Query 045064
Match_columns 134
No_of_seqs 167 out of 1515
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 09:29:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045064.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045064hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 1.6E-16 3.4E-21 88.4 2.0 43 87-129 2-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.6 5.9E-16 1.3E-20 118.7 2.9 46 87-132 231-277 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 2.3E-13 5.1E-18 83.4 4.3 45 85-129 19-73 (73)
4 COG5540 RING-finger-containing 99.4 6E-13 1.3E-17 99.8 4.0 48 86-133 324-372 (374)
5 PHA02929 N1R/p28-like protein; 99.3 2E-12 4.3E-17 95.3 4.7 49 85-133 174-227 (238)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 3.5E-12 7.7E-17 98.0 4.2 50 84-133 286-345 (491)
7 PF13920 zf-C3HC4_3: Zinc fing 99.2 2E-11 4.4E-16 69.4 3.6 45 86-133 3-48 (50)
8 PF13923 zf-C3HC4_2: Zinc fing 99.2 2.2E-11 4.8E-16 65.8 3.2 39 88-128 1-39 (39)
9 PLN03208 E3 ubiquitin-protein 99.2 2.6E-11 5.6E-16 86.4 4.2 47 84-133 17-79 (193)
10 PF15227 zf-C3HC4_4: zinc fing 99.2 2.3E-11 5.1E-16 66.8 2.7 38 88-128 1-42 (42)
11 cd00162 RING RING-finger (Real 99.1 5.4E-11 1.2E-15 65.2 3.5 43 88-132 2-45 (45)
12 KOG0317 Predicted E3 ubiquitin 99.1 3.1E-11 6.6E-16 90.1 2.6 46 84-132 238-283 (293)
13 KOG0320 Predicted E3 ubiquitin 99.1 4.8E-11 1E-15 83.5 2.8 50 83-133 129-178 (187)
14 KOG0823 Predicted E3 ubiquitin 99.1 6.2E-11 1.3E-15 86.0 3.2 46 85-133 47-95 (230)
15 PF12861 zf-Apc11: Anaphase-pr 99.0 1.7E-10 3.7E-15 72.0 3.4 49 85-133 21-82 (85)
16 PF14634 zf-RING_5: zinc-RING 99.0 2.4E-10 5.2E-15 63.3 3.4 43 88-130 2-44 (44)
17 PF00097 zf-C3HC4: Zinc finger 99.0 2.6E-10 5.7E-15 62.0 2.7 39 88-128 1-41 (41)
18 KOG0802 E3 ubiquitin ligase [P 99.0 2.1E-10 4.5E-15 93.9 2.4 49 83-131 289-339 (543)
19 smart00504 Ubox Modified RING 99.0 7E-10 1.5E-14 65.6 3.8 43 87-132 3-45 (63)
20 smart00184 RING Ring finger. E 98.9 1.1E-09 2.4E-14 57.8 3.4 38 88-128 1-39 (39)
21 PHA02926 zinc finger-like prot 98.9 1.1E-09 2.3E-14 79.4 3.9 49 85-133 170-230 (242)
22 COG5194 APC11 Component of SCF 98.9 1E-09 2.2E-14 67.1 3.2 28 106-133 54-81 (88)
23 TIGR00599 rad18 DNA repair pro 98.8 1.6E-09 3.5E-14 85.2 2.9 43 87-132 28-70 (397)
24 KOG1493 Anaphase-promoting com 98.8 2E-09 4.3E-14 65.3 0.7 50 85-134 20-82 (84)
25 COG5574 PEX10 RING-finger-cont 98.7 8.9E-09 1.9E-13 76.2 2.3 47 83-132 213-261 (271)
