Query 030807
Match_columns 171
No_of_seqs 157 out of 1760
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 04:52:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030807hhsearch_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 8E-16 1.7E-20 126.6 5.6 67 69-136 211-279 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 8.2E-15 1.8E-19 86.9 1.7 44 86-131 1-44 (44)
3 COG5540 RING-finger-containing 99.3 1.2E-12 2.6E-17 105.1 3.8 53 83-136 321-373 (374)
4 PHA02929 N1R/p28-like protein; 99.3 5.2E-12 1.1E-16 99.9 4.8 68 67-135 152-227 (238)
5 PF12678 zf-rbx1: RING-H2 zinc 99.2 6.7E-12 1.4E-16 82.3 3.7 47 84-131 18-73 (73)
6 KOG0317 Predicted E3 ubiquitin 99.2 1.1E-11 2.3E-16 99.1 3.7 54 81-139 235-288 (293)
7 COG5243 HRD1 HRD ubiquitin lig 99.2 1.9E-11 4.1E-16 100.7 3.6 69 69-139 271-349 (491)
8 PLN03208 E3 ubiquitin-protein 99.0 2E-10 4.4E-15 87.7 3.7 56 83-142 16-86 (193)
9 PF12861 zf-Apc11: Anaphase-pr 99.0 2.7E-10 5.9E-15 75.9 3.3 53 83-135 19-82 (85)
10 PF15227 zf-C3HC4_4: zinc fing 99.0 4.8E-10 1E-14 65.7 3.0 39 88-130 1-42 (42)
11 cd00162 RING RING-finger (Real 99.0 7.9E-10 1.7E-14 64.4 3.6 45 87-134 1-45 (45)
12 PHA02926 zinc finger-like prot 98.9 7.2E-10 1.6E-14 85.9 3.5 52 83-134 168-229 (242)
13 PF13920 zf-C3HC4_3: Zinc fing 98.9 7.5E-10 1.6E-14 67.2 2.9 46 85-135 2-48 (50)
14 PF13923 zf-C3HC4_2: Zinc fing 98.9 9.9E-10 2.1E-14 63.2 2.7 39 88-130 1-39 (39)
15 KOG0823 Predicted E3 ubiquitin 98.9 9.1E-10 2E-14 85.7 3.2 55 83-141 45-101 (230)
16 KOG0320 Predicted E3 ubiquitin 98.8 1.4E-09 3E-14 81.5 2.4 54 83-139 129-182 (187)
17 KOG0802 E3 ubiquitin ligase [P 98.8 7.3E-10 1.6E-14 97.6 0.3 51 83-135 289-341 (543)
18 smart00504 Ubox Modified RING 98.8 6.3E-09 1.4E-13 65.7 4.5 52 86-142 2-53 (63)
19 PF00097 zf-C3HC4: Zinc finger 98.8 4.2E-09 9.1E-14 61.1 2.7 40 88-130 1-41 (41)
20 COG5194 APC11 Component of SCF 98.7 6.1E-09 1.3E-13 68.0 2.5 50 85-135 20-81 (88)
21 smart00184 RING Ring finger. E 98.7 2E-08 4.3E-13 56.4 3.1 39 88-130 1-39 (39)
22 PF14634 zf-RING_5: zinc-RING 98.7 2.5E-08 5.4E-13 58.9 3.3 44 87-132 1-44 (44)
23 COG5574 PEX10 RING-finger-cont 98.6 1.8E-08 3.8E-13 79.9 2.6 53 83-139 213-266 (271)
24 TIGR00599 rad18 DNA repair pro 98.6 3.4E-08 7.3E-13 83.5 4.3 52 83-139 24-75 (397)
25 KOG1493 Anaphase-promoting com 98.5 2E-08 4.3E-13 65.1 -0.6 53 83-135 18-81 (84)
26 KOG2164 Predicted E3 ubiquitin 98.5 9.8E-08 2.1E-12 81.8 2.8 52 85-140 186-241 (513)
27 KOG2930 SCF ubiquitin ligase, 98.4 1E-07 2.2E-12 65.3 2.2 51 83-134 44-107 (114)
28 KOG0828 Predicted E3 ubiquitin 98.4 5.8E-07 1.3E-11 76.8 6.5 54 83-136 569-635 (636)
29 TIGR00570 cdk7 CDK-activating 98.4 3.4E-07 7.3E-12 74.8 4.0 53 85-138 3-57 (309)
30 PF04564 U-box: U-box domain; 98.3 7E-07 1.5E-11 58.4 3.4 60 84-147 3-62 (73)
31 KOG0287 Postreplication repair 98.3 3E-07 6.4E-12 75.4 1.8 53 84-141 22-74 (442)
32 COG5219 Uncharacterized conser 98.2 4.1E-07 8.9E-12 82.8 1.4 53 83-135 1467-1523(1525)
33 PF13445 zf-RING_UBOX: RING-ty 98.2 1E-06 2.2E-11 51.7 2.4 33 88-122 1-34 (43)
34 KOG1734 Predicted RING-contain 98.2 3.4E-07 7.5E-12 72.9 -0.4 53 83-136 222-282 (328)
35 KOG0804 Cytoplasmic Zn-finger 98.1 1.1E-06 2.4E-11 74.3 2.0 49 83-135 173-222 (493)
36 KOG0311 Predicted E3 ubiquitin 98.1 3.4E-07 7.4E-12 75.4 -1.1 51 83-136 41-91 (381)
37 COG5432 RAD18 RING-finger-cont 98.1 1.8E-06 3.8E-11 69.6 1.9 47 84-135 24-70 (391)
38 KOG2177 Predicted E3 ubiquitin 98.1 1.8E-06 3.8E-11 68.8 2.0 45 83-132 11-55 (386)
39 KOG3970 Predicted E3 ubiquitin 98.1 6.3E-06 1.4E-10 64.2 4.9 69 83-153 48-132 (299)
40 PF14835 zf-RING_6: zf-RING of 98.1 1.2E-06 2.6E-11 55.3 0.6 51 85-141 7-57 (65)
41 smart00744 RINGv The RING-vari 98.0 4.5E-06 9.8E-11 50.4 3.0 43 87-131 1-49 (49)
42 PF11793 FANCL_C: FANCL C-term 98.0 8.3E-07 1.8E-11 57.6 -0.5 50 85-134 2-65 (70)
43 KOG0978 E3 ubiquitin ligase in 97.9 5.5E-06 1.2E-10 74.1 1.4 52 85-140 643-694 (698)
44 KOG0827 Predicted E3 ubiquitin 97.8 1.1E-05 2.4E-10 67.3 2.6 50 86-135 5-56 (465)
45 KOG0824 Predicted E3 ubiquitin 97.8 1.4E-05 3.1E-10 64.7 2.2 50 85-138 7-56 (324)
46 KOG1039 Predicted E3 ubiquitin 97.7 2.3E-05 5.1E-10 65.3 2.1 51 83-133 159-219 (344)
47 KOG1645 RING-finger-containing 97.6 5E-05 1.1E-09 63.9 3.8 59 84-142 3-63 (463)
48 KOG4172 Predicted E3 ubiquitin 97.6 2.4E-05 5.3E-10 47.6 0.6 46 85-134 7-53 (62)
49 KOG4265 Predicted E3 ubiquitin 97.5 5.7E-05 1.2E-09 62.6 2.7 48 83-135 288-336 (349)
50 KOG0825 PHD Zn-finger protein 97.5 1.6E-05 3.5E-10 71.5 -1.3 58 86-145 124-181 (1134)
51 PF11789 zf-Nse: Zinc-finger o 97.4 9.1E-05 2E-09 46.0 1.7 43 84-129 10-53 (57)
52 KOG0297 TNF receptor-associate 97.2 0.00018 3.9E-09 61.2 2.6 55 82-140 18-72 (391)
53 KOG2879 Predicted E3 ubiquitin 97.0 0.00054 1.2E-08 55.0 3.2 50 83-135 237-287 (298)
54 KOG4159 Predicted E3 ubiquitin 97.0 0.00044 9.5E-09 58.8 2.8 49 83-136 82-130 (398)
55 PF14570 zf-RING_4: RING/Ubox 96.9 0.0008 1.7E-08 40.2 2.4 46 88-134 1-47 (48)
56 KOG1941 Acetylcholine receptor 96.9 0.00035 7.5E-09 58.7 0.8 47 84-131 364-412 (518)
57 KOG0801 Predicted E3 ubiquitin 96.9 0.0003 6.6E-09 52.3 0.3 39 74-113 164-204 (205)
58 KOG4445 Uncharacterized conser 96.8 0.00045 9.8E-09 56.2 1.1 37 83-120 113-149 (368)
59 KOG1785 Tyrosine kinase negati 96.7 0.00063 1.4E-08 57.4 1.1 45 87-135 371-416 (563)
60 KOG2660 Locus-specific chromos 96.7 0.00044 9.5E-09 56.8 0.1 49 83-135 13-61 (331)
61 KOG3039 Uncharacterized conser 96.5 0.003 6.5E-08 50.2 3.4 57 84-141 220-276 (303)
62 KOG1814 Predicted E3 ubiquitin 96.4 0.0032 7E-08 53.3 3.7 67 83-150 182-257 (445)
63 COG5152 Uncharacterized conser 96.3 0.0015 3.4E-08 50.2 1.2 44 85-133 196-239 (259)
64 KOG1428 Inhibitor of type V ad 96.2 0.0037 8.1E-08 60.2 3.0 58 83-141 3484-3550(3738)
65 KOG4185 Predicted E3 ubiquitin 96.2 0.0061 1.3E-07 49.7 3.9 49 86-134 4-54 (296)
66 KOG0826 Predicted E3 ubiquitin 96.0 0.007 1.5E-07 49.9 3.6 52 83-138 298-349 (357)
67 PHA02862 5L protein; Provision 96.0 0.0056 1.2E-07 44.8 2.7 48 85-135 2-53 (156)
68 KOG1002 Nucleotide excision re 96.0 0.0047 1E-07 54.0 2.5 50 83-136 534-587 (791)
69 PHA02825 LAP/PHD finger-like p 96.0 0.0084 1.8E-07 44.6 3.5 50 83-135 6-59 (162)
70 KOG2114 Vacuolar assembly/sort 95.9 0.0041 9E-08 56.8 1.9 58 70-134 825-882 (933)
71 COG5222 Uncharacterized conser 95.8 0.0055 1.2E-07 50.0 2.1 44 86-132 275-318 (427)
72 KOG1952 Transcription factor N 95.7 0.0052 1.1E-07 56.2 1.8 50 83-132 189-244 (950)
73 KOG4692 Predicted E3 ubiquitin 95.7 0.0058 1.3E-07 50.9 1.8 49 83-136 420-468 (489)
74 KOG3800 Predicted E3 ubiquitin 95.6 0.01 2.3E-07 48.1 3.0 53 87-139 2-55 (300)
75 KOG1571 Predicted E3 ubiquitin 95.6 0.0057 1.2E-07 51.0 1.4 44 83-134 303-346 (355)
76 PF10367 Vps39_2: Vacuolar sor 95.6 0.0047 1E-07 42.5 0.8 33 83-117 76-108 (109)
77 PF05883 Baculo_RING: Baculovi 95.5 0.0055 1.2E-07 44.4 1.0 37 84-121 25-67 (134)
78 KOG1813 Predicted E3 ubiquitin 95.4 0.011 2.3E-07 48.2 2.5 45 86-135 242-286 (313)
79 PF04641 Rtf2: Rtf2 RING-finge 95.4 0.023 5E-07 45.8 4.5 55 83-139 111-165 (260)
80 COG5175 MOT2 Transcriptional r 95.4 0.011 2.5E-07 49.0 2.6 52 83-135 12-64 (480)
81 PF08746 zf-RING-like: RING-li 95.2 0.016 3.6E-07 33.7 2.2 42 88-130 1-43 (43)
82 PHA03096 p28-like protein; Pro 95.1 0.013 2.7E-07 48.0 1.9 46 86-131 179-230 (284)
83 PF12906 RINGv: RING-variant d 95.0 0.019 4.1E-07 34.1 2.1 42 88-130 1-47 (47)
84 PF14447 Prok-RING_4: Prokaryo 94.8 0.018 3.9E-07 35.3 1.6 46 86-138 8-53 (55)
85 KOG4739 Uncharacterized protei 94.5 0.016 3.5E-07 45.8 1.2 49 87-141 5-54 (233)
86 KOG3268 Predicted E3 ubiquitin 94.5 0.028 6.1E-07 42.7 2.4 30 106-135 189-228 (234)
87 PF10272 Tmpp129: Putative tra 94.4 0.084 1.8E-06 44.5 5.1 64 74-138 260-354 (358)
88 KOG1940 Zn-finger protein [Gen 94.1 0.043 9.2E-07 44.6 2.7 47 85-132 158-204 (276)
89 PF14446 Prok-RING_1: Prokaryo 93.8 0.072 1.6E-06 32.6 2.7 35 84-118 4-38 (54)
90 COG5220 TFB3 Cdk activating ki 93.2 0.038 8.2E-07 43.9 1.0 48 84-131 9-60 (314)
91 PF07975 C1_4: TFIIH C1-like d 92.5 0.15 3.3E-06 30.8 2.7 43 88-131 2-50 (51)
92 KOG3002 Zn finger protein [Gen 92.3 0.11 2.4E-06 42.8 2.6 46 83-135 46-91 (299)
93 COG5236 Uncharacterized conser 92.0 0.22 4.8E-06 41.7 4.0 48 83-134 59-107 (493)
94 PF07800 DUF1644: Protein of u 91.7 0.25 5.4E-06 36.9 3.6 60 84-143 1-99 (162)
95 PF03854 zf-P11: P-11 zinc fin 91.3 0.084 1.8E-06 31.3 0.6 43 87-136 4-47 (50)
96 KOG0827 Predicted E3 ubiquitin 91.0 0.026 5.5E-07 47.7 -2.4 54 85-140 196-250 (465)
97 KOG4275 Predicted E3 ubiquitin 90.7 0.047 1E-06 44.5 -1.1 41 85-134 300-341 (350)
98 KOG1001 Helicase-like transcri 90.5 0.13 2.8E-06 47.0 1.4 45 86-135 455-500 (674)
99 KOG2034 Vacuolar sorting prote 90.4 0.14 3.1E-06 47.4 1.6 36 83-120 815-850 (911)
100 KOG0298 DEAD box-containing he 89.8 0.11 2.4E-06 49.9 0.3 45 84-132 1152-1196(1394)
101 KOG2932 E3 ubiquitin ligase in 89.7 0.16 3.4E-06 41.9 1.1 41 87-133 92-132 (389)
102 PF05290 Baculo_IE-1: Baculovi 89.5 0.35 7.5E-06 35.1 2.6 54 84-137 79-134 (140)
103 KOG4362 Transcriptional regula 88.1 0.15 3.3E-06 46.2 0.0 56 84-143 20-77 (684)
104 KOG1812 Predicted E3 ubiquitin 87.6 0.29 6.3E-06 41.7 1.5 37 84-121 145-182 (384)
105 PF13901 DUF4206: Domain of un 87.4 0.51 1.1E-05 36.7 2.6 42 83-131 150-196 (202)
106 KOG3899 Uncharacterized conser 86.8 0.33 7.2E-06 39.7 1.3 32 107-138 325-368 (381)
107 KOG3113 Uncharacterized conser 85.8 1 2.2E-05 36.2 3.4 53 83-138 109-161 (293)
108 KOG2807 RNA polymerase II tran 85.7 1.1 2.4E-05 37.3 3.7 62 69-132 310-375 (378)
109 KOG2817 Predicted E3 ubiquitin 85.1 0.79 1.7E-05 39.0 2.7 48 83-131 332-381 (394)
110 TIGR00622 ssl1 transcription f 84.3 1.7 3.8E-05 30.6 3.8 47 85-132 55-111 (112)
111 KOG3053 Uncharacterized conser 83.7 0.3 6.5E-06 39.2 -0.3 79 82-163 17-108 (293)
112 KOG0309 Conserved WD40 repeat- 82.2 0.92 2E-05 41.8 2.1 23 106-129 1047-1069(1081)
113 KOG3161 Predicted E3 ubiquitin 81.3 0.84 1.8E-05 41.3 1.5 42 86-131 12-53 (861)
114 KOG0825 PHD Zn-finger protein 79.6 0.92 2E-05 41.9 1.2 51 84-134 95-153 (1134)
115 KOG4367 Predicted Zn-finger pr 78.6 0.99 2.1E-05 39.1 1.1 35 83-121 2-36 (699)
116 PF14569 zf-UDP: Zinc-binding 78.5 3.5 7.7E-05 27.1 3.4 51 84-134 8-61 (80)
117 PF13719 zinc_ribbon_5: zinc-r 78.0 1.3 2.9E-05 24.7 1.2 27 86-112 3-36 (37)
118 KOG4718 Non-SMC (structural ma 77.9 1.3 2.8E-05 34.7 1.4 45 84-132 180-224 (235)
119 KOG1829 Uncharacterized conser 77.6 0.75 1.6E-05 41.2 0.1 44 83-131 509-557 (580)
120 PF11002 RDM: RFPL defining mo 75.9 0.86 1.9E-05 26.2 0.0 26 145-170 9-34 (42)
121 PF02891 zf-MIZ: MIZ/SP-RING z 75.7 1.8 3.9E-05 25.8 1.4 44 86-133 3-50 (50)
122 PF10571 UPF0547: Uncharacteri 71.0 2.4 5.2E-05 21.8 1.0 22 88-111 3-24 (26)
123 COG5183 SSM4 Protein involved 67.8 3.6 7.7E-05 38.4 2.0 53 83-135 10-66 (1175)
124 KOG1100 Predicted E3 ubiquitin 67.2 3.8 8.2E-05 32.0 1.8 39 88-135 161-200 (207)
125 KOG2041 WD40 repeat protein [G 67.0 4.5 9.8E-05 37.4 2.4 47 83-134 1129-1184(1189)
126 PLN02189 cellulose synthase 66.6 6.3 0.00014 37.8 3.4 52 84-135 33-87 (1040)
127 KOG1609 Protein involved in mR 66.2 4.2 9.1E-05 33.0 2.0 52 83-135 76-134 (323)
128 smart00249 PHD PHD zinc finger 66.1 4.2 9.2E-05 22.6 1.5 30 88-118 2-31 (47)
129 PF13717 zinc_ribbon_4: zinc-r 64.5 3.4 7.4E-05 22.9 0.8 26 87-112 4-36 (36)
130 KOG3039 Uncharacterized conser 63.3 5.5 0.00012 32.0 2.0 35 83-121 41-75 (303)
131 KOG0269 WD40 repeat-containing 62.7 7.4 0.00016 36.0 3.0 43 87-132 781-825 (839)
132 KOG2068 MOT2 transcription fac 62.6 13 0.00027 31.1 4.1 51 85-137 249-300 (327)
133 PF01363 FYVE: FYVE zinc finge 62.2 3.4 7.5E-05 25.9 0.6 37 84-120 8-44 (69)
