccCcchhhhh
Confidence 3556899999987733332 6899999999999999864 7899998543
No 107
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.56 E-value=0.16 Score=44.79 Aligned_cols=53 Identities=25% Similarity=0.695 Sum_probs=39.9
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHh--CCCCCCCCCCcCCCchHHh
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE--YLATCPLCRTKVLPDEIVA 132 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~--~~~~CP~Cr~~~~~~~~~~ 132 (168)
..+|+||...+..+.. +.|.|.|+..|+..-+.. ....||+|+..+.......
T Consensus 21 ~lEc~ic~~~~~~p~~---~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E 75 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSL---LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE 75 (684)
T ss_pred hccCCceeEEeeccch---hhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence 5789999999888854 799999999998755542 2346999998775444433
No 108
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=87.78 E-value=0.35 Score=40.51 Aligned_cols=36 Identities=28% Similarity=0.603 Sum_probs=30.1
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE 113 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~ 113 (168)
+++..|+||-.-|.+|+. ++|+|..|..|...-+.+
T Consensus 2 eeelkc~vc~~f~~epii---l~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPII---LPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCceE---eecccHHHHHHHHhhccc
Confidence 456789999999888876 899999999998876543
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.23 E-value=2.4 Score=35.26 Aligned_cols=38 Identities=24% Similarity=0.775 Sum_probs=27.2
Q ss_pred cccccccccccccCC-cceEeeCCCCcchHHHHHHHHHh
Q 047964 76 ESKDCAVCLSDFEDG-EMVRKLNCKHTFHRDCLDKWLQE 113 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~w~~~ 113 (168)
....|.||......+ .......|+|.||..|....++.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 356899999443333 33223589999999999988874
No 110
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.70 E-value=0.61 Score=40.93 Aligned_cols=40 Identities=30% Similarity=0.602 Sum_probs=29.0
Q ss_pred ccccccccccccCCc-ceEeeCCCCcchHHHHHHHHHhCCCCCC
Q 047964 77 SKDCAVCLSDFEDGE-MVRKLNCKHTFHRDCLDKWLQEYLATCP 119 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP 119 (168)
...|.||+..+.... ..+.+.|||..|..|...... .+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC
Confidence 457999987765433 233368999999999987643 5788
No 111
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.34 E-value=0.75 Score=36.60 Aligned_cols=52 Identities=27% Similarity=0.641 Sum_probs=34.4
Q ss_pred CcccccccccccccCCcc-eEeeCCC-----CcchHHHHHHHHHhC-CCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGEM-VRKLNCK-----HTFHRDCLDKWLQEY-LATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~-~~~~~C~-----H~f~~~Ci~~w~~~~-~~~CP~Cr~~~~ 126 (168)
.++..|.||.+....... ....||. ...|..|+..|+..+ ...|..|.....
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 345789999997554321 1224652 236999999999732 346999988663
No 112
>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=80.96 E-value=1.5 Score=25.33 Aligned_cols=44 Identities=27% Similarity=0.532 Sum_probs=18.6
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHH----hCCCCCCCCCCc
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ----EYLATCPLCRTK 124 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~----~~~~~CP~Cr~~ 124 (168)
..|++....+..|. +...|.|.-|.+ +..|+. .+...||.|.++
T Consensus 3 L~CPls~~~i~~P~--Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPV--RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEE--EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCc--cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 36888877766554 346899973321 334443 333479999763
No 113
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=80.45 E-value=2.6 Score=34.11 Aligned_cols=65 Identities=23% Similarity=0.394 Sum_probs=41.6
Q ss_pred HHhCCCcccchhhhccCCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 56 EEKNPTISYKKSMLMKKSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
.-..|..++.+....+. .....|-.|.+........+--.|.+.||.+|-.- .......||.|..
T Consensus 311 hhL~PL~~F~Eip~~~~--~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~-iHesLh~CpgCeh 375 (378)
T KOG2807|consen 311 HHLFPLKPFVEIPETEY--NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVF-IHESLHNCPGCEH 375 (378)
T ss_pred HhhcCCcchhhcccccc--CCCcceeeeccccCCCCcEEchhccceeeccchHH-HHhhhhcCCCcCC
Confidence 34445555555544432 23445999987777666655568999999999543 3333457999964
No 114
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=80.19 E-value=1.7 Score=34.20 Aligned_cols=48 Identities=25% Similarity=0.568 Sum_probs=33.1
Q ss_pred cccccccccccCCcceEe----eCCCCcchHHHHHHHHHh-C-------CCCCCCCCCcC
Q 047964 78 KDCAVCLSDFEDGEMVRK----LNCKHTFHRDCLDKWLQE-Y-------LATCPLCRTKV 125 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~----~~C~H~f~~~Ci~~w~~~-~-------~~~CP~Cr~~~ 125 (168)
.+|.+|...+.+....+. ..|+...|..|+-..+.. . ...||.|++-+
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 589999999854443332 258888999999884432 1 12699999854
No 115
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=78.27 E-value=1.8 Score=34.84 Aligned_cols=47 Identities=23% Similarity=0.376 Sum_probs=33.9
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCC--CCCCCCC
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLA--TCPLCRT 123 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~--~CP~Cr~ 123 (168)
-..||+--+.-.....+..+.|||+.-...+...-+++.. .||.|-.
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 3468887666555555555899999999998887765533 5999943
No 116
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=78.25 E-value=8.5 Score=34.69 Aligned_cols=40 Identities=23% Similarity=0.467 Sum_probs=27.2
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPL 120 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~ 120 (168)
.|.+|-..+..-.. ----|+|.-|..|++.|+... ..||.
T Consensus 781 ~CtVC~~vi~G~~~-~c~~C~H~gH~sh~~sw~~~~-s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDV-WCQVCGHGGHDSHLKSWFFKA-SPCAK 820 (839)
T ss_pred CceeecceeeeeEe-ecccccccccHHHHHHHHhcC-CCCcc
Confidence 67788665432211 113699999999999999865 55655
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.55 E-value=4.1 Score=34.47 Aligned_cols=37 Identities=22% Similarity=0.679 Sum_probs=29.5
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHh
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQE 113 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~ 113 (168)
.....|.||.+.+.. .+..+.|+|.||..|+...+..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 456789999998765 3334699999999999988864
No 118
>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=75.82 E-value=2.3 Score=24.86 Aligned_cols=25 Identities=40% Similarity=0.822 Sum_probs=13.6
Q ss_pred CCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964 97 NCKHTFHRDCLDKWLQEYLATCPLCR 122 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr 122 (168)
.|++.||.+|=.- .......||-|-
T Consensus 26 ~C~~~FC~dCD~f-iHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVF-IHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHT-TTTTS-SSSTT-
T ss_pred CCCCccccCcChh-hhccccCCcCCC
Confidence 6899999999432 233345799884
No 119
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=75.29 E-value=2.6 Score=31.78 Aligned_cols=41 Identities=34% Similarity=0.780 Sum_probs=26.2
Q ss_pred cccccccccc-c----cCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 77 SKDCAVCLSD-F----EDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 77 ~~~C~IC~~~-~----~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
+..|.+|.+. . +.....+--.|+..||..|.. +..||.|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~------~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR------KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC------CCCCCCcHh
Confidence 4568888752 2 222222223789999999975 256999954
No 120
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=74.34 E-value=4.5 Score=23.89 Aligned_cols=34 Identities=38% Similarity=0.858 Sum_probs=25.0
Q ss_pred cccccccccccccCCcce-EeeCCCCcchHHHHHH
Q 047964 76 ESKDCAVCLSDFEDGEMV-RKLNCKHTFHRDCLDK 109 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~ 109 (168)
....|++|-+.+.++..+ .-..|+--+|..|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 356899999999744433 3347999999999654
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=73.42 E-value=2.6 Score=34.13 Aligned_cols=48 Identities=19% Similarity=0.397 Sum_probs=33.5
Q ss_pred cccccccccccCCcceE-eeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 78 KDCAVCLSDFEDGEMVR-KLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
..|++|.+......... -.+|++..|..|+..-... ..+||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~-~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG-DGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhccccc-CCCCCccCCccc
Confidence 68999999764333222 1367888888888776554 378999997664
No 122
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=73.39 E-value=1.3 Score=38.62 Aligned_cols=24 Identities=33% Similarity=0.906 Sum_probs=18.1
Q ss_pred eCCCCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 96 LNCKHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 96 ~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
..|+++||..|+.. ....||.|-+
T Consensus 535 ~~C~avfH~~C~~r----~s~~CPrC~R 558 (580)
T KOG1829|consen 535 STCLAVFHKKCLRR----KSPCCPRCER 558 (580)
T ss_pred HHHHHHHHHHHHhc----cCCCCCchHH
Confidence 47999999999764 2345999943
No 123
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=72.49 E-value=2.2 Score=32.39 Aligned_cols=47 Identities=28% Similarity=0.635 Sum_probs=34.2
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.-..|.+|..-...+.. --+|+-.+|..|+...+.. ...||.|-.-+
T Consensus 180 nlk~Cn~Ch~LvIqg~r--Cg~c~i~~h~~c~qty~q~-~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIR--CGSCNIQYHRGCIQTYLQR-RDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhheeec--cCcccchhhhHHHHHHhcc-cCcCCchhccc
Confidence 34689999986555433 1367777999999999987 47899995433
No 124
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.69 E-value=4.7 Score=28.47 Aligned_cols=52 Identities=23% Similarity=0.509 Sum_probs=29.4
Q ss_pred CCcccccccccc-cccCCcceEeeCCCCcchHHHHHHHHHh-CCC--CCCCCCCcC
Q 047964 74 PSESKDCAVCLS-DFEDGEMVRKLNCKHTFHRDCLDKWLQE-YLA--TCPLCRTKV 125 (168)
Q Consensus 74 ~~~~~~C~IC~~-~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~--~CP~Cr~~~ 125 (168)
..++..|.||.. .|.++....-..|...||+.|--..-.. ++- .|-.|+...