26 KOG2930 SCF ubiquitin ligase, 98.6 2E-08 4.3E-13 64.4 2.6 47 87-133 48-108 (114)
27 KOG0287 Postreplication repair 98.6 1.1E-08 2.5E-13 78.1 1.4 43 87-132 25-67 (442)
28 smart00744 RINGv The RING-vari 98.6 4.9E-08 1.1E-12 55.2 3.1 41 88-129 2-49 (49)
29 KOG2164 Predicted E3 ubiquitin 98.6 2.7E-08 5.8E-13 79.5 2.5 45 85-132 186-235 (513)
30 PF13445 zf-RING_UBOX: RING-ty 98.5 6.8E-08 1.5E-12 53.1 2.8 34 88-122 1-35 (43)
31 COG5432 RAD18 RING-finger-cont 98.5 4.9E-08 1.1E-12 73.4 2.4 42 87-131 27-68 (391)
32 KOG0828 Predicted E3 ubiquitin 98.5 3.5E-08 7.5E-13 78.6 1.5 47 87-133 573-634 (636)
33 KOG0804 Cytoplasmic Zn-finger 98.5 4.6E-08 9.9E-13 77.1 1.5 43 87-131 177-220 (493)
34 PF04564 U-box: U-box domain; 98.5 1.2E-07 2.7E-12 57.9 3.1 45 86-133 5-50 (73)
35 TIGR00570 cdk7 CDK-activating 98.5 1.6E-07 3.6E-12 71.5 3.9 47 86-132 4-53 (309)
36 KOG1734 Predicted RING-contain 98.5 4.9E-08 1.1E-12 72.6 1.0 49 84-132 223-280 (328)
37 COG5219 Uncharacterized conser 98.4 5E-08 1.1E-12 82.8 0.2 48 87-134 1471-1524(1525)
38 KOG1785 Tyrosine kinase negati 98.4 1.2E-07 2.5E-12 74.1 1.7 97 13-132 316-415 (563)
39 PF11793 FANCL_C: FANCL C-term 98.4 5.1E-08 1.1E-12 59.2 -0.2 49 86-134 3-67 (70)
40 KOG2177 Predicted E3 ubiquitin 98.3 2.9E-07 6.4E-12 68.4 1.4 41 86-129 14-54 (386)
41 KOG4265 Predicted E3 ubiquitin 98.3 6.3E-07 1.4E-11 69.0 2.9 47 84-133 289-336 (349)
42 KOG4445 Uncharacterized conser 98.2 4.1E-07 9E-12 68.6 0.7 37 83-119 113-149 (368)
43 PF14835 zf-RING_6: zf-RING of 98.1 3.5E-07 7.6E-12 54.0 -0.4 41 87-132 9-50 (65)
44 KOG2114 Vacuolar assembly/sort 98.1 6.6E-07 1.4E-11 75.2 1.1 124 3-131 753-881 (933)
45 KOG0827 Predicted E3 ubiquitin 98.1 1.2E-06 2.7E-11 68.1 1.8 43 87-129 6-52 (465)
46 KOG0824 Predicted E3 ubiquitin 98.0 2E-06 4.4E-11 64.9 1.8 46 85-133 7-53 (324)
47 KOG4692 Predicted E3 ubiquitin 98.0 7.6E-06 1.6E-10 63.3 3.7 46 85-133 422-467 (489)
48 KOG1039 Predicted E3 ubiquitin 98.0 3.2E-06 7E-11 65.6 1.6 47 85-131 161-219 (344)
49 KOG0825 PHD Zn-finger protein 97.9 1.6E-06 3.5E-11 72.6 -0.6 46 87-132 125-170 (1134)
50 KOG1645 RING-finger-containing 97.9 8.2E-06 1.8E-10 64.0 2.7 46 86-131 5-54 (463)
51 KOG0311 Predicted E3 ubiquitin 97.9 1.4E-06 3.1E-11 67.0 -1.6 43 87-132 45-89 (381)
52 KOG0978 E3 ubiquitin ligase in 97.8 6.3E-06 1.4E-10 68.8 0.4 43 87-132 645-688 (698)