134 cd00065 FYVE FYVE domain; Zinc 62.1 6 0.00013 23.6 1.7 35 86-120 3-37 (57)
135 KOG1815 Predicted E3 ubiquitin 61.4 5.2 0.00011 34.7 1.8 37 83-122 68-104 (444)
136 PF00628 PHD: PHD-finger; Int 61.0 4.4 9.5E-05 23.7 0.9 33 87-120 1-33 (51)
137 PLN02436 cellulose synthase A 61.0 9.1 0.0002 36.9 3.4 52 84-135 35-89 (1094)
138 KOG1812 Predicted E3 ubiquitin 59.5 5.4 0.00012 34.1 1.5 44 85-130 306-351 (384)
139 KOG0802 E3 ubiquitin ligase [P 57.6 5.2 0.00011 35.7 1.2 48 81-137 475-522 (543)
140 PF04710 Pellino: Pellino; In 56.9 3.6 7.7E-05 35.2 0.0 78 83-164 275-368 (416)
141 smart00064 FYVE Protein presen 56.9 8.5 0.00018 24.0 1.8 37 85-121 10-46 (68)
142 COG5109 Uncharacterized conser 53.7 64 0.0014 27.1 6.7 48 83-131 334-383 (396)
143 PLN02195 cellulose synthase A 52.6 23 0.0005 33.9 4.5 51 85-135 6-59 (977)
144 PF04423 Rad50_zn_hook: Rad50 51.8 3.7 8E-05 24.7 -0.5 16 124-139 20-35 (54)
145 PF06844 DUF1244: Protein of u 51.1 10 0.00023 24.1 1.4 11 111-121 12-22 (68)
146 PF07649 C1_3: C1-like domain; 49.5 16 0.00034 19.0 1.8 29 87-116 2-30 (30)
147 PF09889 DUF2116: Uncharacteri 49.4 12 0.00026 23.3 1.5 18 123-140 2-19 (59)
148 smart00734 ZnF_Rad18 Rad18-lik 49.3 9.6 0.00021 19.4 0.9 17 126-142 3-19 (26)
149 PLN02638 cellulose synthase A 49.2 20 0.00043 34.7 3.5 52 84-135 16-70 (1079)
150 PF07191 zinc-ribbons_6: zinc- 48.7 6.2 0.00014 25.4 0.2 39 86-134 2-40 (70)
151 PF10497 zf-4CXXC_R1: Zinc-fin 48.6 27 0.0006 24.1 3.4 25 108-132 37-69 (105)
152 KOG2066 Vacuolar assembly/sort 47.2 7.1 0.00015 36.2 0.3 45 84-131 783-831 (846)
153 KOG0824 Predicted E3 ubiquitin 46.6 7.3 0.00016 32.2 0.3 47 83-133 103-149 (324)
154 COG4068 Uncharacterized protei 45.4 17 0.00037 22.6 1.7 19 123-141 7-25 (64)
155 PF14311 DUF4379: Domain of un 45.3 18 0.0004 21.6 1.9 26 103-130 30-55 (55)
156 COG1545 Predicted nucleic-acid 45.0 16 0.00035 26.6 1.9 23 103-134 31-53 (140)
157 PF12606 RELT: Tumour necrosis 44.5 69 0.0015 19.2 4.7 31 15-45 5-35 (50)
158 COG5151 SSL1 RNA polymerase II 44.0 29 0.00062 29.0 3.3 48 85-133 362-419 (421)
159 PLN02915 cellulose synthase A 43.2 26 0.00057 33.8 3.3 52 84-135 14-68 (1044)
160 COG4357 Zinc finger domain con 40.7 31 0.00067 23.7 2.5 28 107-136 65-92 (105)
161 PLN02400 cellulose synthase 40.1 23 0.0005 34.3 2.5 52 84-135 35-89 (1085)
162 KOG3842 Adaptor protein Pellin 38.6 34 0.00075 28.6 3.0 52 84-135 340-414 (429)
163 smart00647 IBR In Between Ring 38.1 8.1 0.00018 23.4 -0.5 20 100-119 39-58 (64)
164 KOG4185 Predicted E3 ubiquitin 38.0 6.2 0.00013 32.1 -1.4 48 86-133 208-265 (296)
165 KOG3005 GIY-YIG type nuclease 37.8 23 0.0005 28.8 1.9 50 85-134 182-242 (276)
166 PF06906 DUF1272: Protein of u 37.6 57 0.0012 20.1 3.1 45 87-136 7-53 (57)
167 KOG3579 Predicted E3 ubiquitin 36.2 19 0.00041 29.6 1.1 40 84-123 267-306 (352)
168 PF04216 FdhE: Protein involve 35.6 8.5 0.00018 31.4 -1.0 49 84-133 171-220 (290)
169 PF11023 DUF2614: Protein of u 34.0 52 0.0011 23.2 2.9 26 105-137 73-98 (114)
170 PF06937 EURL: EURL protein; 33.5 36 0.00078 27.7 2.3 47 85-131 30-77 (285)
171 PF02318 FYVE_2: FYVE-type zin 32.9 19 0.00042 25.2 0.7 35 84-118 53-88 (118)
172 PF00412 LIM: LIM domain; Int 32.8 40 0.00086 19.8 2.0 40 88-138 1-40 (58)
173 PRK11088 rrmA 23S rRNA methylt 31.1 30 0.00065 27.6 1.6 25 86-111 3-27 (272)
174 KOG2071 mRNA cleavage and poly 30.5 26 0.00055 31.6 1.1 36 83-120 511-557 (579)
175 PF07282 OrfB_Zn_ribbon: Putat 28.4 56 0.0012 20.2 2.2 32 84-115 27-60 (69)
176 PF06750 DiS_P_DiS: Bacterial 27.8 66 0.0014 21.6 2.6 44 84-141 32-75 (92)
177 KOG1729 FYVE finger containing 27.6 13 0.00029 30.5 -1.0 42 86-128 215-256 (288)
178 PLN02248 cellulose synthase-li 27.2 44 0.00096 32.6 2.1 33 106-139 149-181 (1135)
179 KOG2979 Protein involved in DN 26.4 36 0.00078 27.5 1.2 45 85-132 176-221 (262)
180 KOG4218 Nuclear hormone recept 25.9 21 0.00045 30.2 -0.2 14 83-96 13-26 (475)
181 smart00109 C1 Protein kinase C 25.8 56 0.0012 18.2 1.7 34 84-118 10-44 (49)
182 PTZ00303 phosphatidylinositol 25.7 56 0.0012 30.9 2.4 35 86-120 461-500 (1374)
183 PF10717 ODV-E18: Occlusion-de 25.5 1.5E+02 0.0033 19.7 3.8 22 7-28 18-39 (85)
184 COG3492 Uncharacterized protei 25.3 40 0.00086 22.9 1.1 12 111-122 43-54 (104)
185 PRK04023 DNA polymerase II lar 25.0 75 0.0016 30.8 3.1 49 83-138 624-677 (1121)
186 PF10083 DUF2321: Uncharacteri 24.7 44 0.00095 25.0 1.3 24 108-135 27-50 (158)
187 PF14169 YdjO: Cold-inducible 24.5 49 0.0011 20.6 1.3 13 124-136 39-51 (59)
188 PF09723 Zn-ribbon_8: Zinc rib 24.1 18 0.00039 20.5 -0.6 25 106-132 10-34 (42)
189 PF13832 zf-HC5HC2H_2: PHD-zin 23.6 67 0.0015 21.8 2.1 33 84-118 54-87 (110)
190 KOG4080 Mitochondrial ribosoma 23.2 24 0.00052 26.6 -0.3 11 99-109 91-101 (176)
191 PF13913 zf-C2HC_2: zinc-finge 23.1 32 0.00069 17.2 0.2 17 125-141 3-19 (25)
192 PF03107 C1_2: C1 domain; Int 22.7 46 0.001 17.3 0.9 28 87-115 2-29 (30)
193 TIGR01562 FdhE formate dehydro 22.6 39 0.00085 28.0 0.8 49 84-133 183-233 (305)
194 PF13771 zf-HC5HC2H: PHD-like 22.1 65 0.0014 20.9 1.7 33 84-118 35-68 (90)
195 PRK14559 putative protein seri 21.4 40 0.00087 31.0 0.7 9 126-134 29-37 (645)
196 KOG4323 Polycomb-like PHD Zn-f 21.3 56 0.0012 28.8 1.5 49 84-132 167-223 (464)
197 smart00132 LIM Zinc-binding do 21.2 55 0.0012 17.0 1.0 36 88-134 2-37 (39)
198 COG1592 Rubrerythrin [Energy p 21.0 65 0.0014 24.3 1.6 25 101-133 134-158 (166)
199 KOG1538 Uncharacterized conser 20.5 44 0.00096 31.0 0.8 34 100-134 1043-1076(1081)
200 COG2835 Uncharacterized conser 20.4 48 0.001 20.7 0.7 11 125-135 9-19 (60)
201 KOG4443 Putative transcription 20.2 60 0.0013 29.8 1.5 48 85-132 18-70 (694)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=8e-16 Score=126.62 Aligned_cols=67 Identities=36% Similarity=0.871 Sum_probs=55.9
Q ss_pred HHhhCCccccccCCCC--ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 69 IREILPVVKFSELVDP--PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 69 ~~~~~~~~~~~~~~~~--~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
..+.+|..+|....++ ...|+||+|+|+.++.++.|| |+|.||..||++||.+.+..||+|++.+.+
T Consensus 211 ~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 211 LLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred HHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 4445888888776432 258999999999999999997 999999999999998766779999987653
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=8.2e-15 Score=86.86 Aligned_cols=44 Identities=43% Similarity=1.283 Sum_probs=38.8
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
++|+||++++..++.+..++ |+|.||..||.+|++ .+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~-~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLK-RNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHH-HSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHH-hCCcCCccC
Confidence 46999999999888888897 999999999999998 478999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=1.2e-12 Score=105.07 Aligned_cols=53 Identities=42% Similarity=1.006 Sum_probs=48.4
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
...-+|+||+++|...++++.+| |.|.||..|+++|+...+..||+||.+++|
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 44578999999999999999997 999999999999998678899999999876
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.26 E-value=5.2e-12 Score=99.85 Aligned_cols=68 Identities=34% Similarity=0.779 Sum_probs=50.0
Q ss_pred HHHHhhCCcccccc--C--CCCccccccccccccccc----eeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 67 LLIREILPVVKFSE--L--VDPPDSCAVCLYEFEEQD----EIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 67 ~~~~~~~~~~~~~~--~--~~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+...+.+|.+.... . ...+.+|+||++.+..+. .+..+++|+|.||..||.+|++ .+.+||+||.++.
T Consensus 152 ~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~ 227 (238)
T PHA02929 152 KKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFI 227 (238)
T ss_pred HHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEee
Confidence 34455577665332 1 145688999999987653 2345667999999999999998 6889999998764
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.24 E-value=6.7e-12 Score=82.28 Aligned_cols=47 Identities=38% Similarity=0.938 Sum_probs=35.1
Q ss_pred Ccccccccccccccc---------ceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 84 PPDSCAVCLYEFEEQ---------DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
.++.|+||++++..+ .....+.+|+|.||..||.+|++ .+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~-~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK-QNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT-TSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh-cCCcCCCCC
Confidence 455699999999332 12223345999999999999998 577999998
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.1e-11 Score=99.10 Aligned_cols=54 Identities=30% Similarity=0.842 Sum_probs=47.5
Q ss_pred CCCCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 81 LVDPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 81 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
..++...|.+|++..+++..+ +|||+||+.||.+|.. .+..||+||.++.|.++
T Consensus 235 i~~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~-ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCS-EKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHc-cccCCCcccccCCCcce
Confidence 336678899999999998777 7999999999999998 58889999999988765
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.9e-11 Score=100.66 Aligned_cols=69 Identities=33% Similarity=0.829 Sum_probs=52.6
Q ss_pred HHhhCCccccccCCCCccccccccccc-ccc---------ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 69 IREILPVVKFSELVDPPDSCAVCLYEF-EEQ---------DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~C~ICl~~~-~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
+.+.+|++..+....++..|.||++++ ..+ ..-+++| |||+||.+|+..|+. ++.+||.||.|+.-++
T Consensus 271 l~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~E-RqQTCPICr~p~ifd~ 348 (491)
T COG5243 271 LNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLE-RQQTCPICRRPVIFDQ 348 (491)
T ss_pred HHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHH-hccCCCcccCcccccc
Confidence 445566666666666788999999994 333 1235676 999999999999998 7999999999965444
Q ss_pred h
Q 030807 139 M 139 (171)
Q Consensus 139 ~ 139 (171)
.
T Consensus 349 ~ 349 (491)
T COG5243 349 S 349 (491)
T ss_pred C
Confidence 3
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.02 E-value=2e-10 Score=87.67 Aligned_cols=56 Identities=20% Similarity=0.594 Sum_probs=44.2
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc---------------CCCCCCccCCCCCCCchhhH
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY---------------DQKTCPLCRTPFIPDDMQDS 142 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---------------~~~~CP~Cr~~~~~~~~~~~ 142 (171)
.++.+|+||++.++++..+ .|||.||+.||.+|+.. +...||+||.++....+..-
T Consensus 16 ~~~~~CpICld~~~dPVvT----~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVT----LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CCccCCccCCCcCCCcEEc----CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 4567899999998877443 59999999999999852 23579999999876665443
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.00 E-value=2.7e-10 Score=75.94 Aligned_cols=53 Identities=30% Similarity=0.805 Sum_probs=39.4
Q ss_pred CCcccccccccccccc---------ceeeecCCCCCcccHHHHHHHHhcC--CCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQ---------DEIRRLTNCRHIFHRGCLDRWMAYD--QKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~~CP~Cr~~~~ 135 (171)
.+++.|.||+..|... +.-.....|+|.||..||.+|+..+ +..||+||+++.