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 356789999987 4555543322345556666664433222 111 488887643
No 125
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.56 E-value=3.8 Score=32.05 Aligned_cols=49 Identities=16% Similarity=0.241 Sum_probs=33.9
Q ss_pred ccccccccccccCCcceE-eeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 77 SKDCAVCLSDFEDGEMVR-KLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
...|||--.++.....-. .-+|||+|-...+.+.- ...|++|...+..+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQED 160 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCccccc
Confidence 457988776665444322 23999999988887652 35799999887533
No 126
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.01 E-value=2.6 Score=35.12 Aligned_cols=43 Identities=23% Similarity=0.417 Sum_probs=28.4
Q ss_pred ccccccccccccCCc--ceEeeCCCCcchHHHHHHHHHhCCCCCCC
Q 047964 77 SKDCAVCLSDFEDGE--MVRKLNCKHTFHRDCLDKWLQEYLATCPL 120 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~--~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~ 120 (168)
-..|+.|...+.... ...+-.|||.||+.|...|...+ ..|..
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~-~~~~~ 350 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHN-GECYE 350 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCC-ccccC
Confidence 457888887654333 22222599999999999997753 44533
No 127
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.69 E-value=2.9 Score=33.21 Aligned_cols=35 Identities=23% Similarity=0.617 Sum_probs=28.6
Q ss_pred cccccccccccccCCcceEeeCC----CCcchHHHHHHHHHh
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNC----KHTFHRDCLDKWLQE 113 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C----~H~f~~~Ci~~w~~~ 113 (168)
....|.+|.|.+.+... +.| .|.||..|-++-.+.
T Consensus 267 apLcCTLC~ERLEDTHF---VQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHF---VQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCce---eecCCCcccceecccCHHHHHh
Confidence 34689999999988776 455 799999999988874
No 128
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.41 E-value=2.6 Score=36.65 Aligned_cols=45 Identities=36% Similarity=0.809 Sum_probs=33.7
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
+..+.|.+|++.. ..+..+|. |..|+..|+..+ ..||.|+.....
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~-~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQ-EVCPLCHTYMKE 521 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhc-cccCCCchhhhc
Confidence 3467899999987 22335777 788999998753 789999887643
No 129
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=63.44 E-value=2.9 Score=37.82 Aligned_cols=51 Identities=16% Similarity=0.219 Sum_probs=33.7
Q ss_pred cccccccccccccCC---cceEe-eCCCCcchHHHHHHHHHhC-----CCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDG---EMVRK-LNCKHTFHRDCLDKWLQEY-----LATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~---~~~~~-~~C~H~f~~~Ci~~w~~~~-----~~~CP~Cr~~~~ 126 (168)
+...|.+|...+..+ ..+.. -.|+|.+|..||..|..+- +-.|+.|...+.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 445677777776652 22111 1499999999999998632 125788877663
No 130
>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=63.24 E-value=3.7 Score=23.94 Aligned_cols=14 Identities=29% Similarity=0.721 Sum_probs=7.9
Q ss_pred CCCCCCCcCCCchH
Q 047964 117 TCPLCRTKVLPDEI 130 (168)
Q Consensus 117 ~CP~Cr~~~~~~~~ 130 (168)
.||+|.+++.+++.
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 79999999976665
No 131
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=61.07 E-value=11 Score=23.92 Aligned_cols=51 Identities=25% Similarity=0.492 Sum_probs=21.4
Q ss_pred cccccccccccccCC---c-ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDG---E-MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~---~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||=+..... . .+.-..|+--.|..|.+-=.+...+.||.|++...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 356899998875322 1 11112566667999988766666678999998763
No 132
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.63 E-value=9.1 Score=29.93 Aligned_cols=38 Identities=16% Similarity=0.225 Sum_probs=30.7
Q ss_pred CCCCcccccccccccccCCcceEeeCCCCcchHHHHHHHHH
Q 047964 72 KSPSESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ 112 (168)
Q Consensus 72 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~ 112 (168)
....+.+.|..|+.+...|.. .+=||.|+..||.+.+.
T Consensus 38 DsiK~FdcCsLtLqPc~dPvi---t~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPVI---TPDGYLFDREAILEYIL 75 (303)
T ss_pred cccCCcceeeeecccccCCcc---CCCCeeeeHHHHHHHHH
Confidence 334567789999999888765 78899999999988774
No 133
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=58.26 E-value=56 Score=24.70 Aligned_cols=30 Identities=13% Similarity=0.089 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047964 9 FSQICTIFIIFFTLLFVEILILTRSFTRTV 38 (168)
Q Consensus 9 ~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~ 38 (168)
-+.+++..|.|++++++...++...+..-+
T Consensus 53 ~~~l~w~~I~FliL~~lL~k~~~~pI~~vL 82 (204)
T PRK09174 53 ASQLLWLAITFGLFYLFMSRVILPRIGGII 82 (204)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666666666666666555544444333
No 134
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=56.13 E-value=4.8 Score=27.57 Aligned_cols=34 Identities=24% Similarity=0.363 Sum_probs=21.0
Q ss_pred cccccccccccccCC--cceEeeCCCCcchHHHHHH
Q 047964 76 ESKDCAVCLSDFEDG--EMVRKLNCKHTFHRDCLDK 109 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~--~~~~~~~C~H~f~~~Ci~~ 109 (168)
++..|.+|..++..- ....-..|+|.+|..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 467899998876422 2222347899999888543
No 135
>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=55.93 E-value=50 Score=20.87 Aligned_cols=21 Identities=24% Similarity=0.339 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047964 10 SQICTIFIIFFTLLFVEILIL 30 (168)
Q Consensus 10 ~~i~~i~i~~~~~~~~~~~~l 30 (168)
.++.+..++|.+++...-+++
T Consensus 4 ~fl~~plivf~ifVap~WL~l 24 (75)
T PF06667_consen 4 EFLFVPLIVFMIFVAPIWLIL 24 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555544444444
No 136
>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 KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=55.44 E-value=15 Score=29.85 Aligned_cols=51 Identities=22% Similarity=0.452 Sum_probs=31.8
Q ss_pred ccccccccccccc---------------C-CcceEeeCCCCcchHHHHHHHHHhC--------CCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFE---------------D-GEMVRKLNCKHTFHRDCLDKWLQEY--------LATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~---------------~-~~~~~~~~C~H~f~~~Ci~~w~~~~--------~~~CP~Cr~~~~ 126 (168)
.+.+||+|+..-. . +-.....||||.--.+-..-|-+.. +..||.|-..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 4568999986421 0 0011224999987777777776532 226999977664
No 138
>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=53.82 E-value=22 Score=19.64 Aligned_cols=21 Identities=14% Similarity=0.154 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047964 12 ICTIFIIFFTLLFVEILILTR 32 (168)
Q Consensus 12 i~~i~i~~~~~~~~~~~~l~~ 32 (168)
|.++.+++++...+...++.+
T Consensus 11 IlVF~lVglv~i~iva~~iYR 31 (43)
T PF08114_consen 11 ILVFCLVGLVGIGIVALFIYR 31 (43)
T ss_pred eeehHHHHHHHHHHHHHHHHH
Confidence 444555555555555555533
No 139
>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=53.63 E-value=14 Score=25.67 Aligned_cols=15 Identities=13% Similarity=0.518 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 047964 16 FIIFFTLLFVEILIL 30 (168)
Q Consensus 16 ~i~~~~~~~~~~~~l 30 (168)
++++++++++.++++
T Consensus 5 ~~iii~~i~l~~~~~ 19 (130)
T PF12273_consen 5 FAIIIVAILLFLFLF 19 (130)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444333333333
No 140
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.18 E-value=9.5 Score=30.63 Aligned_cols=49 Identities=22% Similarity=0.496 Sum_probs=38.5
Q ss_pred CcccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
.....|-+|...+..+... -.|.|.|++.|-..|.... ..||-|+.-..