53 PF11789 zf-Nse: Zinc-finger o 97.7 3E-05 6.4E-10 45.1 2.2 40 86-127 12-53 (57)
54 KOG4159 Predicted E3 ubiquitin 97.7 2.4E-05 5.1E-10 62.0 2.2 45 86-133 85-129 (398)
55 COG5152 Uncharacterized conser 97.6 2.6E-05 5.5E-10 56.0 0.9 41 87-130 198-238 (259)
56 KOG4172 Predicted E3 ubiquitin 97.5 2.2E-05 4.8E-10 44.8 -0.0 44 86-132 8-53 (62)
57 KOG1941 Acetylcholine receptor 97.5 3E-05 6.6E-10 60.7 0.6 43 88-130 368-413 (518)
58 KOG1813 Predicted E3 ubiquitin 97.5 4.3E-05 9.3E-10 57.7 1.0 42 87-131 243-284 (313)
59 KOG0297 TNF receptor-associate 97.4 5.6E-05 1.2E-09 59.9 1.6 45 86-133 22-67 (391)
60 KOG2660 Locus-specific chromos 97.4 3.4E-05 7.3E-10 59.1 0.3 45 84-131 14-59 (331)
61 COG5222 Uncharacterized conser 97.4 0.00018 3.9E-09 54.7 3.8 42 86-130 275-318 (427)
62 KOG1428 Inhibitor of type V ad 97.3 0.00017 3.7E-09 64.4 3.3 48 85-132 3486-3543(3738)
63 PF05883 Baculo_RING: Baculovi 97.2 0.00024 5.2E-09 48.1 2.2 38 85-122 26-69 (134)
64 PF12906 RINGv: RING-variant d 97.1 0.00028 6.1E-09 39.4 1.9 40 88-128 1-47 (47)
65 PF14570 zf-RING_4: RING/Ubox 97.0 0.00068 1.5E-08 37.9 2.6 44 88-131 1-46 (48)
66 KOG2879 Predicted E3 ubiquitin 96.9 0.00084 1.8E-08 50.4 3.1 46 86-133 240-287 (298)
67 PF10367 Vps39_2: Vacuolar sor 96.9 0.00043 9.3E-09 44.7 1.2 31 85-116 78-108 (109)
68 KOG3039 Uncharacterized conser 96.8 0.0012 2.7E-08 48.9 3.3 49 84-132 220-269 (303)
69 PF14447 Prok-RING_4: Prokaryo 96.8 0.00055 1.2E-08 39.2 1.0 43 86-133 8-50 (55)
70 PF08746 zf-RING-like: RING-li 96.7 0.0024 5.1E-08 34.9 3.0 41 88-128 1-43 (43)
71 KOG4275 Predicted E3 ubiquitin 96.6 0.00034 7.4E-09 53.0 -0.8 39 87-132 302-341 (350)
72 PHA02862 5L protein; Provision 96.6 0.0016 3.5E-08 44.6 2.3 43 87-133 4-53 (156)
73 KOG1814 Predicted E3 ubiquitin 96.5 0.0014 3.1E-08 51.7 1.9 33 88-120 187-219 (445)
74 KOG1002 Nucleotide excision re 96.5 0.00093 2E-08 54.5 0.9 45 87-134 538-587 (791)
75 KOG3970 Predicted E3 ubiquitin 96.5 0.0022 4.8E-08 47.1 2.6 46 87-133 52-105 (299)
76 KOG3268 Predicted E3 ubiquitin 96.5 0.0016 3.5E-08 46.1 1.9 47 88-134 168-229 (234)
77 KOG4739 Uncharacterized protei 96.4 0.0012 2.5E-08 48.7 1.0 44 87-133 5-48 (233)
78 KOG1952 Transcription factor N 96.3 0.0019 4.2E-08 55.0 1.5 46 85-130 191-244 (950)
79 PHA02825 LAP/PHD finger-like p 96.2 0.0046 9.9E-08 43.0 2.9 45 85-133 8-59 (162)
80 PF04641 Rtf2: Rtf2 RING-finge 96.1 0.0073 1.6E-07 45.4 3.6 47 85-132 113-160 (260)