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4578899999888531 1112234699999999999999743 568999999764
No 10
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.97 E-value=4.8e-10 Score=65.66 Aligned_cols=39 Identities=36% Similarity=0.905 Sum_probs=30.8
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCC---CCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQK---TCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~---~CP~C 130 (171)
|+||++.|.++..+ +|||.|+..||.+|++..+. .||.|
T Consensus 1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999777 69999999999999975433 59987
No 11
>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=98.95 E-value=7.9e-10 Score=64.44 Aligned_cols=45 Identities=49% Similarity=1.187 Sum_probs=35.6
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
.|+||++.+..... .. +|+|.||..|+..|++.++..||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~--~~-~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVV--LL-PCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceE--ec-CCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 48999999843322 23 59999999999999985578899999753
No 12
>PHA02926 zinc finger-like protein; Provisional
Probab=98.93 E-value=7.2e-10 Score=85.91 Aligned_cols=52 Identities=29% Similarity=0.750 Sum_probs=40.1
Q ss_pred CCcccccccccccccc-----ceeeecCCCCCcccHHHHHHHHhcC-----CCCCCccCCCC
Q 030807 83 DPPDSCAVCLYEFEEQ-----DEIRRLTNCRHIFHRGCLDRWMAYD-----QKTCPLCRTPF 134 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~Fh~~Ci~~wl~~~-----~~~CP~Cr~~~ 134 (171)
..+.+|+||++....+ .....+++|+|.||..||..|.+.. ..+||+||..+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 5678999999976332 2345677899999999999999742 34699999865
No 13
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.92 E-value=7.5e-10 Score=67.16 Aligned_cols=46 Identities=30% Similarity=0.855 Sum_probs=37.1
Q ss_pred ccccccccccccccceeeecCCCCCc-ccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHI-FHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+..|.||++...+. ..+ +|||. ||..|+.+|++ ....||+||.++.
T Consensus 2 ~~~C~iC~~~~~~~---~~~-pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDV---VLL-PCGHLCFCEECAERLLK-RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSE---EEE-TTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred cCCCccCCccCCce---EEe-CCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence 56899999986653 334 59999 99999999998 7999999999864
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=98.90 E-value=9.9e-10 Score=63.23 Aligned_cols=39 Identities=28% Similarity=0.910 Sum_probs=31.3
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~C 130 (171)
|+||++.+.++.. .+ +|||.||..|+.+|++. +..||.|
T Consensus 1 C~iC~~~~~~~~~--~~-~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVV--VT-PCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEE--EC-TTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCE--EC-CCCCchhHHHHHHHHHC-cCCCcCC
Confidence 8999999888532 23 69999999999999995 8899987
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=9.1e-10 Score=85.69 Aligned_cols=55 Identities=25% Similarity=0.587 Sum_probs=44.9
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcC--CCCCCccCCCCCCCchhh
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYD--QKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~~~~ 141 (171)
....+|.||++.-+++..+ .|||.||+.||.+|++.. +..||+|+..+..+.+..
T Consensus 45 ~~~FdCNICLd~akdPVvT----lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVT----LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred CCceeeeeeccccCCCEEe----ecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 5667899999998888655 599999999999999653 456999999887666544
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=1.4e-09 Score=81.49 Aligned_cols=54 Identities=24% Similarity=0.672 Sum_probs=43.6
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
+.-..|+|||+.+.....+ -.+|||+||..||...++ ....||+|++.+..+++
T Consensus 129 ~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk-~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALK-NTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhhcccc--ccccchhHHHHHHHHHHH-hCCCCCCcccccchhhh
Confidence 3446799999998876543 237999999999999998 68889999998765554
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=7.3e-10 Score=97.62 Aligned_cols=51 Identities=41% Similarity=0.948 Sum_probs=42.9
Q ss_pred CCccccccccccccccce--eeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDE--IRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~--~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
..+..|+||++++..+.. .++++ |+|+||..|+.+|++ +.++||.||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~e-r~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFE-RQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHH-HhCcCCcchhhhh
Confidence 457889999999988644 45565 999999999999999 6999999998443
No 18
>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=98.82 E-value=6.3e-09 Score=65.70 Aligned_cols=52 Identities=15% Similarity=0.415 Sum_probs=43.2
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhhH
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQDS 142 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~ 142 (171)
..|+||.+.+.++... +|||+|++.||.+|++. +..||.|+.++..+++...
T Consensus 2 ~~Cpi~~~~~~~Pv~~----~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 2 FLCPISLEVMKDPVIL----PSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred cCCcCCCCcCCCCEEC----CCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeC
Confidence 4699999999987443 59999999999999984 7889999999866665443
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.79 E-value=4.2e-09 Score=61.05 Aligned_cols=40 Identities=43% Similarity=1.060 Sum_probs=33.8
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHh-cCCCCCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMA-YDQKTCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~~CP~C 130 (171)
|+||++.+..+. ..+ +|+|.||..|+.+|++ .+...||+|
T Consensus 1 C~iC~~~~~~~~--~~~-~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILL-PCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EET-TTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEe-cCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988876 233 6999999999999998 556779987
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.73 E-value=6.1e-09 Score=68.04 Aligned_cols=50 Identities=30% Similarity=0.707 Sum_probs=36.6
Q ss_pred cccccccccccc-----------cc-ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 85 PDSCAVCLYEFE-----------EQ-DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 85 ~~~C~ICl~~~~-----------~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
-+.|+||+..+. ++ +.......|+|.||..||.+||. .+..||++|+++.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~-Tk~~CPld~q~w~ 81 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLD-TKGVCPLDRQTWV 81 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHh-hCCCCCCCCceeE
Confidence 356777776652 22 22333346999999999999998 5999999998764
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.67 E-value=2e-08 Score=56.39 Aligned_cols=39 Identities=38% Similarity=1.104 Sum_probs=30.8
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~C 130 (171)
|+||++.... ...+ +|+|.||..|+..|++..+..||.|
T Consensus 1 C~iC~~~~~~---~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---PVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---cEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899888433 3334 5999999999999998556779987
No 22
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.65 E-value=2.5e-08 Score=58.87 Aligned_cols=44 Identities=32% Similarity=0.846 Sum_probs=35.4
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
.|++|++.+........+ +|||+||..|+..+. .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 489999999444445455 599999999999987 35788999984
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.8e-08 Score=79.91 Aligned_cols=53 Identities=32% Similarity=0.655 Sum_probs=44.6
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHH-HHhcCCCCCCccCCCCCCCch
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDR-WMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~-wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
..+..|+||++....+..+ +|||+||..||.. |-+++...||+||+.+.++++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccc----cccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 5678899999998888776 6999999999999 877444459999999887765
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.62 E-value=3.4e-08 Score=83.50 Aligned_cols=52 Identities=29% Similarity=0.640 Sum_probs=43.1
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
+....|+||.+.+..+..+ +|+|.||..||..|+. ....||+|+.++....+
T Consensus 24 e~~l~C~IC~d~~~~Pvit----pCgH~FCs~CI~~~l~-~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPVLT----SCSHTFCSLCIRRCLS-NQPKCPLCRAEDQESKL 75 (397)
T ss_pred ccccCCCcCchhhhCccCC----CCCCchhHHHHHHHHh-CCCCCCCCCCccccccC
Confidence 5677899999999887533 6999999999999998 46789999998765433
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=2e-08 Score=65.10 Aligned_cols=53 Identities=30% Similarity=0.805 Sum_probs=37.5
Q ss_pred CCcccccccccccccc---------ceeeecCCCCCcccHHHHHHHHhc--CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQ---------DEIRRLTNCRHIFHRGCLDRWMAY--DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~~CP~Cr~~~~ 135 (171)
..+.+|-||+-+|... +.--++..|.|.||..||.+|+.. ++..||+||+.+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3455788888887442 221233359999999999999953 3567999998753
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=9.8e-08 Score=81.82 Aligned_cols=52 Identities=29% Similarity=0.692 Sum_probs=42.5
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcC----CCCCCccCCCCCCCchh
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYD----QKTCPLCRTPFIPDDMQ 140 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~~CP~Cr~~~~~~~~~ 140 (171)
+..||||+++...+..+ .|||+||..||..++... ...||+||..+..+++.
T Consensus 186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 77899999998877665 599999999999999543 46799999988775543
No 27
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=1e-07 Score=65.31 Aligned_cols=51 Identities=27% Similarity=0.693 Sum_probs=39.3
Q ss_pred CCccccccccccc-------------cccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 83 DPPDSCAVCLYEF-------------EEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 83 ~~~~~C~ICl~~~-------------~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
...+.|+||+..+ ...+.+..-..|+|.||..||.+|++ .+..||+|..+.
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlk-tr~vCPLdn~eW 107 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLK-TRNVCPLDNKEW 107 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHh-hcCcCCCcCcce
Confidence 4567899998765 22334444556999999999999999 699999998764
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=5.8e-07 Score=76.82 Aligned_cols=54 Identities=37% Similarity=0.923 Sum_probs=40.2
Q ss_pred CCccccccccccccccc----------ee---eecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQD----------EI---RRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~----------~~---~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
.....|+||+.+..--. .+ -.+.+|.|+||..|+..|....+-.||+||+++++
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 34567999999863211 01 12336999999999999998567799999999864
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=98.37 E-value=3.4e-07 Score=74.83 Aligned_cols=53 Identities=21% Similarity=0.590 Sum_probs=39.9
Q ss_pred cccccccccc-ccccc-eeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 85 PDSCAVCLYE-FEEQD-EIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 85 ~~~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
+..||+|..+ +.++. .+-.. .|||.||..|++..+..+...||.|+.++....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4679999995 33443 22223 599999999999987657788999998876655
No 30
>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=98.29 E-value=7e-07 Score=58.36 Aligned_cols=60 Identities=17% Similarity=0.333 Sum_probs=44.3
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhhHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQDSFNERL 147 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~ 147 (171)
+...|+|+.+-+.++..+ ++||.|.+.+|..|+..++..||.|+.++...++......+.
T Consensus 3 ~~f~CpIt~~lM~dPVi~----~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~ 62 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVIL----PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKS 62 (73)
T ss_dssp GGGB-TTTSSB-SSEEEE----TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHH
T ss_pred cccCCcCcCcHhhCceeC----CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHH
Confidence 356799999999999766 699999999999999866899999999988777665444333
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.28 E-value=3e-07 Score=75.41 Aligned_cols=53 Identities=21% Similarity=0.578 Sum_probs=44.7
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhh
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 141 (171)
.-..|-||.+.|..+.-+ +|+|.||..||..+|. .+..||.|+.++....+..
T Consensus 22 ~lLRC~IC~eyf~ip~it----pCsHtfCSlCIR~~L~-~~p~CP~C~~~~~Es~Lr~ 74 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMIT----PCSHTFCSLCIRKFLS-YKPQCPTCCVTVTESDLRN 74 (442)
T ss_pred HHHHHhHHHHHhcCceec----cccchHHHHHHHHHhc-cCCCCCceecccchhhhhh
Confidence 446799999999988554 6999999999999998 7999999999887655443
No 32
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.22 E-value=4.1e-07 Score=82.80 Aligned_cols=53 Identities=30% Similarity=0.839 Sum_probs=40.6
Q ss_pred CCccccccccccccc-cce--eeecCCCCCcccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEE-QDE--IRRLTNCRHIFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~-~~~--~~~l~~C~H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
.+-.+|+||...+.. +.. -.+++.|+|.||..|+.+|++. ++++||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 566789999987752 111 2456679999999999999974 4678999998764
No 33
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.21 E-value=1e-06 Score=51.68 Aligned_cols=33 Identities=27% Similarity=0.752 Sum_probs=20.4
Q ss_pred ccccccccccccee-eecCCCCCcccHHHHHHHHhc
Q 030807 88 CAVCLYEFEEQDEI-RRLTNCRHIFHRGCLDRWMAY 122 (171)
Q Consensus 88 C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~ 122 (171)
|+||.+ +...+.. ..|+ |||+|+.+|+.++++.
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhc
Confidence 899999 7664433 4465 9999999999999974
No 34
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=3.4e-07 Score=72.89 Aligned_cols=53 Identities=28% Similarity=0.699 Sum_probs=41.3
Q ss_pred CCccccccccccccccc-------eeeecCCCCCcccHHHHHHHHhcC-CCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQD-------EIRRLTNCRHIFHRGCLDRWMAYD-QKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~-------~~~~l~~C~H~Fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 136 (171)
.++..|++|-..+.... .+-++. |+|+||..||..|-..+ +.+||.|+..+-.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 46788999988775544 455664 99999999999998544 5689999976643
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.12 E-value=1.1e-06 Score=74.33 Aligned_cols=49 Identities=33% Similarity=0.775 Sum_probs=39.2
Q ss_pred CCccccccccccccccce-eeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDE-IRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
.+-.+|+||++.+..... +... .|.|.||..|+..| ...+||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w---~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKW---WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeee-ecccccchHHHhhc---ccCcChhhhhhcC
Confidence 355789999999877653 3334 49999999999999 5689999997655
No 36
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=3.4e-07 Score=75.35 Aligned_cols=51 Identities=24% Similarity=0.600 Sum_probs=43.8
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
..+..|+||++-++....+. .|.|.||.+||..-++.+.+.||.||..+.+
T Consensus 41 ~~~v~c~icl~llk~tmttk---eClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTK---ECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhccHHHHHHHHhhcccH---HHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 56778999999988865553 7999999999999999889999999987654
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.06 E-value=1.8e-06 Score=69.62 Aligned_cols=47 Identities=28% Similarity=0.591 Sum_probs=40.9
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
.-..|.||-+.+..+..+ +|||.||..||...|. .+..||+||.+..
T Consensus 24 s~lrC~IC~~~i~ip~~T----tCgHtFCslCIR~hL~-~qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIPCET----TCGHTFCSLCIRRHLG-TQPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecceec----ccccchhHHHHHHHhc-CCCCCccccccHH
Confidence 346799999999888666 6999999999999998 6999999998654
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.8e-06 Score=68.82 Aligned_cols=45 Identities=38% Similarity=0.808 Sum_probs=39.2
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
.+...|+||++.|..+ ..+ +|+|.||..|+..++. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l-~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLL-PCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccc-cccchHhHHHHHHhcC-CCcCCcccCC
Confidence 5677899999999999 345 4999999999999998 6788999994
No 39
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=6.3e-06 Score=64.25 Aligned_cols=69 Identities=29% Similarity=0.689 Sum_probs=55.5
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc-------CCCCCCccCCCCCCCc---------hhhHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY-------DQKTCPLCRTPFIPDD---------MQDSFNER 146 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-------~~~~CP~Cr~~~~~~~---------~~~~~~~~ 146 (171)
+.+..|..|-..+..++.++ +- |-|.||+.|+++|-.. ...+||.|..++++.. +.+.+...
T Consensus 48 DY~pNC~LC~t~La~gdt~R-Lv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~qv 125 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQV 125 (299)
T ss_pred CCCCCCceeCCccccCccee-eh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHhh
Confidence 44567999999999999885 43 9999999999999842 2357999999887654 45567888
Q ss_pred HHHhcCC
Q 030807 147 LWAASGI 153 (171)
Q Consensus 147 ~~~~~~~ 153 (171)
+|++.|+
T Consensus 126 NWaRagL 132 (299)
T KOG3970|consen 126 NWARAGL 132 (299)
T ss_pred hHHhhcc
Confidence 9999986
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.05 E-value=1.2e-06 Score=55.29 Aligned_cols=51 Identities=29% Similarity=0.690 Sum_probs=25.6
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhh
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 141 (171)
-..|++|.+.+..+..+. .|.|+||..||..-+ ...||+|+.|..-.+++.
T Consensus 7 lLrCs~C~~~l~~pv~l~---~CeH~fCs~Ci~~~~---~~~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLG---GCEHIFCSSCIRDCI---GSECPVCHTPAWIQDIQI 57 (65)
T ss_dssp TTS-SSS-S--SS-B------SSS--B-TTTGGGGT---TTB-SSS--B-S-SS---
T ss_pred hcCCcHHHHHhcCCceec---cCccHHHHHHhHHhc---CCCCCCcCChHHHHHHHh
Confidence 356999999999987655 799999999997744 346999999887666654
No 41
>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=98.05 E-value=4.5e-06 Score=50.35 Aligned_cols=43 Identities=37% Similarity=0.930 Sum_probs=31.2
Q ss_pred ccccccccccccceeeecCCCC-----CcccHHHHHHHHhcC-CCCCCccC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCR-----HIFHRGCLDRWMAYD-QKTCPLCR 131 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~-~~~CP~Cr 131 (171)
.|.||++...+++.+ ..| |. |.+|..|+.+|+... +.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l-~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPL-VSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCee-Eec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 488999843344443 454 75 889999999999643 55899995
No 42
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.02 E-value=8.3e-07 Score=57.58 Aligned_cols=50 Identities=26% Similarity=0.671 Sum_probs=23.4
Q ss_pred cccccccccccccc----ceeeecCCCCCcccHHHHHHHHhc--CC--------CCCCccCCCC
Q 030807 85 PDSCAVCLYEFEEQ----DEIRRLTNCRHIFHRGCLDRWMAY--DQ--------KTCPLCRTPF 134 (171)
Q Consensus 85 ~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~--~~--------~~CP~Cr~~~ 134 (171)
+..|.||.+..... +.+..-+.|+..||..|+.+|+.. +. ..||.|+.++
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 46799999976522 222222479999999999999953 11 2499999876
No 43
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=5.5e-06 Score=74.15 Aligned_cols=52 Identities=27% Similarity=0.705 Sum_probs=43.1
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchh
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQ 140 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 140 (171)
-..|++|-....+.. +++|+|+||..|+.+.+..+...||.|-..+.++++.