T Consensus 103 ~~~~~~~~~~g~l~vpt~~--qg~w~qf~~~~p~~~~~~~-~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI--QGCWHQFCYVCPKSNFAMG-NDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccc--cCceeeeeecCCchhhhhh-hccchhhcCcC
Confidence 4556899999988877652 2599999999999998865 67888887553
No 141
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=50.23 E-value=15 Score=24.41 Aligned_cols=29 Identities=17% Similarity=0.345 Sum_probs=17.1
Q ss_pred CCCCcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 97 NCKHTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
-||+--|..-..++... .+||.|++++.+
T Consensus 64 iCGvC~~~LT~~EY~~~--~~Cp~C~spFNp 92 (105)
T COG4357 64 ICGVCRKLLTRAEYGMC--GSCPYCQSPFNP 92 (105)
T ss_pred EhhhhhhhhhHHHHhhc--CCCCCcCCCCCc
Confidence 35554444444444332 469999999865
No 142
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.10 E-value=2.6 Score=33.43 Aligned_cols=48 Identities=25% Similarity=0.531 Sum_probs=35.8
Q ss_pred ccccccccccccCC---cceEeeC--------CCCcchHHHHHHHHHhCCCCCCCCCCc
Q 047964 77 SKDCAVCLSDFEDG---EMVRKLN--------CKHTFHRDCLDKWLQEYLATCPLCRTK 124 (168)
Q Consensus 77 ~~~C~IC~~~~~~~---~~~~~~~--------C~H~f~~~Ci~~w~~~~~~~CP~Cr~~ 124 (168)
...|.||...+... ...+.+. |+|..|..|+..-+.+....||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 46799999888732 1222345 999999999999877554579999874
No 143
>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=49.90 E-value=19 Score=18.47 Aligned_cols=36 Identities=28% Similarity=0.655 Sum_probs=21.2
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
|..|.+.+...... ...=+..||..| ..|..|..++
T Consensus 2 C~~C~~~i~~~~~~-~~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELV-LRALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEE-EEeCCccccccC---------CCCcccCCcC
Confidence 67777776654221 123356677666 3577777665
No 144
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=49.46 E-value=1e+02 Score=22.64 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 047964 11 QICTIFIIFFTLLFVEILI 29 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~~~~ 29 (168)
.+++.++.|++++++..-+
T Consensus 33 q~~~~lI~F~iL~~ll~k~ 51 (181)
T PRK13454 33 QIFWLLVTLVAIYFVLTRV 51 (181)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444443333
No 145
>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=49.12 E-value=6.1 Score=22.38 Aligned_cols=31 Identities=29% Similarity=0.760 Sum_probs=20.2
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHH
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKW 110 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w 110 (168)
|.||...-.....+.=-.|+..||..|+..-
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~ 32 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPP 32 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSS
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCC
Confidence 7788874444444322378888999997643
No 146
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=46.39 E-value=17 Score=17.90 Aligned_cols=11 Identities=36% Similarity=0.933 Sum_probs=7.8
Q ss_pred CCCCCCCcCCC
Q 047964 117 TCPLCRTKVLP 127 (168)
Q Consensus 117 ~CP~Cr~~~~~ 127 (168)
.||+|.+.+..
T Consensus 3 ~CPiC~~~v~~ 13 (26)
T smart00734 3 QCPVCFREVPE 13 (26)
T ss_pred cCCCCcCcccH
Confidence 58888777633
No 147
>PF02326 YMF19: Plant ATP synthase F0; InterPro: IPR003319 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit 8 (or ymf19) found in the F0 complex of mitochondrial F-ATPases from plants and algae. This subunit is sometimes found in association and N-terminal to IPR009455 from INTERPRO, in higher plants. Subunit 8 differs in sequence between plants, Metazoa (IPR001421 from INTERPRO) and fungi (IPR009230 from INTERPRO) [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
Probab=46.32 E-value=79 Score=20.40 Aligned_cols=21 Identities=19% Similarity=0.485 Sum_probs=10.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 047964 3 ATLSKFFSQICTIFIIFFTLL 23 (168)
Q Consensus 3 ~~~~~~~~~i~~i~i~~~~~~ 23 (168)
+-++|+++.+++++..++.++
T Consensus 7 tf~sQ~fW~~i~f~~~y~~~~ 27 (86)
T PF02326_consen 7 TFFSQYFWLLIFFFFFYIFLV 27 (86)
T ss_pred eHHHHHHHHHHHHHHHHHHHH
Confidence 345566666555444444333
No 148
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=45.91 E-value=4.2 Score=29.21 Aligned_cols=61 Identities=21% Similarity=0.268 Sum_probs=27.7
Q ss_pred chHHHHHHHHHh---CCCCCCCCCCcCCCchHHhhHHhHhhhhhhhhcCCCchhhhhhhhccCC
Q 047964 102 FHRDCLDKWLQE---YLATCPLCRTKVLPDEIVAKYQHQQNLQNLDYYGGDDEMAFLISLLHGS 162 (168)
Q Consensus 102 f~~~Ci~~w~~~---~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (168)
||..|+.+=+.. +...||.|+..-..............-..-....++..++....+|..+
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~vArIekiW~~~ 65 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQLPPTSRSACEKLLSGDLWLARIEKLWEEN 65 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCcccccCCCcchhhhhhhccCchHHHHHHHHHhcc
Confidence 566666655432 1236999986554333322211111111222334445555555555543
No 149
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=45.76 E-value=1.1e+02 Score=22.08 Aligned_cols=31 Identities=19% Similarity=0.270 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047964 8 FFSQICTIFIIFFTLLFVEILILTRSFTRTV 38 (168)
Q Consensus 8 ~~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~ 38 (168)
+++.+++.++.|++++++..-++...+..-+
T Consensus 9 ~~sqifw~iI~FlILy~ll~kf~~ppI~~iL 39 (155)
T PRK06569 9 YYSQIFWLIVTFGLLYIFVYKFITPKAEEIF 39 (155)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3455555666666655555555554444333
No 150
>PF12773 DZR: Double zinc ribbon
Probab=44.95 E-value=15 Score=20.64 Aligned_cols=10 Identities=30% Similarity=0.840 Sum_probs=6.7
Q ss_pred CCCCCCCCcC
Q 047964 116 ATCPLCRTKV 125 (168)
Q Consensus 116 ~~CP~Cr~~~ 125 (168)
..||.|.+.+
T Consensus 30 ~~C~~Cg~~~ 39 (50)
T PF12773_consen 30 KICPNCGAEN 39 (50)
T ss_pred CCCcCCcCCC
Confidence 3588887664
No 151
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=44.37 E-value=33 Score=23.06 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=18.5
Q ss_pred CCcchHHHHHHHHHh--------CCCCCCCCCC
Q 047964 99 KHTFHRDCLDKWLQE--------YLATCPLCRT 123 (168)
Q Consensus 99 ~H~f~~~Ci~~w~~~--------~~~~CP~Cr~ 123 (168)
.-.||..|+..++.. ....||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999998877743 2236999986
No 152
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.19 E-value=10 Score=34.34 Aligned_cols=39 Identities=21% Similarity=0.481 Sum_probs=27.6
Q ss_pred cccccccccccccCC----cceEeeCCCCcchHHHHHHHHHhC
Q 047964 76 ESKDCAVCLSDFEDG----EMVRKLNCKHTFHRDCLDKWLQEY 114 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~w~~~~ 114 (168)
.+..|.-|.+..... ..+....|+|.||..|+..-..++
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 345899999875422 234446899999999988766554
No 153
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=44.10 E-value=1.2e+02 Score=21.75 Aligned_cols=30 Identities=20% Similarity=0.244 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047964 9 FSQICTIFIIFFTLLFVEILILTRSFTRTV 38 (168)
Q Consensus 9 ~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~ 38 (168)
++.+++.++.|++++++...++...+...+
T Consensus 8 ~~~~~~~~i~Flil~~ll~~~l~~pi~~~l 37 (164)
T PRK14471 8 FGLFFWQTILFLILLLLLAKFAWKPILGAV 37 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 345555666666666665555554444333
No 154
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=42.73 E-value=60 Score=23.34 Aligned_cols=28 Identities=25% Similarity=0.394 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047964 7 KFFSQICTIFIIFFTLLFVEILILTRSF 34 (168)
Q Consensus 7 ~~~~~i~~i~i~~~~~~~~~~~~l~~~~ 34 (168)
.||+.-..++++-++++.+.++++..++
T Consensus 25 sffsthm~tILiaIvVliiiiivli~lc 52 (189)
T PF05568_consen 25 SFFSTHMYTILIAIVVLIIIIIVLIYLC 52 (189)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444433333333333333333333333
No 155
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=42.33 E-value=85 Score=19.61 Aligned_cols=9 Identities=11% Similarity=0.220 Sum_probs=3.2
Q ss_pred HHHHHHHHH
Q 047964 11 QICTIFIIF 19 (168)
Q Consensus 11 ~i~~i~i~~ 19 (168)
.++++++++
T Consensus 6 ~~l~~~v~~ 14 (85)
T TIGR02209 6 VLLLLAILV 14 (85)
T ss_pred HHHHHHHHH
Confidence 333333333
No 156
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=42.26 E-value=49 Score=19.70 Aligned_cols=46 Identities=26% Similarity=0.639 Sum_probs=30.0
Q ss_pred cccccccccccCCcceEeeCCC--CcchHHHHHHHHHhCCCCCCCCCCcCCC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCK--HTFHRDCLDKWLQEYLATCPLCRTKVLP 127 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~--H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~ 127 (168)
..|--|-.++.....-. .-|. ..||..|....+. ..||.|-..+..