81 KOG1940 Zn-finger protein [Gen 96.0 0.0033 7E-08 47.6 1.6 43 88-130 161-204 (276)
82 KOG1571 Predicted E3 ubiquitin 95.9 0.004 8.6E-08 48.5 1.5 39 88-132 308-346 (355)
83 KOG4185 Predicted E3 ubiquitin 95.7 0.0084 1.8E-07 45.6 2.8 45 87-131 5-53 (296)
84 PF14446 Prok-RING_1: Prokaryo 95.5 0.018 4E-07 32.9 3.0 32 86-117 6-38 (54)
85 KOG3800 Predicted E3 ubiquitin 95.5 0.013 2.8E-07 44.5 2.9 46 87-132 2-50 (300)
86 PHA03096 p28-like protein; Pro 95.5 0.008 1.7E-07 45.8 1.8 44 86-129 179-230 (284)
87 KOG0826 Predicted E3 ubiquitin 95.4 0.0091 2E-07 46.0 1.9 43 87-132 302-345 (357)
88 PF03854 zf-P11: P-11 zinc fin 95.4 0.0067 1.4E-07 33.7 0.8 29 105-133 17-46 (50)
89 COG5236 Uncharacterized conser 95.2 0.015 3.3E-07 45.4 2.4 42 87-131 63-106 (493)
90 KOG0827 Predicted E3 ubiquitin 95.2 0.00087 1.9E-08 52.6 -4.3 46 88-133 199-245 (465)
91 KOG0801 Predicted E3 ubiquitin 95.2 0.0056 1.2E-07 42.8 0.0 26 87-112 179-204 (205)
92 KOG2817 Predicted E3 ubiquitin 94.9 0.026 5.6E-07 44.6 3.0 42 88-129 337-381 (394)
93 KOG1100 Predicted E3 ubiquitin 94.8 0.021 4.5E-07 41.7 2.1 38 88-132 161-199 (207)
94 KOG2932 E3 ubiquitin ligase in 94.7 0.013 2.9E-07 44.9 1.1 41 88-132 93-133 (389)
95 KOG1001 Helicase-like transcri 94.3 0.019 4.2E-07 48.6 1.2 43 86-132 455-499 (674)
96 PF05290 Baculo_IE-1: Baculovi 94.2 0.034 7.4E-07 37.6 1.9 49 84-132 79-131 (140)
97 KOG2034 Vacuolar sorting prote 93.9 0.031 6.7E-07 48.2 1.6 35 84-119 816-850 (911)
98 PF10272 Tmpp129: Putative tra 93.7 0.043 9.4E-07 43.1 2.0 27 106-132 311-350 (358)
99 PF07800 DUF1644: Protein of u 93.5 0.1 2.2E-06 36.4 3.3 31 86-119 3-46 (162)
100 KOG0298 DEAD box-containing he 93.4 0.02 4.3E-07 51.1 -0.3 42 87-130 1155-1196(1394)
101 KOG4367 Predicted Zn-finger pr 93.2 0.058 1.3E-06 43.4 2.1 33 86-121 5-37 (699)
102 COG5175 MOT2 Transcriptional r 92.9 0.055 1.2E-06 42.2 1.5 45 87-131 16-62 (480)
103 KOG3002 Zn finger protein [Gen 92.8 0.085 1.9E-06 40.6 2.4 44 85-133 48-91 (299)
104 KOG3899 Uncharacterized conser 92.8 0.059 1.3E-06 41.2 1.4 27 106-132 325-364 (381)
105 KOG3053 Uncharacterized conser 92.2 0.048 1E-06 40.8 0.3 47 87-133 22-82 (293)
106 KOG3161 Predicted E3 ubiquitin 91.9 0.046 9.9E-07 45.8 -0.1 39 88-129 14-53 (861)
107 KOG0825 PHD Zn-finger protein 90.5 0.11 2.4E-06 44.6 0.9 54 78-131 89-152 (1134)
108 COG5220 TFB3 Cdk activating ki 90.4 0.18 3.9E-06 37.6 1.8 43 87-129 12-60 (314)