T Consensus 643 ~LkCs~Cn~R~Kd~v----I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAV----ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred ceeCCCccCchhhHH----HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 356999997666543 3379999999999999987889999999999887764
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=1.1e-05 Score=67.29 Aligned_cols=50 Identities=30% Similarity=0.870 Sum_probs=37.9
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCC--CCCCccCCCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQ--KTCPLCRTPFI 135 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~~CP~Cr~~~~ 135 (171)
..|.||.+-+.....+..+..|||+||..|+..|+.... ..||.|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 469999665556666666656999999999999996433 47999994433
No 45
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=1.4e-05 Score=64.69 Aligned_cols=50 Identities=28% Similarity=0.514 Sum_probs=40.3
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
..+|+||+...--+. .+ .|+|.||..||.--....+..|++||.++.++-
T Consensus 7 ~~eC~IC~nt~n~Pv---~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCPV---NL-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcCc---cc-cccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 467999988766663 34 599999999999887766788999999987554
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=2.3e-05 Score=65.26 Aligned_cols=51 Identities=31% Similarity=0.894 Sum_probs=39.7
Q ss_pred CCccccccccccccccc----eeeecCCCCCcccHHHHHHHHhcC------CCCCCccCCC
Q 030807 83 DPPDSCAVCLYEFEEQD----EIRRLTNCRHIFHRGCLDRWMAYD------QKTCPLCRTP 133 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~------~~~CP~Cr~~ 133 (171)
..+..|.||++...... ....+|+|.|.||..||..|-... ...||.||.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 45778999999876544 234567899999999999998432 4789999964
No 47
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=5e-05 Score=63.87 Aligned_cols=59 Identities=20% Similarity=0.640 Sum_probs=42.8
Q ss_pred Ccccccccccccccccee-eecCCCCCcccHHHHHHHHhc-CCCCCCccCCCCCCCchhhH
Q 030807 84 PPDSCAVCLYEFEEQDEI-RRLTNCRHIFHRGCLDRWMAY-DQKTCPLCRTPFIPDDMQDS 142 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~~~~~~~~ 142 (171)
....|+||++.+..+-.. ...+.|+|.|-.+||..|+.+ ....||.|...-...++...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e 63 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPE 63 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHH
Confidence 356799999988765432 223469999999999999942 35679999876655554443
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.4e-05 Score=47.64 Aligned_cols=46 Identities=26% Similarity=0.616 Sum_probs=36.5
Q ss_pred ccccccccccccccceeeecCCCCCc-ccHHHHHHHHhcCCCCCCccCCCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHI-FHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
+++|.||.+.--+.... .|||. .|..|-.+.++..+..||+||.++
T Consensus 7 ~dECTICye~pvdsVlY----tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLY----TCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchHHHH----HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 47899999875554322 59997 788998888876789999999986
No 49
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=5.7e-05 Score=62.56 Aligned_cols=48 Identities=33% Similarity=0.890 Sum_probs=37.5
Q ss_pred CCccccccccccccccceeeecCCCCCc-ccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHI-FHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+...+|.||+.+..+ +.+|| |.|. .|..|.+... .+++.||+||+++.
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr-~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLR-YQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHH-HhhcCCCccccchH
Confidence 346789999998655 34565 9998 8889987765 46899999999873
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.47 E-value=1.6e-05 Score=71.46 Aligned_cols=58 Identities=26% Similarity=0.481 Sum_probs=40.3
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhhHHHH
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQDSFNE 145 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~ 145 (171)
..|++|+..+......... +|+|.||..|+..|-+ ...+||+||..+..-.+..+...
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR-~aqTCPiDR~EF~~v~V~eS~~~ 181 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSR-CAQTCPVDRGEFGEVKVLESTGI 181 (1134)
T ss_pred hhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhh-hcccCchhhhhhheeeeeccccc
Confidence 3466666655554433344 4999999999999998 68999999987654444444433
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.38 E-value=9.1e-05 Score=46.05 Aligned_cols=43 Identities=23% Similarity=0.608 Sum_probs=29.0
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHh-cCCCCCCc
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMA-YDQKTCPL 129 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~~CP~ 129 (171)
.+..|+|.+..+++|..-. .|+|.|-+..|.+|++ .+...||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~---~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSK---KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEES---SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcC---CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3567999999999986654 6999999999999993 24567998
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.25 E-value=0.00018 Score=61.24 Aligned_cols=55 Identities=24% Similarity=0.625 Sum_probs=45.4
Q ss_pred CCCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchh
Q 030807 82 VDPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQ 140 (171)
Q Consensus 82 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 140 (171)
.+++..|++|...+.++... . .|+|.||..|+.+|+.. +..||.|+..+...+..
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCCCCC--C-CCCCcccccccchhhcc-CcCCcccccccchhhcc
Confidence 46678899999999998763 1 69999999999999984 89999999877654433
No 53
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00054 Score=55.02 Aligned_cols=50 Identities=26% Similarity=0.493 Sum_probs=40.2
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
..+.+|++|-+....|-... +|+|+||..||..-... .+-.||.|-.++.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~---~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIG---KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeec---cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 56788999999988886664 69999999999886641 2468999988765
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.00044 Score=58.83 Aligned_cols=49 Identities=31% Similarity=0.667 Sum_probs=42.6
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
..+..|.||...+..+..+ +|||.||..||.+-+. ....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv~t----pcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT----PCGHSFCLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccc----cccccccHHHHHHHhc-cCCCCccccccccc
Confidence 4677899999999988666 6999999999999777 68899999998864
No 55
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.91 E-value=0.0008 Score=40.20 Aligned_cols=46 Identities=26% Similarity=0.681 Sum_probs=23.4
Q ss_pred ccccccccccc-ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 88 CAVCLYEFEEQ-DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 88 C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
|++|.+++... ...... +|++.+|..|...-+......||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78888888332 234445 49999999999998764588999999864
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.87 E-value=0.00035 Score=58.70 Aligned_cols=47 Identities=30% Similarity=0.746 Sum_probs=37.4
Q ss_pred Cccccccccccccc-cceeeecCCCCCcccHHHHHHHHhc-CCCCCCccC
Q 030807 84 PPDSCAVCLYEFEE-QDEIRRLTNCRHIFHRGCLDRWMAY-DQKTCPLCR 131 (171)
Q Consensus 84 ~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~~CP~Cr 131 (171)
-+..|-.|-+.+.. ++.+..+| |.|+||..|..+.+.+ ...+||-||
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 34569999887744 45677786 9999999999999954 356899999
No 57
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.0003 Score=52.35 Aligned_cols=39 Identities=36% Similarity=0.826 Sum_probs=31.8
Q ss_pred CccccccCC--CCccccccccccccccceeeecCCCCCcccH
Q 030807 74 PVVKFSELV--DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHR 113 (171)
Q Consensus 74 ~~~~~~~~~--~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~ 113 (171)
|...|++.+ ++.-+|.||++++..++.+.+|| |-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 455566544 45568999999999999999997 9999996
No 58
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.82 E-value=0.00045 Score=56.15 Aligned_cols=37 Identities=32% Similarity=0.879 Sum_probs=32.0
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
...-.|+|||--|..++...+.+ |-|.||..|+..+|
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl 149 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYL 149 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHH
Confidence 45568999999999998776665 99999999999888
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.70 E-value=0.00063 Score=57.37 Aligned_cols=45 Identities=29% Similarity=0.803 Sum_probs=34.1
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcC-CCCCCccCCCCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYD-QKTCPLCRTPFI 135 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-~~~CP~Cr~~~~ 135 (171)
.|-||-+.-+ .++.- +|||..|..|+..|.... ...||.||..+.
T Consensus 371 LCKICaendK---dvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 371 LCKICAENDK---DVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHhhccCC---Ccccc-cccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 4889987532 23344 599999999999998533 678999998664
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.69 E-value=0.00044 Score=56.81 Aligned_cols=49 Identities=24% Similarity=0.680 Sum_probs=41.1
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
.....|.+|-..+-++..+. .|-|.||+.||...+. ....||.|...+.
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~-~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLE-ESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHH-HhccCCccceecc
Confidence 34577999999988886664 7999999999999998 4999999986543
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.46 E-value=0.003 Score=50.16 Aligned_cols=57 Identities=14% Similarity=0.307 Sum_probs=49.7
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhh
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 141 (171)
....|++|.+.+.+......|.+|||+|+..|..+.++ ....||+|-.++...++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir-~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR-KDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcc-ccccccCCCCcCcccceEe
Confidence 34569999999999888888888999999999999998 6889999999998777654
No 62
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0032 Score=53.25 Aligned_cols=67 Identities=22% Similarity=0.531 Sum_probs=50.0
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc-------CCCCCCccC--CCCCCCchhhHHHHHHHHh
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY-------DQKTCPLCR--TPFIPDDMQDSFNERLWAA 150 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-------~~~~CP~Cr--~~~~~~~~~~~~~~~~~~~ 150 (171)
..-..|.||+++.........+| |+|+||+.|...++.. +.-.||-+. ...++..+.+-+..+..++
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~ar 257 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFAR 257 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHH
Confidence 34567999999988778888887 9999999999999832 234686654 4455666777667666666
No 63
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.34 E-value=0.0015 Score=50.20 Aligned_cols=44 Identities=25% Similarity=0.576 Sum_probs=37.8
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
...|.||-.+|..+... .|||.||..|...-++ ....|-+|...
T Consensus 196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~-kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQ-KGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccchhhh----hcchhHHHHHHHHHhc-cCCcceecchh
Confidence 35799999999999776 6999999999998887 57889999754
No 64
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.19 E-value=0.0037 Score=60.21 Aligned_cols=58 Identities=29% Similarity=0.631 Sum_probs=42.6
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc---------CCCCCCccCCCCCCCchhh
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY---------DQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---------~~~~CP~Cr~~~~~~~~~~ 141 (171)
+.++.|.||+.+--.......+. |+|.||.+|...-+.. +--+||+|+.++....+++
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkD 3550 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKD 3550 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHH
Confidence 57788999998765555555675 9999999999876642 1247999999876544443
No 65
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.15 E-value=0.0061 Score=49.75 Aligned_cols=49 Identities=24% Similarity=0.748 Sum_probs=39.7
Q ss_pred ccccccccccccc--ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 86 DSCAVCLYEFEEQ--DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 86 ~~C~ICl~~~~~~--~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
..|-||-++|... +...+..+|||.|+..|+...+......||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 5699999999876 344444469999999999998876677899999984
No 66
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.007 Score=49.89 Aligned_cols=52 Identities=19% Similarity=0.441 Sum_probs=41.9
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
.+...|++|+...+++..+. --|.+||..||.+++. ++..||+--.|..-++
T Consensus 298 ~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~v~~ 349 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVV-NYGHCPVTGYPASVDH 349 (357)
T ss_pred CccccChhHHhccCCCceEE---ecceEEeHHHHHHHHH-hcCCCCccCCcchHHH
Confidence 45667999999999987664 3699999999999998 7999998776654333
No 67
>PHA02862 5L protein; Provisional
Probab=96.03 E-value=0.0056 Score=44.82 Aligned_cols=48 Identities=29% Similarity=0.761 Sum_probs=33.6
Q ss_pred ccccccccccccccceeeecCCC---CCcccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNC---RHIFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C---~H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
++.|-||.++-.+. .... .| ...-|..|+.+|+.. ++..|++|+.+..
T Consensus 2 ~diCWIC~~~~~e~--~~PC-~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER--NNFC-GCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC--cccc-cccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 35799999985433 3322 13 256899999999964 3557999998764
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.99 E-value=0.0047 Score=53.99 Aligned_cols=50 Identities=26% Similarity=0.601 Sum_probs=39.9
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc----CCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY----DQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~~CP~Cr~~~~~ 136 (171)
.+...|-+|-++-++.... .|.|.||+.|+.+++.. ..-+||+|...+.-
T Consensus 534 k~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 4567899999988877666 69999999999888832 34689999877653
No 69
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.98 E-value=0.0084 Score=44.61 Aligned_cols=50 Identities=28% Similarity=0.797 Sum_probs=34.7
Q ss_pred CCccccccccccccccceeeecCCCCC---cccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRH---IFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H---~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
..+..|-||.++... ..... .|.. ..|.+|+..|+.. +...|+.|+.+..
T Consensus 6 ~~~~~CRIC~~~~~~--~~~PC-~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VTNYC-NCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--ccCCc-ccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 456789999988542 22222 2444 4599999999964 3567999998764
No 70
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.91 E-value=0.0041 Score=56.83 Aligned_cols=58 Identities=22% Similarity=0.481 Sum_probs=42.8
Q ss_pred HhhCCccccccCCCCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 70 REILPVVKFSELVDPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
+..+...+.++..-+...|..|-..+.-|...- .|+|.||.+|.. .+...||.|+...
T Consensus 825 r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF---~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 825 RQELETLRTSAQIFQVSKCSACEGTLDLPFVHF---LCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred HHHHHHhhcccceeeeeeecccCCccccceeee---ecccHHHHHhhc----cCcccCCccchhh
Confidence 333444455544456678999999998886543 599999999997 2678899999743
No 71
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.82 E-value=0.0055 Score=50.04 Aligned_cols=44 Identities=20% Similarity=0.533 Sum_probs=37.3
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
..|+.|-.-+.++.++ +-|+|.||.+||...|......||.|..
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799999888888666 3599999999999998767788999954
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.73 E-value=0.0052 Score=56.19 Aligned_cols=50 Identities=22% Similarity=0.746 Sum_probs=40.3
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCC------CCCCccCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQ------KTCPLCRT 132 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~------~~CP~Cr~ 132 (171)
....+|.||.+.+.....+.....|-|+||..||.+|-+... =.||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 445689999999988877776667999999999999996422 25999984
No 73
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.0058 Score=50.95 Aligned_cols=49 Identities=22% Similarity=0.503 Sum_probs=39.8
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
.++..|+||.-.--+.... +|+|.-|+.||.+-+. +.+.|=.|+.++..
T Consensus 420 sEd~lCpICyA~pi~Avf~----PC~H~SC~~CI~qHlm-N~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFA----PCSHRSCYGCITQHLM-NCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhcc----CCCCchHHHHHHHHHh-cCCeeeEecceeee
Confidence 5678899997764444333 6999999999999998 78999999988764
No 74
>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=95.63 E-value=0.01 Score=48.09 Aligned_cols=53 Identities=21% Similarity=0.577 Sum_probs=40.3
Q ss_pred cccccccc-ccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 87 SCAVCLYE-FEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 87 ~C~ICl~~-~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
.|++|..+ |.+++......+|+|..|..|.+..+..+...||.|...+..+.+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 58899874 455554333446999999999999998889999999877654443
No 75
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.60 E-value=0.0057 Score=50.95 Aligned_cols=44 Identities=32% Similarity=0.649 Sum_probs=33.3
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
...+.|.||+++..+.+.+ +|||.-| |..-.. ....||+||..+
T Consensus 303 ~~p~lcVVcl~e~~~~~fv----pcGh~cc--ct~cs~--~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFV----PCGHVCC--CTLCSK--HLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccceeee----cCCcEEE--chHHHh--hCCCCchhHHHH
Confidence 4567799999999887676 6999976 655443 355699999765
No 76
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=95.59 E-value=0.0047 Score=42.50 Aligned_cols=33 Identities=21% Similarity=0.587 Sum_probs=26.5
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLD 117 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 117 (171)
.++..|++|-..+..+. ..+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~-f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSV-FVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCce-EEEeC-CCeEEeccccc
Confidence 56778999999998854 44565 99999999974
No 77
>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=95.54 E-value=0.0055 Score=44.40 Aligned_cols=37 Identities=22% Similarity=0.553 Sum_probs=29.6
Q ss_pred CccccccccccccccceeeecCCCC------CcccHHHHHHHHh
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCR------HIFHRGCLDRWMA 121 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~------H~Fh~~Ci~~wl~ 121 (171)
...+|.||++.......+..++ |+ |.||.+|+.+|-+
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 3678999999998855566665 66 8899999999943
No 78
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.011 Score=48.17 Aligned_cols=45 Identities=20% Similarity=0.388 Sum_probs=38.9
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
..|-||...|..+... +|+|.||..|..+-++ ....|.+|.....