T Consensus 6 pnCE~C~~dLp~~s~~A-~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEA-YICSFECTFCADCAETMLN---GVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcc-eEEeEeCcccHHHHHHHhc---CcCcCCCCcccc
Confidence 45667766665444211 2343 3599999998773 579999877644
No 157
>PF15050 SCIMP: SCIMP protein
Probab=42.21 E-value=1.2e+02 Score=21.14 Aligned_cols=19 Identities=21% Similarity=0.242 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 047964 8 FFSQICTIFIIFFTLLFVE 26 (168)
Q Consensus 8 ~~~~i~~i~i~~~~~~~~~ 26 (168)
-|+.|+.+.|++....+-.
T Consensus 7 nFWiiLAVaII~vS~~lgl 25 (133)
T PF15050_consen 7 NFWIILAVAIILVSVVLGL 25 (133)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 3566677766665544433
No 158
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=42.10 E-value=75 Score=18.92 Aligned_cols=11 Identities=27% Similarity=0.244 Sum_probs=4.4
Q ss_pred HHHHHHHHHHH
Q 047964 11 QICTIFIIFFT 21 (168)
Q Consensus 11 ~i~~i~i~~~~ 21 (168)
....++++|++
T Consensus 20 l~l~il~~f~~ 30 (68)
T PF06305_consen 20 LGLLILIAFLL 30 (68)
T ss_pred HHHHHHHHHHH
Confidence 33344444433
No 159
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=41.54 E-value=1.1e+02 Score=20.47 Aligned_cols=26 Identities=35% Similarity=0.708 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhh
Q 047964 20 FTLLFVEILILTRSFTRTVRKIRSRL 45 (168)
Q Consensus 20 ~~~~~~~~~~l~~~~~~~~~~~~~~~ 45 (168)
++++|+.++++...+....+..+.+.
T Consensus 23 ~i~~FiILLIi~~~IW~~~r~~r~~M 48 (121)
T PF10669_consen 23 FIVVFIILLIITKSIWHDSRQVRIRM 48 (121)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 44555555555555544444444433
No 160
>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=41.09 E-value=11 Score=21.77 Aligned_cols=39 Identities=23% Similarity=0.478 Sum_probs=22.2
Q ss_pred cccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCc
Q 047964 80 CAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPD 128 (168)
Q Consensus 80 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~ 128 (168)
|..|...+.....+ ...-+..||..| ..|-.|+.++.+.
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~C---------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPEC---------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTT---------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEccc---------cccCCCCCccCCC
Confidence 55666666544432 124556677655 3577777776543
No 161
>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=40.56 E-value=21 Score=22.01 Aligned_cols=13 Identities=54% Similarity=1.280 Sum_probs=9.1
Q ss_pred cchHHHHHHHHHh
Q 047964 101 TFHRDCLDKWLQE 113 (168)
Q Consensus 101 ~f~~~Ci~~w~~~ 113 (168)
.||..|+..|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999963
No 162
>PLN02189 cellulose synthase
Probab=40.05 E-value=27 Score=32.83 Aligned_cols=51 Identities=20% Similarity=0.414 Sum_probs=33.8
Q ss_pred cccccccccccccCCc--ceE--eeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGE--MVR--KLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~--~~~--~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||-++..... .+. .--|+--.|..|.+-=.+.+.+.||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3568999999864221 122 12366558999986555556678999998774
No 163
>PF10961 DUF2763: Protein of unknown function (DUF2763); InterPro: IPR024491 This entry represents an eukaryotic family of selenoproteins. It includes SelK, which seems to play an important role in protecting cells from endoplasmic reticulum stress-induced apoptosis [] and SelG, which may be involved in regulating the redox state of the cell [].
Probab=39.65 E-value=46 Score=21.79 Aligned_cols=19 Identities=26% Similarity=0.672 Sum_probs=8.8
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 047964 4 TLSKFFSQICTIFIIFFTL 22 (168)
Q Consensus 4 ~~~~~~~~i~~i~i~~~~~ 22 (168)
++..+|..|+.++..||..
T Consensus 20 ~I~d~Fwgi~~fI~lFF~T 38 (91)
T PF10961_consen 20 RITDFFWGIINFIVLFFQT 38 (91)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555554444444433
No 164
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=39.36 E-value=1.3e+02 Score=21.08 Aligned_cols=25 Identities=12% Similarity=0.264 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 047964 10 SQICTIFIIFFTLLFVEILILTRSF 34 (168)
Q Consensus 10 ~~i~~i~i~~~~~~~~~~~~l~~~~ 34 (168)
+.+++.++.|++++++...++.+.+
T Consensus 5 ~~~~~~~i~Flil~~il~~~~~~pi 29 (156)
T PRK05759 5 GTLIGQLIAFLILVWFIMKFVWPPI 29 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 4455556666666665555544444
No 165
>PF15122 TMEM206: TMEM206 protein family
Probab=39.05 E-value=87 Score=24.60 Aligned_cols=10 Identities=40% Similarity=0.859 Sum_probs=6.9
Q ss_pred eeCCCCcchH
Q 047964 95 KLNCKHTFHR 104 (168)
Q Consensus 95 ~~~C~H~f~~ 104 (168)
.+.|.|++|.
T Consensus 72 llsCkhhyyd 81 (298)
T PF15122_consen 72 LLSCKHHYYD 81 (298)
T ss_pred hccccccccc
Confidence 3678887764
No 166
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=38.59 E-value=75 Score=17.92 Aligned_cols=16 Identities=19% Similarity=0.393 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 047964 11 QICTIFIIFFTLLFVE 26 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~ 26 (168)
.|+.++|+..++.-+.
T Consensus 7 ~iFsvvIil~If~~iG 22 (49)
T PF11044_consen 7 TIFSVVIILGIFAWIG 22 (49)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444433333
No 167
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=38.43 E-value=1.5e+02 Score=21.47 Aligned_cols=26 Identities=12% Similarity=0.135 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 047964 10 SQICTIFIIFFTLLFVEILILTRSFT 35 (168)
Q Consensus 10 ~~i~~i~i~~~~~~~~~~~~l~~~~~ 35 (168)
..+++.++.|++++++...++.+.+.
T Consensus 19 ~t~~~~iInFliL~~lL~~~l~~pi~ 44 (173)
T PRK13453 19 GTVIVTVLTFIVLLALLKKFAWGPLK 44 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555544443
No 168
>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=37.27 E-value=11 Score=31.41 Aligned_cols=50 Identities=24% Similarity=0.413 Sum_probs=0.0
Q ss_pred cccccccccccc----------------CCcceEeeCCCCcchHHHHHHHHHhC--------CCCCCCCCCcCC
Q 047964 77 SKDCAVCLSDFE----------------DGEMVRKLNCKHTFHRDCLDKWLQEY--------LATCPLCRTKVL 126 (168)
Q Consensus 77 ~~~C~IC~~~~~----------------~~~~~~~~~C~H~f~~~Ci~~w~~~~--------~~~CP~Cr~~~~ 126 (168)
...|++|+..-. .+-.....||||..=.+...-|-+.. +..||.|-.++.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 568999986421 00112235999987777888887532 126999988774
No 169
>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=37.27 E-value=19 Score=17.75 Aligned_cols=9 Identities=56% Similarity=1.276 Sum_probs=5.6
Q ss_pred CCCCCCCcC
Q 047964 117 TCPLCRTKV 125 (168)
Q Consensus 117 ~CP~Cr~~~ 125 (168)
.||-|++.+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 466666655
No 170
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=37.18 E-value=25 Score=17.01 Aligned_cols=16 Identities=38% Similarity=0.953 Sum_probs=10.5
Q ss_pred CCCCCCCcCCCchHHh
Q 047964 117 TCPLCRTKVLPDEIVA 132 (168)
Q Consensus 117 ~CP~Cr~~~~~~~~~~ 132 (168)
.||.|-+.+.++.+..
T Consensus 4 ~C~~CgR~F~~~~l~~ 19 (25)
T PF13913_consen 4 PCPICGRKFNPDRLEK 19 (25)
T ss_pred cCCCCCCEECHHHHHH
Confidence 5888877776555443
No 171
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.88 E-value=76 Score=19.93 Aligned_cols=51 Identities=25% Similarity=0.587 Sum_probs=31.3
Q ss_pred ccccccccccCCcceEeeCC--CCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHhh
Q 047964 79 DCAVCLSDFEDGEMVRKLNC--KHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVAK 133 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C--~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~~ 133 (168)
.|--|-.++.....-. +-| .+.||..|....+. ..||.|-..+....+.+.
T Consensus 7 nCECCDrDLpp~s~dA-~ICtfEcTFCadCae~~l~---g~CPnCGGelv~RP~RPa 59 (84)
T COG3813 7 NCECCDRDLPPDSTDA-RICTFECTFCADCAENRLH---GLCPNCGGELVARPIRPA 59 (84)
T ss_pred CCcccCCCCCCCCCce-eEEEEeeehhHhHHHHhhc---CcCCCCCchhhcCcCChH
Confidence 4554555444332211 234 46799999987764 579999887765555444
No 172
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=35.69 E-value=23 Score=22.53 Aligned_cols=33 Identities=21% Similarity=0.460 Sum_probs=22.1
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDK 109 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~ 109 (168)
...|.+|............-.|...||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 468999987633222222236889999999754
No 173
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.29 E-value=41 Score=23.03 Aligned_cols=45 Identities=29% Similarity=0.440 Sum_probs=30.2
Q ss_pred ccccccccccccCCc-----------ceEeeCCCCcchHHHHHHHHHhCCCCCCCCC
Q 047964 77 SKDCAVCLSDFEDGE-----------MVRKLNCKHTFHRDCLDKWLQEYLATCPLCR 122 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~-----------~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr 122 (168)
...|--|...|..+. ..+-..|++.||.+|-.-+-+. ...||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCC
Confidence 356999998775431 1112479999999996655443 45799995
No 174
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=35.28 E-value=1.7e+02 Score=26.96 Aligned_cols=47 Identities=26% Similarity=0.545 Sum_probs=27.5
Q ss_pred CCccccccccccccc----------CCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 74 PSESKDCAVCLSDFE----------DGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 74 ~~~~~~C~IC~~~~~----------~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
+..+..|+-|...|. ++.......|.|..|..=|. +...||+|.++.
T Consensus 1128 ~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs-----~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1128 DPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS-----KYNCCPLCHSME 1184 (1189)
T ss_pred CccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc-----ccccCccccChh
Confidence 344567777766553 22223234688877765442 235799998765
No 175
>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=35.12 E-value=31 Score=17.29 Aligned_cols=29 Identities=24% Similarity=0.668 Sum_probs=8.8
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHH
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCL 107 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci 107 (168)
.|.+|.+.........-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 46777776554222222467777787774
No 176
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=34.99 E-value=7.5 Score=31.09 Aligned_cols=36 Identities=25% Similarity=0.671 Sum_probs=23.2
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHHhC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY 114 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~ 114 (168)
.|.+|++.+..+.......|...+|..|+..|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 778888777653333334555577777777777654
No 177
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=34.84 E-value=1.8e+02 Score=21.11 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 047964 11 QICTIFIIFFTLLFVEILILTRSFT 35 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~~~~l~~~~~ 35 (168)
.+++.++.|++++++...++...+.
T Consensus 20 ~~~~~~i~Flil~~lL~~~l~kpi~ 44 (175)
T PRK14472 20 LIFWTAVTFVIVLLILKKIAWGPIL 44 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 4445555666555555555444443
No 178
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.22 E-value=41 Score=22.30 Aligned_cols=35 Identities=23% Similarity=0.422 Sum_probs=27.1
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHH
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ 112 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~ 112 (168)
.-.|.+|-+.+..+..-..++ .-..|++|+.+-..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 358999999999888766667 44589999887543
No 179
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=34.19 E-value=29 Score=23.02 Aligned_cols=31 Identities=26% Similarity=0.710 Sum_probs=21.3
Q ss_pred ccccccccccccCCcceEe--eCCCCcchHHHHHH
Q 047964 77 SKDCAVCLSDFEDGEMVRK--LNCKHTFHRDCLDK 109 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~--~~C~H~f~~~Ci~~ 109 (168)
...|.+|... .+..+.- ..|...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 5689999887 3333221 24888999999854
No 180
>PLN02436 cellulose synthase A
Probab=33.92 E-value=40 Score=31.91 Aligned_cols=51 Identities=22% Similarity=0.421 Sum_probs=33.5
Q ss_pred cccccccccccccCCc--ceE--eeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGE--MVR--KLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~--~~~--~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||-++..... .+. .--|+--.|..|.+-=.+...+.||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3458999998863221 111 12455558999986555555568999998764
No 181
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF04835 Pox_A9: A9 protein conserved region; InterPro: IPR006920 This entry represents a family of Chordopoxvirus A9 proteins. Chordopoxvirus belongs to the family Poxviridae and is the cause of vertebrate infections [].
Probab=33.19 E-value=1e+02 Score=18.12 Aligned_cols=25 Identities=20% Similarity=0.364 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 047964 6 SKFFSQICTIFIIFFTLLFVEILIL 30 (168)
Q Consensus 6 ~~~~~~i~~i~i~~~~~~~~~~~~l 30 (168)
+.+..+++-+++..++++.+++.++
T Consensus 20 NsF~fViik~vismimylilGi~L~ 44 (54)
T PF04835_consen 20 NSFWFVIIKSVISMIMYLILGIALI 44 (54)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556666667777777777776666
No 183
>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=32.70 E-value=3 Score=33.14 Aligned_cols=47 Identities=19% Similarity=0.279 Sum_probs=17.5
Q ss_pred ccccccccccccCCcceEee--CCCCcchHHHHHHHHHhCCCCCCCCCCc
Q 047964 77 SKDCAVCLSDFEDGEMVRKL--NCKHTFHRDCLDKWLQEYLATCPLCRTK 124 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~--~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~ 124 (168)
...||+|=.....+.....- .-.+.+|..|-..|--.+ ..||.|-..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCCC
Confidence 46899997653211110000 012346667888886554 579999543
No 184
>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=32.69 E-value=35 Score=19.56 Aligned_cols=34 Identities=21% Similarity=0.401 Sum_probs=21.9
Q ss_pred cccccccccccCCcceE-eeCCCCcchHHHHHHHH
Q 047964 78 KDCAVCLSDFEDGEMVR-KLNCKHTFHRDCLDKWL 111 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~w~ 111 (168)
..|.+|...|..-..-. --.||+.||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 56888887765432111 12689999999976543
No 185
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=32.32 E-value=2e+02 Score=21.59 Aligned_cols=16 Identities=31% Similarity=0.565 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 047964 16 FIIFFTLLFVEILILT 31 (168)
Q Consensus 16 ~i~~~~~~~~~~~~l~ 31 (168)
++.|++++++...++.
T Consensus 55 lInFlIlv~lL~k~l~ 70 (205)
T PRK06231 55 LIAFSILLLLGIFLFW 70 (205)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444443343
No 186
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=31.90 E-value=45 Score=27.55 Aligned_cols=12 Identities=25% Similarity=0.506 Sum_probs=8.9
Q ss_pred cccccccccccc
Q 047964 76 ESKDCAVCLSDF 87 (168)
Q Consensus 76 ~~~~C~IC~~~~ 87 (168)
.++.||+|-+..