T Consensus 242 f~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~q-k~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQ-KGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccchhh----cCCceeehhhhccccc-cCCcceecccccc
Confidence 4599999999999777 7999999999988887 5788999987654
No 79
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.44 E-value=0.023 Score=45.79 Aligned_cols=55 Identities=27% Similarity=0.592 Sum_probs=43.4
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
.....|||...++........+.+|||+|...++.+. . ....||+|-.++...++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k-~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-K-KSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-c-ccccccccCCccccCCE
Confidence 4567899999999766666666679999999999986 2 36679999998765553
No 80
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.43 E-value=0.011 Score=49.01 Aligned_cols=52 Identities=21% Similarity=0.461 Sum_probs=38.1
Q ss_pred CCcccccccccccccccee-eecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEI-RRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
++++.|+.|++++...++- ..++ ||...|.-|+...-+.-..+||-||....
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 5566699999988765543 3454 99999999987755434678999997443
No 81
>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=95.21 E-value=0.016 Score=33.74 Aligned_cols=42 Identities=19% Similarity=0.634 Sum_probs=22.1
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCC-CCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQK-TCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-~CP~C 130 (171)
|.+|.+....+..=..- .|+-.+|..|+..+++..+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 55666666555433211 48899999999999975443 59987
No 82
>PHA03096 p28-like protein; Provisional
Probab=95.09 E-value=0.013 Score=47.99 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=33.1
Q ss_pred ccccccccccccc----ceeeecCCCCCcccHHHHHHHHhcC--CCCCCccC
Q 030807 86 DSCAVCLYEFEEQ----DEIRRLTNCRHIFHRGCLDRWMAYD--QKTCPLCR 131 (171)
Q Consensus 86 ~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~~CP~Cr 131 (171)
..|.||++..... ..-..|+.|.|.||..||..|.... ...||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 6799999976543 2335577899999999999999542 23455554
No 83
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.04 E-value=0.019 Score=34.10 Aligned_cols=42 Identities=33% Similarity=0.948 Sum_probs=25.3
Q ss_pred cccccccccccceeeecC-CCCC---cccHHHHHHHHhc-CCCCCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLT-NCRH---IFHRGCLDRWMAY-DQKTCPLC 130 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~-~C~H---~Fh~~Ci~~wl~~-~~~~CP~C 130 (171)
|-||++.-.....+. .| .|+- ..|..|+.+|+.. ++..|++|
T Consensus 1 CrIC~~~~~~~~~li-~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLI-SPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCcee-cccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678888766655332 22 2443 6799999999964 35668877
No 84
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.79 E-value=0.018 Score=35.27 Aligned_cols=46 Identities=30% Similarity=0.690 Sum_probs=31.9
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
..|..|...-..+. ++ +|+|..+..|...+ +-+.||.|..++...+
T Consensus 8 ~~~~~~~~~~~~~~---~~-pCgH~I~~~~f~~~---rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVGTKGT---VL-PCGHLICDNCFPGE---RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccccccc---cc-cccceeeccccChh---hccCCCCCCCcccCCC
Confidence 34555555433332 34 59999999998775 6788999998876543
No 85
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.55 E-value=0.016 Score=45.82 Aligned_cols=49 Identities=29% Similarity=0.638 Sum_probs=32.8
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcCCC-CCCccCCCCCCCchhh
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQK-TCPLCRTPFIPDDMQD 141 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-~CP~Cr~~~~~~~~~~ 141 (171)
.|--|...-. ++..... .|.|+||..|... .+. .||+|+.++....+..
T Consensus 5 hCn~C~~~~~-~~~f~LT-aC~HvfC~~C~k~----~~~~~C~lCkk~ir~i~l~~ 54 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLT-ACRHVFCEPCLKA----SSPDVCPLCKKSIRIIQLNR 54 (233)
T ss_pred EeccccccCC-CCceeee-echhhhhhhhccc----CCccccccccceeeeeeccc
Confidence 4666655433 5555444 6999999999755 344 8999999865444433
No 86
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.52 E-value=0.028 Score=42.67 Aligned_cols=30 Identities=37% Similarity=0.957 Sum_probs=24.2
Q ss_pred CCCCcccHHHHHHHHhc----CC------CCCCccCCCCC
Q 030807 106 NCRHIFHRGCLDRWMAY----DQ------KTCPLCRTPFI 135 (171)
Q Consensus 106 ~C~H~Fh~~Ci~~wl~~----~~------~~CP~Cr~~~~ 135 (171)
.|+.-||.-|+..|++. ++ ..||.|..|+.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 69999999999999952 11 36999998874
No 87
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.35 E-value=0.084 Score=44.51 Aligned_cols=64 Identities=23% Similarity=0.575 Sum_probs=38.0
Q ss_pred CccccccCCCCccccccccccccccceee--------------ecCC-----CCCcccHHHHHHHHhc------------
Q 030807 74 PVVKFSELVDPPDSCAVCLYEFEEQDEIR--------------RLTN-----CRHIFHRGCLDRWMAY------------ 122 (171)
Q Consensus 74 ~~~~~~~~~~~~~~C~ICl~~~~~~~~~~--------------~l~~-----C~H~Fh~~Ci~~wl~~------------ 122 (171)
|.+.+.+..++.+.|--|+..-.+ .++. ..++ |....|.+|+-+|+..
T Consensus 260 p~y~~~~~~~e~e~CigC~~~~~~-vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~ 338 (358)
T PF10272_consen 260 PRYSYPESGQELEPCIGCMQAQPN-VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLS 338 (358)
T ss_pred CccccCCCccccCCccccccCCCC-cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhc
Confidence 444444344566778888775322 1111 1112 4455677999999932
Q ss_pred CCCCCCccCCCCCCCc
Q 030807 123 DQKTCPLCRTPFIPDD 138 (171)
Q Consensus 123 ~~~~CP~Cr~~~~~~~ 138 (171)
++..||+||++++--+
T Consensus 339 ~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 339 GKCPCPTCRAKFCILD 354 (358)
T ss_pred CCCCCCCCcccceeee
Confidence 3457999999987544
No 88
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.09 E-value=0.043 Score=44.60 Aligned_cols=47 Identities=23% Similarity=0.548 Sum_probs=37.4
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
...|+||.+.+..........+|||.-|..|..+....+ -.||+|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 344999999887765543333699999999999998854 99999988
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.81 E-value=0.072 Score=32.57 Aligned_cols=35 Identities=29% Similarity=0.688 Sum_probs=29.8
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDR 118 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~ 118 (171)
....|++|-+.|.+++.+.+.|.|+-.+|+.|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34679999999987777778999999999999754
No 90
>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=93.18 E-value=0.038 Score=43.89 Aligned_cols=48 Identities=27% Similarity=0.632 Sum_probs=37.3
Q ss_pred Ccccccccccc-ccccc-eeeecCCCCCcccHHHHHHHHhcCCCCCC--ccC
Q 030807 84 PPDSCAVCLYE-FEEQD-EIRRLTNCRHIFHRGCLDRWMAYDQKTCP--LCR 131 (171)
Q Consensus 84 ~~~~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP--~Cr 131 (171)
.+..||+|..+ |-+|+ .+-.-|.|-|..|.+|.+.-+..+...|| .|-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 35679999985 33444 44445669999999999999988899999 674
No 91
>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=92.46 E-value=0.15 Score=30.81 Aligned_cols=43 Identities=26% Similarity=0.632 Sum_probs=23.4
Q ss_pred ccccccccccc------ceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 88 CAVCLYEFEEQ------DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 88 C~ICl~~~~~~------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
|--|+..+..+ ...-+.+.|++.||.+| +-.+...-.+||.|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 45566666654 23456778999999999 455554567899985
No 92
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.29 E-value=0.11 Score=42.80 Aligned_cols=46 Identities=22% Similarity=0.420 Sum_probs=36.2
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
.+-.+||||.+.+..++.-. .=||..|..|-.+ -++.||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC---~nGHlaCssC~~~----~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQC---DNGHLACSSCRTK----VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcccceec---CCCcEehhhhhhh----hcccCCccccccc
Confidence 34567999999999997652 2468888888654 4788999999987
No 93
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.95 E-value=0.22 Score=41.67 Aligned_cols=48 Identities=33% Similarity=0.633 Sum_probs=34.5
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHH-hcCCCCCCccCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM-AYDQKTCPLCRTPF 134 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl-~~~~~~CP~Cr~~~ 134 (171)
+++..|.||.+..+-. .++ +|+|..|-.|-...- ......||.||...
T Consensus 59 Een~~C~ICA~~~TYs---~~~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 59 EENMNCQICAGSTTYS---ARY-PCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccceeEEecCCceEE---Eec-cCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 5566799998876543 334 599999999976543 12478899999753
No 94
>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=91.73 E-value=0.25 Score=36.86 Aligned_cols=60 Identities=20% Similarity=0.395 Sum_probs=38.3
Q ss_pred Cccccccccccccccceeeec--------CCCCCc-ccHHHHHHHHhc------------------------------CC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRL--------TNCRHI-FHRGCLDRWMAY------------------------------DQ 124 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l--------~~C~H~-Fh~~Ci~~wl~~------------------------------~~ 124 (171)
++..|+||++.-.++.-+.-- --|+.. -|..|++++-+. ..
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 356899999988776544210 014433 467899887521 02
Q ss_pred CCCCccCCCCCCCchhhHH
Q 030807 125 KTCPLCRTPFIPDDMQDSF 143 (171)
Q Consensus 125 ~~CP~Cr~~~~~~~~~~~~ 143 (171)
..||+||..|..+.+.+..
T Consensus 81 L~CPLCRG~V~GWtvve~A 99 (162)
T PF07800_consen 81 LACPLCRGEVKGWTVVEPA 99 (162)
T ss_pred ccCccccCceeceEEchHH
Confidence 3599999998777766543
No 95
>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=91.27 E-value=0.084 Score=31.33 Aligned_cols=43 Identities=26% Similarity=0.757 Sum_probs=24.4
Q ss_pred ccccccccccccceeeecCCCC-CcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCR-HIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~-H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
.|--||-..+. -+ +|+ |-.|..|+...+. .+..||+|..+++.
T Consensus 4 nCKsCWf~~k~--Li----~C~dHYLCl~CLt~ml~-~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFANKG--LI----KCSDHYLCLNCLTLMLS-RSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S--SS--EE----E-SS-EEEHHHHHHT-S-SSSEETTTTEE---
T ss_pred cChhhhhcCCC--ee----eecchhHHHHHHHHHhc-cccCCCcccCcCcc
Confidence 36666654322 33 476 8899999999987 68899999998764
No 96
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.97 E-value=0.026 Score=47.69 Aligned_cols=54 Identities=28% Similarity=0.744 Sum_probs=42.4
Q ss_pred cccccccccccccc-ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchh
Q 030807 85 PDSCAVCLYEFEEQ-DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQ 140 (171)
Q Consensus 85 ~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 140 (171)
...|+||.+.+... +.+..+. |||.+|..|+.+|+-. ...||.|+..+.-....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~~~e 250 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLAT-KRKLPSCRRELPKNGFE 250 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHH-HHHhHHHHhhhhhhhHH
Confidence 45699999988776 4444454 9999999999999984 78899999988644433
No 97
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.71 E-value=0.047 Score=44.52 Aligned_cols=41 Identities=24% Similarity=0.620 Sum_probs=29.9
Q ss_pred ccccccccccccccceeeecCCCCCc-ccHHHHHHHHhcCCCCCCccCCCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHI-FHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
...|+||++...+-..+ +|||. -|..|-. ..+.||+||+.+
T Consensus 300 ~~LC~ICmDaP~DCvfL----eCGHmVtCt~CGk-----rm~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFL----ECGHMVTCTKCGK-----RMNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcceEEe----ecCcEEeehhhcc-----ccccCchHHHHH
Confidence 56799999986665444 59996 5666753 356899999865
No 98
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.51 E-value=0.13 Score=46.98 Aligned_cols=45 Identities=27% Similarity=0.634 Sum_probs=33.5
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCC-CCCccCCCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQK-TCPLCRTPFI 135 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-~CP~Cr~~~~ 135 (171)
..|.+|.+ .....-+ .|+|.||.+|+..-+..... .||.||..+.
T Consensus 455 ~~c~ic~~-~~~~~it----~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFIT----RCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-cccceee----cccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 78999999 2222222 59999999999998865433 5999997654
No 99
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.41 E-value=0.14 Score=47.39 Aligned_cols=36 Identities=36% Similarity=0.678 Sum_probs=28.9
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
+.++.|.+|...+...... +- +|||.||++|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~pF~-vf-~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFY-VF-PCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcCcce-ee-eccchHHHHHHHHHH
Confidence 6788999999988765443 34 499999999998876
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.77 E-value=0.11 Score=49.90 Aligned_cols=45 Identities=27% Similarity=0.676 Sum_probs=37.2
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
....|.||++...+--.+. .|+|.+|..|...|+. .+..||.|+.
T Consensus 1152 ~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~-~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLY-ASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCee---eechhHhhhHHHHHHH-HhccCcchhh
Confidence 3447999999988544333 6999999999999998 6999999984
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.69 E-value=0.16 Score=41.90 Aligned_cols=41 Identities=29% Similarity=0.658 Sum_probs=25.8
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
.|.-|--. ....=+.+| |+|+||.+|... ..-+.||+|-.+
T Consensus 92 fCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~---~~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 92 FCDRCDFP--IAIYGRMIP-CKHVFCLECARS---DSDKICPLCDDR 132 (389)
T ss_pred eecccCCc--ceeeecccc-cchhhhhhhhhc---CccccCcCcccH
Confidence 35555333 333334454 999999999754 235689999643
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.52 E-value=0.35 Score=35.07 Aligned_cols=54 Identities=19% Similarity=0.448 Sum_probs=39.6
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhc--CCCCCCccCCCCCCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY--DQKTCPLCRTPFIPD 137 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~~CP~Cr~~~~~~ 137 (171)
.--+|.||.+...+...+..---||...|..|-...|+. -+..||+|+..+.++
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 345799999987766555433249999999998888753 256799999887544
No 103
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.09 E-value=0.15 Score=46.18 Aligned_cols=56 Identities=27% Similarity=0.640 Sum_probs=42.5
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhc--CCCCCCccCCCCCCCchhhHH
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY--DQKTCPLCRTPFIPDDMQDSF 143 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~~CP~Cr~~~~~~~~~~~~ 143 (171)
...+|+||...+..+..+ +|.|.|+..|+..-+.. ...+||+|+..+......++.
T Consensus 20 k~lEc~ic~~~~~~p~~~----kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~Es~ 77 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLL----KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRESP 77 (684)
T ss_pred hhccCCceeEEeeccchh----hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccccc
Confidence 456799999999888444 79999999999877642 356899999777655555533
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.61 E-value=0.29 Score=41.74 Aligned_cols=37 Identities=27% Similarity=0.755 Sum_probs=27.5
Q ss_pred Ccccccccccccccc-ceeeecCCCCCcccHHHHHHHHh
Q 030807 84 PPDSCAVCLYEFEEQ-DEIRRLTNCRHIFHRGCLDRWMA 121 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~ 121 (171)
....|.||..+.... .... ...|+|.||.+|..+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence 467899999555444 3333 336999999999999885
No 105
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=87.40 E-value=0.51 Score=36.65 Aligned_cols=42 Identities=31% Similarity=0.864 Sum_probs=30.0
Q ss_pred CCcccccccccc-----ccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 83 DPPDSCAVCLYE-----FEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 83 ~~~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
.....|.+|-++ |+. +.+.+.+.|+.+||..|.. +..||-|.
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~------~~~CpkC~ 196 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR------KKSCPKCA 196 (202)
T ss_pred hCCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC------CCCCCCcH
Confidence 345678888752 222 2556778899999999973 46799994
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.82 E-value=0.33 Score=39.73 Aligned_cols=32 Identities=34% Similarity=0.810 Sum_probs=25.0
Q ss_pred CCCcccHHHHHHHHhc------------CCCCCCccCCCCCCCc
Q 030807 107 CRHIFHRGCLDRWMAY------------DQKTCPLCRTPFIPDD 138 (171)
Q Consensus 107 C~H~Fh~~Ci~~wl~~------------~~~~CP~Cr~~~~~~~ 138 (171)
|....|.+|+.+|+.. ++.+||+||+.++-.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 6777889999999821 4678999999886444
No 107
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.75 E-value=1 Score=36.23 Aligned_cols=53 Identities=21% Similarity=0.416 Sum_probs=40.6
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
.....|+|---++........+..|||+|-..-+.+. ..+.|++|...+..++
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei---kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI---KASVCHVCGAAYQEDD 161 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh---hhccccccCCcccccC
Confidence 3455699988888777666666689999998877663 5889999998776554
No 108
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=85.70 E-value=1.1 Score=37.31 Aligned_cols=62 Identities=21% Similarity=0.535 Sum_probs=42.0
Q ss_pred HHhhCCccccccCC----CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 69 IREILPVVKFSELV----DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 69 ~~~~~~~~~~~~~~----~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
....+|...+.+.. .....|-.|.++....... ++..|++.||.+|- ..+...-..||.|..
T Consensus 310 yhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y-~C~~Ck~~FCldCD-v~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 310 YHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRY-RCESCKNVFCLDCD-VFIHESLHNCPGCEH 375 (378)
T ss_pred HHhhcCCcchhhccccccCCCcceeeeccccCCCCcE-Echhccceeeccch-HHHHhhhhcCCCcCC
Confidence 44455666666554 2345599997777766555 35569999999994 445435678999974
No 109
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.08 E-value=0.79 Score=38.95 Aligned_cols=48 Identities=21% Similarity=0.434 Sum_probs=35.9
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCC--CCCCccC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQ--KTCPLCR 131 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~~CP~Cr 131 (171)
.....|||=.+.-.+...-..|. |||+..++-+.+..+.+. --||.|=
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 45677999777665554444554 999999999999987555 4699994
No 110
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.34 E-value=1.7 Score=30.57 Aligned_cols=47 Identities=19% Similarity=0.347 Sum_probs=33.5
Q ss_pred ccccccccccccccc----------eeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 85 PDSCAVCLYEFEEQD----------EIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
...|--|...|..+. ..-..+.|++.||.+|=.-+-. .-.+||.|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe-~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE-SLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh-hccCCcCCCC
Confidence 346999999886531 1234668999999999655544 5678999963
No 111
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.65 E-value=0.3 Score=39.23 Aligned_cols=79 Identities=22% Similarity=0.410 Sum_probs=49.1
Q ss_pred CCCcccccccccccccccee-eecCCCC-----CcccHHHHHHHHhcCC-------CCCCccCCCCCCCchhhHHHHHHH
Q 030807 82 VDPPDSCAVCLYEFEEQDEI-RRLTNCR-----HIFHRGCLDRWMAYDQ-------KTCPLCRTPFIPDDMQDSFNERLW 148 (171)
Q Consensus 82 ~~~~~~C~ICl~~~~~~~~~-~~l~~C~-----H~Fh~~Ci~~wl~~~~-------~~CP~Cr~~~~~~~~~~~~~~~~~ 148 (171)
.+.+..|=||+..-++...- .+- ||. |=.|..|+..|+.+.. -.||-|+.... -+......-.|
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~-PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi--iv~P~l~~~~~ 93 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVH-PCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI--IVFPQLGPFDR 93 (293)
T ss_pred cccceeEEEEeccCcccchhhhcc-cccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe--eeccccChHHH
Confidence 35567799998864443221 112 243 6689999999995422 25999998642 12233445566
Q ss_pred HhcCCCCcCCCCCCC
Q 030807 149 AASGIPEFYDDDPPH 163 (171)
Q Consensus 149 ~~~~~~~~~~~~~~~ 163 (171)
+.+.+.+.+...+|-
T Consensus 94 ~Le~~d~~i~r~cp~ 108 (293)
T KOG3053|consen 94 VLERLDILIFRLCPF 108 (293)
T ss_pred HHHHhhhHHhhcChH
Confidence 777677766666654
No 112
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=82.22 E-value=0.92 Score=41.76 Aligned_cols=23 Identities=30% Similarity=0.934 Sum_probs=19.9
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCc
Q 030807 106 NCRHIFHRGCLDRWMAYDQKTCPL 129 (171)
Q Consensus 106 ~C~H~Fh~~Ci~~wl~~~~~~CP~ 129 (171)
.|+|+-|..|..+|+. ....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~-~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFR-TGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHh-cCCcCCC
Confidence 4999999999999998 4668874
No 113
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.35 E-value=0.84 Score=41.26 Aligned_cols=42 Identities=24% Similarity=0.468 Sum_probs=31.5
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
..|.||+..|......-+.+.|||..|..|.... .+.+|| |+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l---yn~scp-~~ 53 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL---YNASCP-TK 53 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH---hhccCC-CC
Confidence 4599998887665544444469999999999886 367888 54
No 114
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.61 E-value=0.92 Score=41.94 Aligned_cols=51 Identities=16% Similarity=0.217 Sum_probs=35.6
Q ss_pred Cccccccccccccccce---eeecCCCCCcccHHHHHHHHhc-----CCCCCCccCCCC
Q 030807 84 PPDSCAVCLYEFEEQDE---IRRLTNCRHIFHRGCLDRWMAY-----DQKTCPLCRTPF 134 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~---~~~l~~C~H~Fh~~Ci~~wl~~-----~~~~CP~Cr~~~ 134 (171)
+...|.+|+.++..++. ...+..|+|.||..||..|.++ .+-.|+.|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 45678899988887432 2222359999999999999953 234577777544
No 115
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=78.64 E-value=0.99 Score=39.06 Aligned_cols=35 Identities=20% Similarity=0.450 Sum_probs=29.5
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHh
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMA 121 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 121 (171)
+++..|+||..-|.++..+ +|+|..|..|...-+.
T Consensus 2 eeelkc~vc~~f~~epiil----~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIIL----PCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEe----ecccHHHHHHHHhhcc
Confidence 4567899999999998666 5999999999987664
No 116
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=78.51 E-value=3.5 Score=27.07 Aligned_cols=51 Identities=18% Similarity=0.432 Sum_probs=24.0
Q ss_pred Cccccccccccccc---cceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 84 PPDSCAVCLYEFEE---QDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 84 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
+...|-||-++... ++.......|+--.|+.|..-=.+.+++.||.|+.+.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 45679999887633 3333334468888899999887887899999999764
No 117
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=77.99 E-value=1.3 Score=24.67 Aligned_cols=27 Identities=30% Similarity=0.687 Sum_probs=15.4
Q ss_pred cccccccccccccce-------eeecCCCCCccc
Q 030807 86 DSCAVCLYEFEEQDE-------IRRLTNCRHIFH 112 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~-------~~~l~~C~H~Fh 112 (171)
.+|+-|-..|..++. ..+.+.|+|.|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 357777777655543 234455666653
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=77.86 E-value=1.3 Score=34.70 Aligned_cols=45 Identities=24% Similarity=0.707 Sum_probs=34.0
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
+-..|.+|..-.-.+. ++..|+-.+|..|+..+++ ....||.|-.
T Consensus 180 nlk~Cn~Ch~LvIqg~---rCg~c~i~~h~~c~qty~q-~~~~cphc~d 224 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGI---RCGSCNIQYHRGCIQTYLQ-RRDICPHCGD 224 (235)
T ss_pred HHHHHhHhHHHhheee---ccCcccchhhhHHHHHHhc-ccCcCCchhc
Confidence 3456999987654442 3336888899999999998 5889999954
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=77.63 E-value=0.75 Score=41.20 Aligned_cols=44 Identities=34% Similarity=0.822 Sum_probs=28.8
Q ss_pred CCcccccccccc-----ccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 83 DPPDSCAVCLYE-----FEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 83 ~~~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
.....|.+|... |. .+.++++..|+++||..|... .+..||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r----~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR----KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc----cCCCCCchH
Confidence 345567788331 22 234455556999999999765 456699994
No 120
>PF11002 RDM: RFPL defining motif (RDM); InterPro: IPR022723 The RFPL defining motif (RDM) is a domain found on RFPL (Ret finger protein like) proteins. In humans, RFPL transcripts can be detected at the onset of neurogenesis in differentiating human embryonic stem cells, and in the developing human neocortex []. The RDM domain is thought to have emerged from a neofunctionalisation event. It is found N-terminal to the SPRY domain (PF00622 from PFAM). ; PDB: 2FBE_B.
Probab=75.93 E-value=0.86 Score=26.22 Aligned_cols=26 Identities=4% Similarity=0.040 Sum_probs=0.0
Q ss_pred HHHHHhcCCCCcCCCCCCCccccccc
Q 030807 145 ERLWAASGIPEFYDDDPPHFSQVTAD 170 (171)
Q Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 (171)
..++....++..++|.||++.+||.|
T Consensus 9 ~p~~qLg~Lvs~iKelEPqL~~iL~M 34 (42)
T PF11002_consen 9 RPNFQLGKLVSKIKELEPQLRAILQM 34 (42)
T ss_dssp --------------------------
T ss_pred cHHHHHHHHHHHHHHhCHHHHHHHcc
Confidence 34667777899999999999999865
No 121
>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=75.73 E-value=1.8 Score=25.84 Aligned_cols=44 Identities=20% Similarity=0.557 Sum_probs=19.4
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHH----hcCCCCCCccCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM----AYDQKTCPLCRTP 133 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl----~~~~~~CP~Cr~~ 133 (171)
..|++....+..+.+-. .|.|.-|.+ ...|+ +.+.-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~---~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGK---NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEET---T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCC---cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 46888888887775543 699974432 23344 3234469999764
No 122
>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=71.02 E-value=2.4 Score=21.82 Aligned_cols=22 Identities=27% Similarity=0.483 Sum_probs=9.8
Q ss_pred cccccccccccceeeecCCCCCcc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIF 111 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~F 111 (171)
|+-|....... ....|.|||.|
T Consensus 3 CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchhh--cCcCCCCCCCC
Confidence 55555544332 22234455555
No 123
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=67.84 E-value=3.6 Score=38.41 Aligned_cols=53 Identities=28% Similarity=0.676 Sum_probs=36.1
Q ss_pred CCccccccccccccccceeeecCCCC---CcccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCR---HIFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~---H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
+++..|.||..+-..++.+----+|. .-.|.+|+.+|+.- +...|-.|..++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 44578999999877766552111233 33799999999952 3456999997653
No 124
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.24 E-value=3.8 Score=32.02 Aligned_cols=39 Identities=31% Similarity=0.787 Sum_probs=26.5
Q ss_pred cccccccccccceeeecCCCCCc-ccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHI-FHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
|-.|.+. ...+..+| |.|. +|..|-.. -..||+|+.+..
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc-----CccCCCCcChhh
Confidence 7777664 34455665 9987 77778532 456999998653
No 125
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=66.97 E-value=4.5 Score=37.41 Aligned_cols=47 Identities=21% Similarity=0.432 Sum_probs=31.5
Q ss_pred CCcccccccccccccc---------ceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 83 DPPDSCAVCLYEFEEQ---------DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
..+..|+-|...|... .....+|.|+|.-|.+=|. ..+.||+|....
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs-----~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS-----KYNCCPLCHSME 1184 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc-----ccccCccccChh
Confidence 3456677777766331 2345567799998876652 467899998765
No 126
>PLN02189 cellulose synthase
Probab=66.64 E-value=6.3 Score=37.79 Aligned_cols=52 Identities=21% Similarity=0.471 Sum_probs=38.3
Q ss_pred Ccccccccccccc---ccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFE---EQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+...|.||-++.. +++.-..+..|+--.|..|..-=.+.+++.||.|+....
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 4457999999864 344445565688889999996555667889999997653
No 127
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=66.18 E-value=4.2 Score=33.02 Aligned_cols=52 Identities=31% Similarity=0.749 Sum_probs=34.6
Q ss_pred CCccccccccccccccce-eeecCCCC-----CcccHHHHHHHHhc-CCCCCCccCCCCC
Q 030807 83 DPPDSCAVCLYEFEEQDE-IRRLTNCR-----HIFHRGCLDRWMAY-DQKTCPLCRTPFI 135 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~-~~~l~~C~-----H~Fh~~Ci~~wl~~-~~~~CP~Cr~~~~ 135 (171)
.++..|-||..+...... .-.. +|. ...|..|+..|+.. +...|..|.....
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~-pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLIS-PCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCCCcEEEEeccccccccccccc-CccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 345789999997654431 1112 244 55799999999963 4567999987543
No 128
>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 PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=64.52 E-value=3.4 Score=22.88 Aligned_cols=26 Identities=35% Similarity=0.809 Sum_probs=14.6
Q ss_pred cccccccccccccee-------eecCCCCCccc
Q 030807 87 SCAVCLYEFEEQDEI-------RRLTNCRHIFH 112 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~-------~~l~~C~H~Fh 112 (171)
+|+-|...|..++.. .+.+.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 577777777655431 23445666653
No 130
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.32 E-value=5.5 Score=32.04 Aligned_cols=35 Identities=17% Similarity=0.312 Sum_probs=29.1
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHh
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMA 121 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 121 (171)
..-+.|+.|+.++.++... +=||+|+++||.+++.
T Consensus 41 K~FdcCsLtLqPc~dPvit----~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVIT----PDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCCccC----CCCeeeeHHHHHHHHH
Confidence 3445699999999998655 6899999999999983
No 131
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=62.65 E-value=7.4 Score=35.98 Aligned_cols=43 Identities=26% Similarity=0.564 Sum_probs=29.4
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCc--cCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPL--CRT 132 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~--Cr~ 132 (171)
.|.+|-.....-. + -.+.|+|.-|.+|+.+|+. ..+.||. |-.
T Consensus 781 ~CtVC~~vi~G~~-~-~c~~C~H~gH~sh~~sw~~-~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 781 KCTVCDLVIRGVD-V-WCQVCGHGGHDSHLKSWFF-KASPCAKSICPH 825 (839)
T ss_pred CceeecceeeeeE-e-ecccccccccHHHHHHHHh-cCCCCccccCCc
Confidence 4667755443321 1 2346999999999999998 5777866 544
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.64 E-value=13 Score=31.14 Aligned_cols=51 Identities=24% Similarity=0.572 Sum_probs=36.6
Q ss_pred ccccccccccccccce-eeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCC
Q 030807 85 PDSCAVCLYEFEEQDE-IRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPD 137 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 137 (171)
...|++|-++....+. .... +|++..|..|...-.. ++.+||.||.+....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~-~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPC-PCGFRLCLFCHKTISD-GDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccc-cccccchhhhhhcccc-cCCCCCccCCccccC
Confidence 3679999998743332 2234 4888888888888776 789999999765433
No 133
>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=62.23 E-value=3.4 Score=25.89 Aligned_cols=37 Identities=16% Similarity=0.448 Sum_probs=19.0
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
+...|.+|...|..-..---...||++||..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3567999999996654444455799999988875443
No 134
>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=62.12 E-value=6 Score=23.63 Aligned_cols=35 Identities=26% Similarity=0.481 Sum_probs=24.8
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHH
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
..|.+|-..|..-..-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888888776654444445799999999976544
No 135
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.40 E-value=5.2 Score=34.73 Aligned_cols=37 Identities=24% Similarity=0.626 Sum_probs=29.2
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhc
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAY 122 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 122 (171)
....+|-||.+.+.. .+..+ .|+|.||..|+..++..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 456789999998876 34345 59999999999999853
No 136
>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=61.04 E-value=4.4 Score=23.68 Aligned_cols=33 Identities=18% Similarity=0.521 Sum_probs=22.4
Q ss_pred ccccccccccccceeeecCCCCCcccHHHHHHHH
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
.|.||...... ..+.....|+..||..|+..-.
T Consensus 1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~ 33 (51)
T PF00628_consen 1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPE 33 (51)
T ss_dssp EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSH
T ss_pred eCcCCCCcCCC-CCeEEcCCCChhhCcccCCCCh
Confidence 37888884333 3444555799999999986543
No 137
>PLN02436 cellulose synthase A
Probab=61.02 E-value=9.1 Score=36.86 Aligned_cols=52 Identities=19% Similarity=0.496 Sum_probs=38.3
Q ss_pred Cccccccccccc---cccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEF---EEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~---~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
....|.||-++. .+++.-..+..|+--.|..|..-=.+.+++.||.|+....