T Consensus 14 l~ElCPVCGDkV 25 (475)
T KOG4218|consen 14 LGELCPVCGDKV 25 (475)
T ss_pred cccccccccCcc
Confidence 467899997653
No 187
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=31.66 E-value=1.6e+02 Score=19.79 Aligned_cols=22 Identities=23% Similarity=0.300 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 047964 13 CTIFIIFFTLLFVEILILTRSF 34 (168)
Q Consensus 13 ~~i~i~~~~~~~~~~~~l~~~~ 34 (168)
++.++.|++++++...++...+
T Consensus 3 ~~~~i~Flil~~~l~~~~~~pi 24 (132)
T PF00430_consen 3 FWQLINFLILFFLLNKFLYKPI 24 (132)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444443333
No 188
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=31.09 E-value=2.1e+02 Score=20.74 Aligned_cols=24 Identities=8% Similarity=0.126 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 047964 11 QICTIFIIFFTLLFVEILILTRSF 34 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~~~~l~~~~ 34 (168)
.+++.++.|++++++...++...+
T Consensus 18 ~~~~~~i~Flil~~iL~~~~~kpi 41 (173)
T PRK13460 18 LVVWTLVTFLVVVLVLKKFAWDVI 41 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 334445555555555444444333
No 189
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=31.09 E-value=1.1e+02 Score=26.96 Aligned_cols=34 Identities=18% Similarity=0.338 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 047964 8 FFSQICTIFIIFFTLLFVEILILTRSFTRTVRKIR 42 (168)
Q Consensus 8 ~~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~~~~~ 42 (168)
++++++++++++++++.+. +++-+++...+..+.
T Consensus 2 ~~~~ii~i~ii~i~~~~~~-~~~rr~~~~~i~~Le 35 (569)
T PRK04778 2 MIYLIIAIVVIIIIAYLAG-LILRKRNYKRIDELE 35 (569)
T ss_pred hhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 3444555544444444333 444444444444433
No 190
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=30.89 E-value=1.8 Score=26.98 Aligned_cols=39 Identities=23% Similarity=0.536 Sum_probs=17.3
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
..||.|..++.... ++..|..|-..... ...||-|..++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~~~~--~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKDYKK--EAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--EEEE--EEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccccee--cccCCCcccHH
Confidence 36888877654322 44455556543321 24689888776
No 191
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.89 E-value=29 Score=18.45 Aligned_cols=13 Identities=23% Similarity=0.739 Sum_probs=7.9
Q ss_pred ccccccccccCCc
Q 047964 79 DCAVCLSDFEDGE 91 (168)
Q Consensus 79 ~C~IC~~~~~~~~ 91 (168)
.|+-|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5677766665443
No 192
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=30.32 E-value=9.8 Score=27.01 Aligned_cols=18 Identities=22% Similarity=0.599 Sum_probs=11.7
Q ss_pred CCCCCCCCcCCCchHHhh
Q 047964 116 ATCPLCRTKVLPDEIVAK 133 (168)
Q Consensus 116 ~~CP~Cr~~~~~~~~~~~ 133 (168)
-.||.||+.+....+...
T Consensus 7 i~CPhCRq~ipALtLTDt 24 (161)
T PF09654_consen 7 IQCPHCRQTIPALTLTDT 24 (161)
T ss_pred CcCchhhcccchheecce
Confidence 358888887765554443
No 193
>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=29.94 E-value=17 Score=21.94 Aligned_cols=32 Identities=25% Similarity=0.544 Sum_probs=15.0
Q ss_pred cccccccccccccCCcceEe--eCCCCcchHHHHH
Q 047964 76 ESKDCAVCLSDFEDGEMVRK--LNCKHTFHRDCLD 108 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~--~~C~H~f~~~Ci~ 108 (168)
+...|.+|...|..-.. +. -.||+.||..|..
T Consensus 8 ~~~~C~~C~~~F~~~~r-rhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRR-RHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp G-SB-TTT--B-BSSS--EEE-TTT--EEECCCS-
T ss_pred CCCcCcCcCCcCCCcee-eEccCCCCCEECCchhC
Confidence 35789999999854321 11 2689999887764
No 194
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=29.75 E-value=10 Score=27.03 Aligned_cols=18 Identities=22% Similarity=0.608 Sum_probs=11.8
Q ss_pred CCCCCCCCcCCCchHHhh
Q 047964 116 ATCPLCRTKVLPDEIVAK 133 (168)
Q Consensus 116 ~~CP~Cr~~~~~~~~~~~ 133 (168)
-.||.||+.+....+...
T Consensus 10 i~CPhCRQ~ipALtLTDt 27 (163)
T TIGR02652 10 IRCPHCRQNIPALTLTDT 27 (163)
T ss_pred CcCchhhcccchheecce
Confidence 368888888765554443
No 195
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=29.44 E-value=65 Score=30.52 Aligned_cols=52 Identities=23% Similarity=0.459 Sum_probs=34.2
Q ss_pred CcccccccccccccCC---c-ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 75 SESKDCAVCLSDFEDG---E-MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 75 ~~~~~C~IC~~~~~~~---~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
.+...|.||=+..... + .+..--|+--.|..|.+-=.+.+.+.||.|++...
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3567899999875422 1 11112466558999986555555568999998774
No 196
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=29.40 E-value=2.1e+02 Score=20.29 Aligned_cols=24 Identities=21% Similarity=0.285 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 047964 11 QICTIFIIFFTLLFVEILILTRSF 34 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~~~~l~~~~ 34 (168)
.+++.++.|++++++...++...+
T Consensus 7 ~~~~~~inF~il~~iL~~f~~kpi 30 (159)
T PRK13461 7 TIIATIINFIILLLILKHFFFDKI 30 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344444455555554444443333
No 197
>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=29.29 E-value=1.1e+02 Score=18.84 Aligned_cols=21 Identities=24% Similarity=0.418 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047964 9 FSQICTIFIIFFTLLFVEILI 29 (168)
Q Consensus 9 ~~~i~~i~i~~~~~~~~~~~~ 29 (168)
..++.++.++|++++++.+++
T Consensus 6 ~i~i~Gm~iVF~~L~lL~~~i 26 (79)
T PF04277_consen 6 QIMIIGMGIVFLVLILLILVI 26 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666555544444
No 198
>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=29.16 E-value=41 Score=24.38 Aligned_cols=23 Identities=30% Similarity=0.759 Sum_probs=14.8
Q ss_pred CCcchHHHHHHHHHhCCCCCCCCCCcC
Q 047964 99 KHTFHRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 99 ~H~f~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
.+.||.+|-..-.. .||.|..++
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~I 49 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPI 49 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCC
Confidence 34588888766543 477776655
No 199
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=29.14 E-value=36 Score=19.69 Aligned_cols=7 Identities=43% Similarity=1.174 Sum_probs=5.2
Q ss_pred CCCCCCC
Q 047964 115 LATCPLC 121 (168)
Q Consensus 115 ~~~CP~C 121 (168)
...||.|
T Consensus 49 ~~~CP~C 55 (55)
T PF14311_consen 49 GKGCPYC 55 (55)
T ss_pred CCCCCCC
Confidence 3579987
No 200
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=29.05 E-value=1.8e+02 Score=19.40 Aligned_cols=31 Identities=23% Similarity=0.486 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhh
Q 047964 16 FIIFFTLLFVEILILTRSFTRTVRKIRSRLI 46 (168)
Q Consensus 16 ~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 46 (168)
-++|+.++++.++++.-.++.++...++..+
T Consensus 15 K~~~FA~L~i~~FiILLIi~~~IW~~~r~~r 45 (121)
T PF10669_consen 15 KIMFFAFLFIVVFIILLIITKSIWHDSRQVR 45 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence 3456667777666666666665544444333
No 201
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=28.39 E-value=16 Score=23.16 Aligned_cols=23 Identities=22% Similarity=0.744 Sum_probs=17.6
Q ss_pred hHHHHHHHHHhCCCCCCCCCCcC
Q 047964 103 HRDCLDKWLQEYLATCPLCRTKV 125 (168)
Q Consensus 103 ~~~Ci~~w~~~~~~~CP~Cr~~~ 125 (168)
|..|-..|+.++..+|..|-.++
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~QL 25 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQL 25 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHHH
Confidence 56788999987767899885543
No 202
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=28.06 E-value=22 Score=34.75 Aligned_cols=50 Identities=30% Similarity=0.489 Sum_probs=36.0
Q ss_pred cccccccccccccCCcceEeeCCCCcchHHHHHHHHHhC---CCCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEY---LATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~---~~~CP~Cr~~~ 125 (168)
....|.+|....+....+.-..|...+|..|++.-+..- ...||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 456899999887665543223577789999999888632 23699998764
No 203
>PF09574 DUF2374: Protein of unknown function (Duf2374); InterPro: IPR014175 This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC 7966.