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 345799999985 4455445555688889999996555667889999997653
No 138
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.47 E-value=5.4 Score=34.07 Aligned_cols=44 Identities=23% Similarity=0.497 Sum_probs=30.6
Q ss_pred ccccccccccc--cccceeeecCCCCCcccHHHHHHHHhcCCCCCCcc
Q 030807 85 PDSCAVCLYEF--EEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLC 130 (171)
Q Consensus 85 ~~~C~ICl~~~--~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~C 130 (171)
-..|+.|.-.+ ..+-.....+ |+|.||+.|...|.. ....|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~-~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKT-HNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhh-CCccccCc
Confidence 45688887654 3344445676 999999999999986 45555443
No 139
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.58 E-value=5.2 Score=35.66 Aligned_cols=48 Identities=42% Similarity=0.908 Sum_probs=35.2
Q ss_pred CCCCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCC
Q 030807 81 LVDPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPD 137 (171)
Q Consensus 81 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 137 (171)
..+....|.+|+.+. ..+.. .|. |..|..+|+. -+..||+|+..+..+
T Consensus 475 l~~~~~~~~~~~~~~----~~~~~-~~~---~~~~l~~~~~-~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 475 LREPNDVCAICYQEM----SARIT-PCS---HALCLRKWLY-VQEVCPLCHTYMKED 522 (543)
T ss_pred hhcccCcchHHHHHH----Hhccc-ccc---chhHHHhhhh-hccccCCCchhhhcc
Confidence 335667899999988 22222 477 8999999997 588899998765433
No 140
>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=56.90 E-value=3.6 Score=35.20 Aligned_cols=78 Identities=23% Similarity=0.324 Sum_probs=0.0
Q ss_pred CCccccccccccccccce-----------eeecCCCCCcccHHHHHHHHhc-----CCCCCCccCCCCCCCchhhHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQDE-----------IRRLTNCRHIFHRGCLDRWMAY-----DQKTCPLCRTPFIPDDMQDSFNER 146 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~-----------~~~l~~C~H~Fh~~Ci~~wl~~-----~~~~CP~Cr~~~~~~~~~~~~~~~ 146 (171)
....+|++=+..+.-+.. ..-+ +|||++... .|-.. ....||+||..=..-.+..-...-
T Consensus 275 a~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~V~L~mG~E~a 350 (416)
T PF04710_consen 275 AGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPYVPLWMGCEPA 350 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred hcCCCCCcCCCccccccccccccccccCceeec-cccceeeec---ccccccccccccccCCCccccCCceeEeeccccc
Confidence 345668876655433211 1123 599986644 45421 256799999754333333333333
Q ss_pred HHHhcCCCCcCCCCCCCc
Q 030807 147 LWAASGIPEFYDDDPPHF 164 (171)
Q Consensus 147 ~~~~~~~~~~~~~~~~~~ 164 (171)
-+...|.+..-=-+|+|+
T Consensus 351 fyvD~~~pthaF~PCGHv 368 (416)
T PF04710_consen 351 FYVDSGPPTHAFNPCGHV 368 (416)
T ss_dssp ------------------
T ss_pred eeecCCCCceeecccccc
Confidence 344444444444444443
No 141
>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 COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=53.68 E-value=64 Score=27.06 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=30.8
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCC--CCCCccC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQ--KTCPLCR 131 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~~CP~Cr 131 (171)
..-..||+=.+.-.+...-..+ .|||+.-..-.....+.+. ..||.|-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4556788755543332222233 6999999999888776433 3499994
No 143
>PLN02195 cellulose synthase A
Probab=52.55 E-value=23 Score=33.89 Aligned_cols=51 Identities=22% Similarity=0.447 Sum_probs=37.4
Q ss_pred ccccccccccccc---cceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 85 PDSCAVCLYEFEE---QDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 85 ~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
...|.||-++... ++.-..+..|+--.|+.|..-=-+.+++.||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 4579999886633 34344455688889999986555667889999998776
No 144
>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=51.81 E-value=3.7 Score=24.68 Aligned_cols=16 Identities=31% Similarity=0.833 Sum_probs=8.5
Q ss_pred CCCCCccCCCCCCCch
Q 030807 124 QKTCPLCRTPFIPDDM 139 (171)
Q Consensus 124 ~~~CP~Cr~~~~~~~~ 139 (171)
...||+|..++...+.
T Consensus 20 ~~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 20 KGCCPLCGRPLDEEHR 35 (54)
T ss_dssp SEE-TTT--EE-HHHH
T ss_pred CCcCCCCCCCCCHHHH
Confidence 3489999999875554
No 145
>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=51.12 E-value=10 Score=24.07 Aligned_cols=11 Identities=45% Similarity=1.298 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 030807 111 FHRGCLDRWMA 121 (171)
Q Consensus 111 Fh~~Ci~~wl~ 121 (171)
||+.|+.+|++
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999995
No 146
>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=49.54 E-value=16 Score=19.03 Aligned_cols=29 Identities=21% Similarity=0.510 Sum_probs=10.1
Q ss_pred ccccccccccccceeeecCCCCCcccHHHH
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGCL 116 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci 116 (171)
.|.+|...... ...-....|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47778777665 233334469999999885
No 147
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=49.38 E-value=12 Score=23.25 Aligned_cols=18 Identities=39% Similarity=0.960 Sum_probs=14.4
Q ss_pred CCCCCCccCCCCCCCchh
Q 030807 123 DQKTCPLCRTPFIPDDMQ 140 (171)
Q Consensus 123 ~~~~CP~Cr~~~~~~~~~ 140 (171)
.|+.||.|-.++.++...
T Consensus 2 ~HkHC~~CG~~Ip~~~~f 19 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDESF 19 (59)
T ss_pred CCCcCCcCCCcCCcchhh
Confidence 578999999998876643
No 148
>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=49.32 E-value=9.6 Score=19.45 Aligned_cols=17 Identities=18% Similarity=0.534 Sum_probs=10.6
Q ss_pred CCCccCCCCCCCchhhH
Q 030807 126 TCPLCRTPFIPDDMQDS 142 (171)
Q Consensus 126 ~CP~Cr~~~~~~~~~~~ 142 (171)
.||+|...+....+..+
T Consensus 3 ~CPiC~~~v~~~~in~H 19 (26)
T smart00734 3 QCPVCFREVPENLINSH 19 (26)
T ss_pred cCCCCcCcccHHHHHHH
Confidence 59999877744444333
No 149
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=49.25 E-value=20 Score=34.72 Aligned_cols=52 Identities=17% Similarity=0.436 Sum_probs=37.0
Q ss_pred Ccccccccccccc---ccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFE---EQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+...|-||-++.. +++.-..+..|+-=.|+.|..-=.+.+++.||.|+....
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 3457999999863 344444455677779999986555667889999987653
No 150
>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=48.73 E-value=6.2 Score=25.41 Aligned_cols=39 Identities=28% Similarity=0.693 Sum_probs=18.1
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
..||.|..++.... ++.+|..|-.... ....||-|..++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~--~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKDYK--KEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--EEE--EEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECccccccce--ecccCCCcccHH
Confidence 46888887765542 3444444544322 356788888765
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=48.58 E-value=27 Score=24.14 Aligned_cols=25 Identities=36% Similarity=0.703 Sum_probs=19.0
Q ss_pred CCcccHHHHHHHHhc--------CCCCCCccCC
Q 030807 108 RHIFHRGCLDRWMAY--------DQKTCPLCRT 132 (171)
Q Consensus 108 ~H~Fh~~Ci~~wl~~--------~~~~CP~Cr~ 132 (171)
.-.||..|+..++.. ..-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 777999998888732 2345999986
No 152
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.19 E-value=7.1 Score=36.24 Aligned_cols=45 Identities=20% Similarity=0.502 Sum_probs=30.5
Q ss_pred Ccccccccccccccc----ceeeecCCCCCcccHHHHHHHHhcCCCCCCccC
Q 030807 84 PPDSCAVCLYEFEEQ----DEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
.+..|..|.+..-.. +.+.++ .|+|.||..|+..-... +. |-.|-
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~-~~-~~~~~ 831 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLR-NA-CNIES 831 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHh-cc-cChhh
Confidence 445799999875422 455566 59999999999877652 22 55553
No 153
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.61 E-value=7.3 Score=32.19 Aligned_cols=47 Identities=28% Similarity=0.569 Sum_probs=38.7
Q ss_pred CCccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
.....|-+|...+..+.... .|.|.|+..|-..|.. ..+.||.|+..
T Consensus 103 ~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~-~~~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFA-MGNDCPDCRGK 149 (324)
T ss_pred CCccceeeeeeeEEeccccc---CceeeeeecCCchhhh-hhhccchhhcC
Confidence 45567999999988887664 6999999999999997 57788888864
No 154
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=45.36 E-value=17 Score=22.57 Aligned_cols=19 Identities=21% Similarity=0.579 Sum_probs=15.3
Q ss_pred CCCCCCccCCCCCCCchhh
Q 030807 123 DQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 123 ~~~~CP~Cr~~~~~~~~~~ 141 (171)
.|+.|++|.+.+++++..-
T Consensus 7 PH~HC~VCg~aIp~de~~C 25 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQVC 25 (64)
T ss_pred CCccccccCCcCCCccchH
Confidence 5889999999998877443
No 155
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=45.31 E-value=18 Score=21.63 Aligned_cols=26 Identities=31% Similarity=0.709 Sum_probs=14.8
Q ss_pred ecCCCCCcccHHHHHHHHhcCCCCCCcc
Q 030807 103 RLTNCRHIFHRGCLDRWMAYDQKTCPLC 130 (171)
Q Consensus 103 ~l~~C~H~Fh~~Ci~~wl~~~~~~CP~C 130 (171)
+.+.|+|.|-..=-.. . .+...||.|
T Consensus 30 ~C~~Cgh~w~~~v~~R-~-~~~~~CP~C 55 (55)
T PF14311_consen 30 KCPKCGHEWKASVNDR-T-RRGKGCPYC 55 (55)
T ss_pred ECCCCCCeeEccHhhh-c-cCCCCCCCC
Confidence 3446777665432222 1 257789987
No 156
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=45.00 E-value=16 Score=26.59 Aligned_cols=23 Identities=17% Similarity=0.623 Sum_probs=17.5
Q ss_pred ecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 103 RLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 103 ~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
++++|||+|+ -.+..||.|..+.
T Consensus 31 kC~~CG~v~~---------PPr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYF---------PPRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEc---------CCcccCCCCCCCC
Confidence 3447999988 3678899998763
No 157
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=44.48 E-value=69 Score=19.17 Aligned_cols=31 Identities=19% Similarity=0.463 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCCCC
Q 030807 15 LLLHTLSVLGFIRKLITILFTCLGLQDFLEP 45 (171)
Q Consensus 15 ~l~~~l~~l~~i~~~~~~l~~~~~~~~~~~~ 45 (171)
+++.++++++++...+..++...+.+...+.
T Consensus 5 ~iV~i~iv~~lLg~~I~~~~K~ygYkht~d~ 35 (50)
T PF12606_consen 5 LIVSIFIVMGLLGLSICTTLKAYGYKHTVDP 35 (50)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccccccccCC
Confidence 3445666667777777788888888877665
No 158
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=43.99 E-value=29 Score=29.04 Aligned_cols=48 Identities=21% Similarity=0.389 Sum_probs=30.2
Q ss_pred ccccccccccccccc----------eeeecCCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 85 PDSCAVCLYEFEEQD----------EIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
...|-.|...|..+. ....++.|+..||..|-.- +...-..|+.|..+
T Consensus 362 s~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvf-iHe~Lh~C~gCe~~ 419 (421)
T COG5151 362 STHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVF-IHETLHFCIGCELP 419 (421)
T ss_pred CccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHH-HHHHHhhCCCCcCC
Confidence 456888888764431 1123446899999999543 33345679999754
No 159
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.18 E-value=26 Score=33.79 Aligned_cols=52 Identities=19% Similarity=0.436 Sum_probs=37.4
Q ss_pred Ccccccccccccc---ccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFE---EQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
....|.||-++.. +++.-..+..|+--.|+.|..-=.+.+++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4567999999863 344444455687779999996655667889999997653
No 160
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=40.73 E-value=31 Score=23.68 Aligned_cols=28 Identities=25% Similarity=0.554 Sum_probs=19.9
Q ss_pred CCCcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 107 CRHIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 107 C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
||+.-|..-+.++.. ..+||.|++++.|
T Consensus 65 CGvC~~~LT~~EY~~--~~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYGM--CGSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHhh--cCCCCCcCCCCCc
Confidence 777666666666643 5669999998864
No 161
>PLN02400 cellulose synthase
Probab=40.07 E-value=23 Score=34.30 Aligned_cols=52 Identities=19% Similarity=0.435 Sum_probs=36.4
Q ss_pred Ccccccccccccc---ccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFE---EQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
+...|-||-++.. +++.-..+..|+-=.|+.|..-=-+.+++.||-|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 4458999999863 344334444677778999985544556888999997653
No 162
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=38.64 E-value=34 Score=28.63 Aligned_cols=52 Identities=17% Similarity=0.472 Sum_probs=32.6
Q ss_pred Ccccccccccccc---------c------cceeeecCCCCCcccHHHHHHHHhc--------CCCCCCccCCCCC
Q 030807 84 PPDSCAVCLYEFE---------E------QDEIRRLTNCRHIFHRGCLDRWMAY--------DQKTCPLCRTPFI 135 (171)
Q Consensus 84 ~~~~C~ICl~~~~---------~------~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~~CP~Cr~~~~ 135 (171)
.+.+|++|+..-. . +...-...+|||+--..-..-|.+. -+..||.|-..+.
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 4568999987531 0 1111112359998777777777744 1456999987664
No 163
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=38.09 E-value=8.1 Score=23.37 Aligned_cols=20 Identities=20% Similarity=0.428 Sum_probs=15.0
Q ss_pred eeeecCCCCCcccHHHHHHH
Q 030807 100 EIRRLTNCRHIFHRGCLDRW 119 (171)
Q Consensus 100 ~~~~l~~C~H~Fh~~Ci~~w 119 (171)
.....+.|++.||..|-..|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34456568999999998776
No 164
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.97 E-value=6.2 Score=32.05 Aligned_cols=48 Identities=19% Similarity=0.479 Sum_probs=36.0
Q ss_pred ccccccccccccc--ceeeecCC--------CCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 86 DSCAVCLYEFEEQ--DEIRRLTN--------CRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 86 ~~C~ICl~~~~~~--~~~~~l~~--------C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
..|.||...+... ..+.++.. |+|..|..|+..-+.+....||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 5699999998832 22322334 999999999999986545789999874
No 165
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=37.80 E-value=23 Score=28.80 Aligned_cols=50 Identities=24% Similarity=0.460 Sum_probs=34.4
Q ss_pred ccccccccccccccc-eee--ecCCCCCcccHHHHHHHHhc--------CCCCCCccCCCC
Q 030807 85 PDSCAVCLYEFEEQD-EIR--RLTNCRHIFHRGCLDRWMAY--------DQKTCPLCRTPF 134 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~-~~~--~l~~C~H~Fh~~Ci~~wl~~--------~~~~CP~Cr~~~ 134 (171)
...|.+|..++.+.+ ... .-+.|.-++|..|+-.-+.. -...||.|+..+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 358999999984333 222 23469999999999985532 134699998754
No 166
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=37.57 E-value=57 Score=20.07 Aligned_cols=45 Identities=18% Similarity=0.538 Sum_probs=29.3
Q ss_pred ccccccccccccceeeecCCCC--CcccHHHHHHHHhcCCCCCCccCCCCCC
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCR--HIFHRGCLDRWMAYDQKTCPLCRTPFIP 136 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~--H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 136 (171)
.|--|-.++..+..-.. -|. ..||..|....+ +..||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~--ICSfECTFC~~C~e~~l---~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAY--ICSFECTFCADCAETML---NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcce--EEeEeCcccHHHHHHHh---cCcCcCCCCcccc
Confidence 46666666655441111 154 349999998865 5789999887754
No 167
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.16 E-value=19 Score=29.65 Aligned_cols=40 Identities=18% Similarity=0.321 Sum_probs=29.3
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYD 123 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~ 123 (171)
....|.+|.+.+++--.+..-.-=.|.||.-|-.+-++++
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4467999999999877773111124999999999998753
No 168
>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=35.61 E-value=8.5 Score=31.38 Aligned_cols=49 Identities=18% Similarity=0.253 Sum_probs=20.7
Q ss_pred CccccccccccccccceeeecC-CCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLT-NCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
....||+|-..-.-+.....-. .-.|.+|..|-.+|-- .+..||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~-~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRF-VRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE---TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeee-cCCCCcCCCCC
Confidence 3468999988644332221100 1245577778888865 57789999654
No 169
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=33.98 E-value=52 Score=23.19 Aligned_cols=26 Identities=23% Similarity=0.643 Sum_probs=16.9
Q ss_pred CCCCCcccHHHHHHHHhcCCCCCCccCCCCCCC
Q 030807 105 TNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPD 137 (171)
Q Consensus 105 ~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 137 (171)
|.|++. .+.+- +...|+.|++|+.-+
T Consensus 73 P~C~K~------TKmLG-r~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 73 PNCGKQ------TKMLG-RVDACMHCKEPLTLD 98 (114)
T ss_pred CCCCCh------Hhhhc-hhhccCcCCCcCccC
Confidence 367763 23333 456899999998643
No 170
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=33.48 E-value=36 Score=27.73 Aligned_cols=47 Identities=19% Similarity=0.422 Sum_probs=30.7
Q ss_pred ccccccccccccccceeeecCCCCC-cccHHHHHHHHhcCCCCCCccC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRH-IFHRGCLDRWMAYDQKTCPLCR 131 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~~~~~CP~Cr 131 (171)
-..|.||++-.-.+..-..|..-+. +-|++|..+|=...+..||.-+
T Consensus 30 LsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~prsk 77 (285)
T PF06937_consen 30 LSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPRSK 77 (285)
T ss_pred eeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCccc
Confidence 3568888886655543322222222 5789999999877788899443
No 171
>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=32.92 E-value=19 Score=25.22 Aligned_cols=35 Identities=23% Similarity=0.286 Sum_probs=22.1
Q ss_pred Cccccccccccccccc-eeeecCCCCCcccHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQD-EIRRLTNCRHIFHRGCLDR 118 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~ 118 (171)
++..|.+|...|.--. .-.....|+|.+|..|-..