Probab=27.91 E-value=1.2e+02 Score=16.81 Aligned_cols=28 Identities=21% Similarity=0.248 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHH------HHHHHHHHHHHHHHHH
Q 047964 3 ATLSKFFSQICT------IFIIFFTLLFVEILIL 30 (168)
Q Consensus 3 ~~~~~~~~~i~~------i~i~~~~~~~~~~~~l 30 (168)
|+|.++++++++ |++.-++.+....+++
T Consensus 2 StlEsviWhvLGY~AmPvI~L~GF~~Vav~~~~l 35 (42)
T PF09574_consen 2 STLESVIWHVLGYAAMPVIILSGFAAVAVASIWL 35 (42)
T ss_pred chHHHHHHHHhccccchHHHHhhHHHHHHHHHHH
Confidence 678888888775 4444444444444444
No 204
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=27.58 E-value=40 Score=25.17 Aligned_cols=33 Identities=15% Similarity=0.222 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 047964 6 SKFFSQICTIFIIFFTLLFVEILILTRSFTRTV 38 (168)
Q Consensus 6 ~~~~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~ 38 (168)
+.+-.+-+++++++++++++.++++.++-..+.
T Consensus 6 ~~lsGv~vvlv~a~g~l~~vllfIfaKRQI~Rf 38 (186)
T PF07406_consen 6 EWLSGVNVVLVIAYGSLVFVLLFIFAKRQIMRF 38 (186)
T ss_pred ccccceeeehhhHHHHHHHHHHHHHHHHHHHHH
Confidence 333344455677777777777777665554433
No 205
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.13 E-value=53 Score=29.52 Aligned_cols=45 Identities=27% Similarity=0.569 Sum_probs=31.1
Q ss_pred ccccccccccCCcceEeeCCCC-cchHHHHHHHHHhC-----CCCCCCCCCcCC
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKH-TFHRDCLDKWLQEY-----LATCPLCRTKVL 126 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H-~f~~~Ci~~w~~~~-----~~~CP~Cr~~~~ 126 (168)
.|+||-...... ..-.||| ..|..|........ ...||.||..+.
T Consensus 2 ~c~ic~~s~~~~---~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFV---GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCcccc---ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 589998764433 2258999 69999987765422 225799998663
No 206
>TIGR02808 short_TIGR02808 conserved hypothetical protein TIGR02808. This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC7966.
Probab=27.05 E-value=1.2e+02 Score=16.72 Aligned_cols=28 Identities=21% Similarity=0.267 Sum_probs=16.8
Q ss_pred hhhHHHHHHHHH------HHHHHHHHHHHHHHHH
Q 047964 3 ATLSKFFSQICT------IFIIFFTLLFVEILIL 30 (168)
Q Consensus 3 ~~~~~~~~~i~~------i~i~~~~~~~~~~~~l 30 (168)
|+|.+++++++. +++.-++.+....+++
T Consensus 2 StLEsviWHilGY~AmPvIil~GF~~Va~~si~l 35 (42)
T TIGR02808 2 STLESTIWHVLGYGAMPFIILSGFVAVAVTSILL 35 (42)
T ss_pred chHHHHHHHHhcccccchHHhhhhHHHHHHHHHH
Confidence 678888888875 4444444444444444
No 207
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=27.03 E-value=1.5e+02 Score=24.92 Aligned_cols=21 Identities=24% Similarity=0.396 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 047964 7 KFFSQICTIFIIFFTLLFVEI 27 (168)
Q Consensus 7 ~~~~~i~~i~i~~~~~~~~~~ 27 (168)
.+|.+++-..||.+.++|+++
T Consensus 29 FlF~SLIQ~LIIlgLVLFmVY 49 (442)
T PF06637_consen 29 FLFVSLIQFLIILGLVLFMVY 49 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 445555555555555555544
No 208
>PLN02195 cellulose synthase A
Probab=26.96 E-value=82 Score=29.64 Aligned_cols=51 Identities=20% Similarity=0.351 Sum_probs=34.1
Q ss_pred cccccccccccccCCc----ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGE----MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~----~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||=+...... .+..-.|+--.|..|.+-=-+.+.+.||.|++...
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 4568999988653221 12222567668999986544555568999998876
No 209
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=26.34 E-value=2.2e+02 Score=19.56 Aligned_cols=25 Identities=12% Similarity=0.223 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 047964 11 QICTIFIIFFTLLFVEILILTRSFT 35 (168)
Q Consensus 11 ~i~~i~i~~~~~~~~~~~~l~~~~~ 35 (168)
++++..+.|++++++...++.+.+.
T Consensus 7 t~~~~~i~flil~~ll~~~l~~pi~ 31 (140)
T PRK07353 7 TLPLMAVQFVLLTFILNALFYKPVG 31 (140)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555544443
No 210
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=26.09 E-value=94 Score=27.80 Aligned_cols=62 Identities=18% Similarity=0.327 Sum_probs=32.7
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHH-HHH--h---CCCCCCCCCCcCCCchHHhhHHhHhhhhhhh
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDK-WLQ--E---YLATCPLCRTKVLPDEIVAKYQHQQNLQNLD 144 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~-w~~--~---~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 144 (168)
..|+|+.-.+..+.. -..|+|. .|.+. |+. + ....||+|.+...-+.+.-........+.+.
T Consensus 307 L~CPl~~~Rm~~P~r--~~~CkHl---QcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~iL~~~~ 374 (636)
T KOG2169|consen 307 LNCPLSKMRMSLPAR--GHTCKHL---QCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNILQSCQ 374 (636)
T ss_pred ecCCcccceeecCCc--ccccccc---eecchhhhHHhccCCCeeeCccCCccccccchhhhHHHHHHHhhcc
Confidence 368877665554433 2456664 45432 221 1 1226999998886555554444443433333
No 211
>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=26.08 E-value=1.1e+02 Score=19.85 Aligned_cols=43 Identities=14% Similarity=0.335 Sum_probs=29.7
Q ss_pred ccccccccccccCCcceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCCCchHHh
Q 047964 77 SKDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVLPDEIVA 132 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~~~~~~~ 132 (168)
...|+-|...+.--+.+ | +..|+..+ ..|..|++++...-...
T Consensus 33 rS~C~~C~~~L~~~~lI---P---------i~S~l~lr-GrCr~C~~~I~~~y~l~ 75 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLI---P---------ILSYLLLR-GRCRYCGAPIPPRYPLI 75 (92)
T ss_pred CCcCcCCCCcCcccccc---h---------HHHHHHhC-CCCcccCCCCChHHHHH
Confidence 45788888776654442 2 56788764 78999999997655443
No 212
>PRK09458 pspB phage shock protein B; Provisional
Probab=25.54 E-value=1.7e+02 Score=18.55 Aligned_cols=15 Identities=27% Similarity=0.281 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHH
Q 047964 16 FIIFFTLLFVEILIL 30 (168)
Q Consensus 16 ~i~~~~~~~~~~~~l 30 (168)
.++|.+++...-+++
T Consensus 10 liiF~ifVaPiWL~L 24 (75)
T PRK09458 10 LTIFVLFVAPIWLWL 24 (75)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444433333333
No 213
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.29 E-value=47 Score=29.79 Aligned_cols=40 Identities=18% Similarity=0.512 Sum_probs=27.5
Q ss_pred ccccccccccc-CCcceEeeCCCCcchHHHHHHHHHhCCCCCCCC
Q 047964 78 KDCAVCLSDFE-DGEMVRKLNCKHTFHRDCLDKWLQEYLATCPLC 121 (168)
Q Consensus 78 ~~C~IC~~~~~-~~~~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~C 121 (168)
..|.+|..+=. .....+.+.|+..+|..|.... + +.||.|
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~---~-~~~~vC 695 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY---A-SISEVC 695 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhhh---h-ccCccc
Confidence 46888876533 2334555689999999986553 2 569999
No 214
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.01 E-value=77 Score=30.14 Aligned_cols=51 Identities=24% Similarity=0.473 Sum_probs=32.8
Q ss_pred cccccccccccccCC---c-ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDG---E-MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~---~-~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||=++.... . .+..--|+-=.|..|.+-=.+.+.+.||.|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 345899999875422 1 11112455558999986544455568999998764
No 215
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=24.23 E-value=77 Score=21.25 Aligned_cols=33 Identities=15% Similarity=0.409 Sum_probs=24.5
Q ss_pred ccccccccccCCcceEeeCCCCcchHHHHHHHHH
Q 047964 79 DCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKWLQ 112 (168)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~ 112 (168)
.|.||-+++..+..-..++= -..|+.|+..-..