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 5678999998764332 1234556999999888644
No 172
>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=32.82 E-value=40 Score=19.77 Aligned_cols=40 Identities=23% Similarity=0.536 Sum_probs=20.8
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
|..|-..+.....+.. .-+..||..| -.|-.|+.++.+..
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~C---------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPEC---------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTT---------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEccc---------cccCCCCCccCCCe
Confidence 4556565554443311 2455666544 34667766665443
No 173
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.08 E-value=30 Score=27.65 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=18.6
Q ss_pred cccccccccccccceeeecCCCCCcc
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIF 111 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~F 111 (171)
..||+|...+......-.+. .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999997655555564 68887
No 174
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.51 E-value=26 Score=31.61 Aligned_cols=36 Identities=33% Similarity=0.654 Sum_probs=24.2
Q ss_pred CCcccccccccccccc-----------ceeeecCCCCCcccHHHHHHHH
Q 030807 83 DPPDSCAVCLYEFEEQ-----------DEIRRLTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~-----------~~~~~l~~C~H~Fh~~Ci~~wl 120 (171)
+....|+||.+.|+.- +.+ .+ .=|-+||..|..+-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV-~l-e~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAV-YL-EFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeeccee-ee-ccCceeeccccchHH
Confidence 4567899999998541 112 12 148899999987644
No 175
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=28.42 E-value=56 Score=20.19 Aligned_cols=32 Identities=16% Similarity=0.362 Sum_probs=17.9
Q ss_pred Cccccccccccccc--cceeeecCCCCCcccHHH
Q 030807 84 PPDSCAVCLYEFEE--QDEIRRLTNCRHIFHRGC 115 (171)
Q Consensus 84 ~~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~C 115 (171)
....|+.|-..... ....-..+.||+.+|.+-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHH
Confidence 45568877666555 333444555666655543
No 176
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=27.78 E-value=66 Score=21.60 Aligned_cols=44 Identities=20% Similarity=0.360 Sum_probs=32.1
Q ss_pred CccccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCCCCCchhh
Q 030807 84 PPDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 141 (171)
....|+-|...+.--+.+ | |.+|+. .+..|..|+.++.......
T Consensus 32 ~rS~C~~C~~~L~~~~lI---P----------i~S~l~-lrGrCr~C~~~I~~~y~l~ 75 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLI---P----------ILSYLL-LRGRCRYCGAPIPPRYPLI 75 (92)
T ss_pred CCCcCcCCCCcCcccccc---h----------HHHHHH-hCCCCcccCCCCChHHHHH
Confidence 346788888877665444 3 678887 6899999999987655433
No 177
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=27.56 E-value=13 Score=30.51 Aligned_cols=42 Identities=21% Similarity=0.558 Sum_probs=28.2
Q ss_pred cccccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCC
Q 030807 86 DSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCP 128 (171)
Q Consensus 86 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP 128 (171)
..|.+|++++..+...... .|..+||..|+-.|++.....++
T Consensus 215 rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 256 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTGAASTE 256 (288)
T ss_pred eecHHHHHHHhcccccchh-hcccccccccccccccccccccc
Confidence 3799999998764333333 36668899999999875444343
No 178
>PLN02248 cellulose synthase-like protein
Probab=27.19 E-value=44 Score=32.57 Aligned_cols=33 Identities=24% Similarity=0.623 Sum_probs=26.8
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCccCCCCCCCch
Q 030807 106 NCRHIFHRGCLDRWMAYDQKTCPLCRTPFIPDDM 139 (171)
Q Consensus 106 ~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 139 (171)
.|+...|++|...-++ ....||.|+.+....+.
T Consensus 149 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 181 (1135)
T PLN02248 149 ECGFKICRDCYIDAVK-SGGICPGCKEPYKVTDL 181 (1135)
T ss_pred cccchhHHhHhhhhhh-cCCCCCCCccccccccc
Confidence 4888999999999888 57899999988754443
No 179
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=26.40 E-value=36 Score=27.51 Aligned_cols=45 Identities=11% Similarity=0.314 Sum_probs=32.6
Q ss_pred ccccccccccccccceeeecCCCCCcccHHHHHHHHhcC-CCCCCccCC
Q 030807 85 PDSCAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYD-QKTCPLCRT 132 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-~~~CP~Cr~ 132 (171)
+..||+=...+.+|..-+ +|+|+|-++-|...+... ...||+=..
T Consensus 176 s~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeecccccC
Confidence 346888777777775444 799999999999988631 345876544
No 180
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=25.86 E-value=21 Score=30.24 Aligned_cols=14 Identities=29% Similarity=0.534 Sum_probs=9.9
Q ss_pred CCcccccccccccc
Q 030807 83 DPPDSCAVCLYEFE 96 (171)
Q Consensus 83 ~~~~~C~ICl~~~~ 96 (171)
+.+..|++|-+...
T Consensus 13 dl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 13 DLGELCPVCGDKVS 26 (475)
T ss_pred ccccccccccCccc
Confidence 45677999977643
No 181
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=25.81 E-value=56 Score=18.17 Aligned_cols=34 Identities=24% Similarity=0.561 Sum_probs=23.4
Q ss_pred Cccccccccccccccc-eeeecCCCCCcccHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQD-EIRRLTNCRHIFHRGCLDR 118 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~ 118 (171)
....|.+|.+.+.... .+ ....|+-..|..|...
T Consensus 10 ~~~~C~~C~~~i~~~~~~~-~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGL-RCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCccccccccCcCCCCc-CCCCCCchHHHHHHhh
Confidence 3456999988776532 22 2346888999999865
No 182
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=25.66 E-value=56 Score=30.94 Aligned_cols=35 Identities=23% Similarity=0.405 Sum_probs=25.4
Q ss_pred cccccccccccccc---eeee--cCCCCCcccHHHHHHHH
Q 030807 86 DSCAVCLYEFEEQD---EIRR--LTNCRHIFHRGCLDRWM 120 (171)
Q Consensus 86 ~~C~ICl~~~~~~~---~~~~--l~~C~H~Fh~~Ci~~wl 120 (171)
..|..|...|..-. ..++ +..||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 56999999985421 1233 55799999999987654
No 183
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=25.47 E-value=1.5e+02 Score=19.71 Aligned_cols=22 Identities=27% Similarity=0.196 Sum_probs=14.7
Q ss_pred cccccchHHHHHHHHHHHHHHH
Q 030807 7 YSELIIPKLLLHTLSVLGFIRK 28 (171)
Q Consensus 7 ~~~~~ip~~l~~~l~~l~~i~~ 28 (171)
+-...-|..++.+|+.+++|..
T Consensus 18 ~~~~l~pn~lMtILivLVIIiL 39 (85)
T PF10717_consen 18 NLNGLNPNTLMTILIVLVIIIL 39 (85)
T ss_pred cccccChhHHHHHHHHHHHHHH
Confidence 4445568888888877766643
No 184
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.30 E-value=40 Score=22.90 Aligned_cols=12 Identities=42% Similarity=1.049 Sum_probs=10.8
Q ss_pred ccHHHHHHHHhc
Q 030807 111 FHRGCLDRWMAY 122 (171)
Q Consensus 111 Fh~~Ci~~wl~~ 122 (171)
||..|+..|++.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999964
No 185
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.96 E-value=75 Score=30.84 Aligned_cols=49 Identities=20% Similarity=0.289 Sum_probs=33.1
Q ss_pred CCccccccccccccccceeeecCCCCC-----cccHHHHHHHHhcCCCCCCccCCCCCCCc
Q 030807 83 DPPDSCAVCLYEFEEQDEIRRLTNCRH-----IFHRGCLDRWMAYDQKTCPLCRTPFIPDD 138 (171)
Q Consensus 83 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-----~Fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 138 (171)
.....|+-|-... ....+|.||. .||..|-.. . ....||-|.....+..
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~~--~-~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGIE--V-EEDECEKCGREPTPYS 677 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCccccCc--C-CCCcCCCCCCCCCccc
Confidence 4556799887764 2235667984 599999433 1 3467999988776544
No 186
>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=24.70 E-value=44 Score=24.97 Aligned_cols=24 Identities=33% Similarity=0.751 Sum_probs=13.6
Q ss_pred CCcccHHHHHHHHhcCCCCCCccCCCCC
Q 030807 108 RHIFHRGCLDRWMAYDQKTCPLCRTPFI 135 (171)
Q Consensus 108 ~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~~ 135 (171)
.+.||..|-.+-+. .||.|..++.
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCC
Confidence 34566666655443 3666665553
No 187
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=24.52 E-value=49 Score=20.57 Aligned_cols=13 Identities=38% Similarity=1.347 Sum_probs=9.9
Q ss_pred CCCCCccCCCCCC
Q 030807 124 QKTCPLCRTPFIP 136 (171)
Q Consensus 124 ~~~CP~Cr~~~~~ 136 (171)
...||+|.++...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4679999987643
No 188
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.11 E-value=18 Score=20.53 Aligned_cols=25 Identities=28% Similarity=0.476 Sum_probs=14.8
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCccCC
Q 030807 106 NCRHIFHRGCLDRWMAYDQKTCPLCRT 132 (171)
Q Consensus 106 ~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~ 132 (171)
.|||.|-...-.. ......||.|..
T Consensus 10 ~Cg~~fe~~~~~~--~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSIS--EDDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcC--CCCCCcCCCCCC
Confidence 5887776432111 113567999987
No 189
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=23.55 E-value=67 Score=21.80 Aligned_cols=33 Identities=21% Similarity=0.471 Sum_probs=22.0
Q ss_pred Cccccccccccccccceee-ecCCCCCcccHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQDEIR-RLTNCRHIFHRGCLDR 118 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~-~l~~C~H~Fh~~Ci~~ 118 (171)
....|.+|... .+..+. .-+.|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 35679999887 333331 1124888999999855
No 190
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=23.15 E-value=24 Score=26.60 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=6.9
Q ss_pred ceeeecCCCCC
Q 030807 99 DEIRRLTNCRH 109 (171)
Q Consensus 99 ~~~~~l~~C~H 109 (171)
..+.++|.|||
T Consensus 91 ~nl~~CP~CGh 101 (176)
T KOG4080|consen 91 DNLNTCPACGH 101 (176)
T ss_pred hccccCcccCc
Confidence 34556667887
No 191
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=23.05 E-value=32 Score=17.21 Aligned_cols=17 Identities=35% Similarity=1.003 Sum_probs=9.9
Q ss_pred CCCCccCCCCCCCchhh
Q 030807 125 KTCPLCRTPFIPDDMQD 141 (171)
Q Consensus 125 ~~CP~Cr~~~~~~~~~~ 141 (171)
..||.|...+.++.+..
T Consensus 3 ~~C~~CgR~F~~~~l~~ 19 (25)
T PF13913_consen 3 VPCPICGRKFNPDRLEK 19 (25)
T ss_pred CcCCCCCCEECHHHHHH
Confidence 35777776665544433
No 192
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.72 E-value=46 Score=17.28 Aligned_cols=28 Identities=21% Similarity=0.516 Sum_probs=16.1
Q ss_pred ccccccccccccceeeecCCCCCcccHHH
Q 030807 87 SCAVCLYEFEEQDEIRRLTNCRHIFHRGC 115 (171)
Q Consensus 87 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~C 115 (171)
.|.+|........ .-....|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4778866655542 222335776677665
No 193
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.65 E-value=39 Score=28.04 Aligned_cols=49 Identities=16% Similarity=0.246 Sum_probs=28.0
Q ss_pred Cccccccccccccccceeeec--CCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 84 PPDSCAVCLYEFEEQDEIRRL--TNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~~~l--~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
....||+|-..-........- ..=.+.+|..|-.+|-- .+..||.|-..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~-~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHY-VRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccc-cCccCCCCCCC
Confidence 345899998864322110000 01124455668888865 57889999753
No 194
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=22.14 E-value=65 Score=20.89 Aligned_cols=33 Identities=21% Similarity=0.422 Sum_probs=22.0
Q ss_pred Ccccccccccccccccee-eecCCCCCcccHHHHHH
Q 030807 84 PPDSCAVCLYEFEEQDEI-RRLTNCRHIFHRGCLDR 118 (171)
Q Consensus 84 ~~~~C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~ 118 (171)
....|.+|.... +..+ -..+.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 356799998762 2222 22346999999999754
No 195
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.40 E-value=40 Score=30.95 Aligned_cols=9 Identities=44% Similarity=1.117 Sum_probs=4.3
Q ss_pred CCCccCCCC
Q 030807 126 TCPLCRTPF 134 (171)
Q Consensus 126 ~CP~Cr~~~ 134 (171)
.||.|...+
T Consensus 29 ~Cp~CG~~~ 37 (645)
T PRK14559 29 PCPQCGTEV 37 (645)
T ss_pred cCCCCCCCC
Confidence 455554443
No 196
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=21.31 E-value=56 Score=28.76 Aligned_cols=49 Identities=18% Similarity=0.491 Sum_probs=33.5
Q ss_pred Cccccccccc-cccccceeeecCCCCCcccHHHHHHHHhc-------CCCCCCccCC
Q 030807 84 PPDSCAVCLY-EFEEQDEIRRLTNCRHIFHRGCLDRWMAY-------DQKTCPLCRT 132 (171)
Q Consensus 84 ~~~~C~ICl~-~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-------~~~~CP~Cr~ 132 (171)
-+..|.+|.. ......++..+.+|+.-||..|.....+. ..-.|-+|..
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 3455999985 44444566667789999999998776532 1224888864
No 197
>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=21.20 E-value=55 Score=17.05 Aligned_cols=36 Identities=25% Similarity=0.672 Sum_probs=20.4
Q ss_pred cccccccccccceeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 88 CAVCLYEFEEQDEIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 88 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
|..|...+...+.... .=+..||..|. .|..|..++
T Consensus 2 C~~C~~~i~~~~~~~~--~~~~~~H~~Cf---------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLR--ALGKVWHPECF---------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEE--eCCccccccCC---------CCcccCCcC
Confidence 6777777766522211 23566776653 466666554
No 198
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.01 E-value=65 Score=24.32 Aligned_cols=25 Identities=20% Similarity=0.569 Sum_probs=16.2
Q ss_pred eeecCCCCCcccHHHHHHHHhcCCCCCCccCCC
Q 030807 101 IRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTP 133 (171)
Q Consensus 101 ~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~ 133 (171)
+.+++.|||.+- . .....||+|..+
T Consensus 134 ~~vC~vCGy~~~----g----e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHE----G----EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCccc----C----CCCCcCCCCCCh
Confidence 556667888522 1 256789999764
No 199
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=20.52 E-value=44 Score=31.00 Aligned_cols=34 Identities=26% Similarity=0.615 Sum_probs=23.3
Q ss_pred eeeecCCCCCcccHHHHHHHHhcCCCCCCccCCCC
Q 030807 100 EIRRLTNCRHIFHRGCLDRWMAYDQKTCPLCRTPF 134 (171)
Q Consensus 100 ~~~~l~~C~H~Fh~~Ci~~wl~~~~~~CP~Cr~~~ 134 (171)
.+..+|.|...||.+=..--.. ++..||-||...
T Consensus 1043 ~it~Cp~C~~~F~~eDFEl~vL-qKGHCPFCrTS~ 1076 (1081)
T KOG1538|consen 1043 SITMCPSCFQMFHSEDFELLVL-QKGHCPFCRTSK 1076 (1081)
T ss_pred hhhhCchHHhhhccchhhHHHH-hcCCCCcccccc
Confidence 3444566777888766555444 588999999753
No 200
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=20.41 E-value=48 Score=20.66 Aligned_cols=11 Identities=36% Similarity=1.367 Sum_probs=8.9
Q ss_pred CCCCccCCCCC
Q 030807 125 KTCPLCRTPFI 135 (171)
Q Consensus 125 ~~CP~Cr~~~~ 135 (171)
-.||.||.++.
T Consensus 9 LaCP~~kg~L~ 19 (60)
T COG2835 9 LACPVCKGPLV 19 (60)
T ss_pred eeccCcCCcce
Confidence 46999999874
No 201
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.23 E-value=60 Score=29.79 Aligned_cols=48 Identities=21% Similarity=0.532 Sum_probs=29.5
Q ss_pred ccccccccccccccce-eeecCCCCCcccHHHHHHHHhcC----CCCCCccCC
Q 030807 85 PDSCAVCLYEFEEQDE-IRRLTNCRHIFHRGCLDRWMAYD----QKTCPLCRT 132 (171)
Q Consensus 85 ~~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~----~~~CP~Cr~ 132 (171)
...|.+|-..-..... +...-.|+-.+|..|...|++.. .-+||-||.
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 3456666554333222 22223588999999999999532 235888874
Done!