T Consensus 4 kC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK-GPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEecC-CcEeHHHHHHHHh
Confidence 69999999888876444444 4589999987654
No 216
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=24.04 E-value=48 Score=26.37 Aligned_cols=59 Identities=20% Similarity=0.401 Sum_probs=33.2
Q ss_pred cccccccccccCC----cceE--eeCCCCcchHHH-HHHHHHhCC---------CCCCCCCCcCC-CchHHhhHHh
Q 047964 78 KDCAVCLSDFEDG----EMVR--KLNCKHTFHRDC-LDKWLQEYL---------ATCPLCRTKVL-PDEIVAKYQH 136 (168)
Q Consensus 78 ~~C~IC~~~~~~~----~~~~--~~~C~H~f~~~C-i~~w~~~~~---------~~CP~Cr~~~~-~~~~~~~~~~ 136 (168)
..|.+|-..|..= ..++ .++|...+|.+- -.+||.+++ ..||.|.+.+. ..+++...++
T Consensus 162 ~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 162 FSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQT 237 (279)
T ss_pred ccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHh
Confidence 4577775554311 0111 146655555444 358996542 27999999984 4556655444
No 217
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=23.98 E-value=1.7e+02 Score=20.59 Aligned_cols=31 Identities=13% Similarity=0.240 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 047964 9 FSQICTIFIIFFTLLFVEILILTRSFTRTVR 39 (168)
Q Consensus 9 ~~~i~~i~i~~~~~~~~~~~~l~~~~~~~~~ 39 (168)
+++|..-+++.+.++.+....+.|.+..+.+
T Consensus 7 m~fI~~W~~vli~l~~IGGfFMFRKFLK~lP 37 (141)
T PF11084_consen 7 MWFILFWVVVLIGLMAIGGFFMFRKFLKRLP 37 (141)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHhCC
Confidence 4444444455555566666777777765554
No 218
>PHA01815 hypothetical protein
Probab=23.44 E-value=1.5e+02 Score=16.81 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 047964 15 IFIIFFTLLFVEI 27 (168)
Q Consensus 15 i~i~~~~~~~~~~ 27 (168)
+.++|+.++.+..
T Consensus 7 i~ivfllaflitl 19 (55)
T PHA01815 7 IAIVFLLAFLITL 19 (55)
T ss_pred HHHHHHHHHHHHH
Confidence 3344443333333
No 219
>PRK09040 hypothetical protein; Provisional
Probab=23.38 E-value=3.3e+02 Score=20.57 Aligned_cols=29 Identities=14% Similarity=0.236 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 047964 4 TLSKFFSQICTIFIIFFTLLFVEILILTR 32 (168)
Q Consensus 4 ~~~~~~~~i~~i~i~~~~~~~~~~~~l~~ 32 (168)
..+.+++.+.++|+..++.+++..+-+.+
T Consensus 17 s~sDLMs~Lm~iFlli~v~~~~~~~~~~~ 45 (214)
T PRK09040 17 VFGDLMSVLLGAFVLILVGVIGVQLELSS 45 (214)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777777776666554444444433
No 220
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=23.21 E-value=21 Score=29.90 Aligned_cols=32 Identities=16% Similarity=0.616 Sum_probs=22.1
Q ss_pred cccccccccccCCcceEeeCCCCcchHHHHHHH
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTFHRDCLDKW 110 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~w 110 (168)
.+|+||+-.+...... ...|....|..|..+.
T Consensus 75 ~ecpicflyyps~~n~-~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 75 TECPICFLYYPSAKNL-VRCCSETICGECFAPF 106 (482)
T ss_pred ccCceeeeecccccch-hhhhccchhhhheecc
Confidence 5899999887654431 1367777888887643
No 221
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=23.16 E-value=55 Score=28.05 Aligned_cols=49 Identities=20% Similarity=0.516 Sum_probs=29.9
Q ss_pred cccccccccccccCCcceEee---CCCCcchHHHHHHHHHh----C---CCCCCCCCCcC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKL---NCKHTFHRDCLDKWLQE----Y---LATCPLCRTKV 125 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~---~C~H~f~~~Ci~~w~~~----~---~~~CP~Cr~~~ 125 (168)
.+..|.+|+.--...-. +.+ .|+..||..|.+...+. . ..-|-.|....
T Consensus 167 ~n~qc~vC~~g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred ccceeeeeecCCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 34569999864332222 334 67888999998765432 1 11588887543
No 222
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.83 E-value=56 Score=25.43 Aligned_cols=25 Identities=20% Similarity=0.325 Sum_probs=15.8
Q ss_pred cccccccccccCCcceEeeCCCCcc
Q 047964 78 KDCAVCLSDFEDGEMVRKLNCKHTF 102 (168)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~C~H~f 102 (168)
..||+|..++.....-..-+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 4699999998644331112447877
No 223
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=22.78 E-value=11 Score=22.15 Aligned_cols=14 Identities=29% Similarity=0.831 Sum_probs=11.9
Q ss_pred CCCCcchHHHHHHH
Q 047964 97 NCKHTFHRDCLDKW 110 (168)
Q Consensus 97 ~C~H~f~~~Ci~~w 110 (168)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 68999999998777
No 224
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.76 E-value=55 Score=21.51 Aligned_cols=12 Identities=50% Similarity=1.351 Sum_probs=10.7
Q ss_pred chHHHHHHHHHh
Q 047964 102 FHRDCLDKWLQE 113 (168)
Q Consensus 102 f~~~Ci~~w~~~ 113 (168)
||..|+..|...
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 899999999964
No 225
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.02 E-value=41 Score=29.99 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=28.7
Q ss_pred cccccccccccCCc--ceEeeCCCCcchHHHHHHHHHhC----CCCCCCCCCc
Q 047964 78 KDCAVCLSDFEDGE--MVRKLNCKHTFHRDCLDKWLQEY----LATCPLCRTK 124 (168)
Q Consensus 78 ~~C~IC~~~~~~~~--~~~~~~C~H~f~~~Ci~~w~~~~----~~~CP~Cr~~ 124 (168)
..|++|-..=.... .+..-.|+-.+|..|...|+... -.+||-||..
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 45666654322221 22223688999999999998632 1368888754
No 226
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.99 E-value=39 Score=27.37 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=25.7
Q ss_pred cccccccccccccCCcceEeeCC--CCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 76 ESKDCAVCLSDFEDGEMVRKLNC--KHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~C--~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
....||+|=.............= .+..|..|-..|--.+ ..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR-VKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC-ccCCCCCC
Confidence 45789999776322210000011 2334556777886543 56999964
No 227
>PLN02400 cellulose synthase
Probab=21.62 E-value=64 Score=30.66 Aligned_cols=51 Identities=24% Similarity=0.494 Sum_probs=32.6
Q ss_pred cccccccccccccCCc----ceEeeCCCCcchHHHHHHHHHhCCCCCCCCCCcCC
Q 047964 76 ESKDCAVCLSDFEDGE----MVRKLNCKHTFHRDCLDKWLQEYLATCPLCRTKVL 126 (168)
Q Consensus 76 ~~~~C~IC~~~~~~~~----~~~~~~C~H~f~~~Ci~~w~~~~~~~CP~Cr~~~~ 126 (168)
....|.||=++..... .+..-.|+--.|..|.+-=.+.+.+.||.|++...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3568999998764221 11112455557999986433444568999998774
No 228
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=21.61 E-value=1.1e+02 Score=21.35 Aligned_cols=7 Identities=43% Similarity=1.464 Sum_probs=3.4
Q ss_pred CCCCCCC
Q 047964 117 TCPLCRT 123 (168)
Q Consensus 117 ~CP~Cr~ 123 (168)
+||.|..
T Consensus 42 RC~vCqn 48 (126)
T PRK10144 42 RCPQCQN 48 (126)
T ss_pred CCCCCCC
Confidence 4555543
No 229
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=20.91 E-value=16 Score=29.54 Aligned_cols=45 Identities=18% Similarity=0.327 Sum_probs=24.8
Q ss_pred ccccccccccccCCcceEee--CC--CCcchHHHHHHHHHhCCCCCCCCCC
Q 047964 77 SKDCAVCLSDFEDGEMVRKL--NC--KHTFHRDCLDKWLQEYLATCPLCRT 123 (168)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~--~C--~H~f~~~Ci~~w~~~~~~~CP~Cr~ 123 (168)
...||+|=..-..+.. +.- .= .+..|..|-..|--.+ ..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~-~~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMV-RQGGKETGLRYLSCSLCATEWHYVR-VKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhh-cccCCCCCceEEEcCCCCCcccccC-ccCCCCCC
Confidence 4589999875321110 000 11 1334556777886543 56999965
Done!