109 KOG0309 Conserved WD40 repeat- 90.4 0.17 3.7E-06 43.3 1.9 25 103-127 1045-1069(1081)
110 KOG1812 Predicted E3 ubiquitin 90.2 0.12 2.6E-06 41.1 0.8 38 84-121 145-183 (384)
111 KOG4362 Transcriptional regula 89.0 0.098 2.1E-06 44.2 -0.5 43 87-132 23-68 (684)
112 PF02891 zf-MIZ: MIZ/SP-RING z 88.8 0.44 9.6E-06 26.7 2.3 42 87-131 4-50 (50)
113 KOG0269 WD40 repeat-containing 88.6 0.41 9E-06 41.0 2.9 22 106-127 799-820 (839)
114 COG5183 SSM4 Protein involved 88.5 0.32 6.9E-06 42.1 2.1 46 87-133 14-66 (1175)
115 KOG1609 Protein involved in mR 88.4 0.23 5E-06 37.7 1.2 46 86-131 79-132 (323)
116 KOG1812 Predicted E3 ubiquitin 88.0 0.49 1.1E-05 37.7 2.8 71 52-127 276-350 (384)
117 PF07975 C1_4: TFIIH C1-like d 86.9 0.56 1.2E-05 26.5 1.9 42 88-129 2-50 (51)
118 KOG1829 Uncharacterized conser 84.9 0.33 7.2E-06 40.5 0.5 21 105-128 536-556 (580)
119 KOG1815 Predicted E3 ubiquitin 84.0 0.56 1.2E-05 37.9 1.4 35 85-121 70-104 (444)
120 KOG4718 Non-SMC (structural ma 81.9 0.77 1.7E-05 33.6 1.3 39 88-129 184-223 (235)
121 COG5109 Uncharacterized conser 81.0 1.4 3E-05 34.2 2.4 42 88-129 339-383 (396)
122 smart00249 PHD PHD zinc finger 78.3 1.4 3E-05 23.1 1.3 31 88-118 2-32 (47)
123 KOG2066 Vacuolar assembly/sort 76.0 1.1 2.5E-05 38.6 0.7 41 87-128 786-830 (846)
124 PF13901 DUF4206: Domain of un 75.9 2 4.3E-05 31.1 1.9 36 88-129 155-196 (202)
125 PF00628 PHD: PHD-finger; Int 74.3 1.3 2.9E-05 24.3 0.5 42 88-129 2-49 (51)
126 KOG3005 GIY-YIG type nuclease 73.9 1.7 3.8E-05 32.9 1.2 45 87-131 184-241 (276)
127 smart00132 LIM Zinc-binding do 73.5 3.8 8.3E-05 20.5 2.2 36 88-132 2-37 (39)
128 KOG2068 MOT2 transcription fac 73.5 2.8 6.1E-05 32.6 2.3 46 87-132 251-297 (327)
129 PF06844 DUF1244: Protein of u 73.3 2.3 4.9E-05 25.3 1.3 12 109-120 11-22 (68)
130 TIGR00622 ssl1 transcription f 72.9 4.7 0.0001 26.6 2.9 44 87-130 57-111 (112)
131 KOG3039 Uncharacterized conser 72.3 2.9 6.2E-05 31.5 2.0 30 88-120 46-75 (303)
132 KOG3113 Uncharacterized conser 72.3 4.1 9E-05 30.7 2.8 43 88-132 114-157 (293)
133 PF13719 zinc_ribbon_5: zinc-r 71.4 2.7 5.8E-05 21.9 1.2 13 87-99 4-16 (37)
134 KOG0802 E3 ubiquitin ligase [P 71.0 2.9 6.2E-05 34.8 1.9 39 87-132 481-519 (543)
135 PF06906 DUF1272: Protein of u 69.1 11 0.00024 21.7 3.5 45 87-133 7-52 (57)
136 KOG2807 RNA polymerase II tran 68.7 4.7 0.0001 31.5 2.5 44 88-131 333-376 (378)
137 PF10571 UPF0547: Uncharacteri 68.5 2.6 5.5E-05 20.3 0.7 9 124-132 2-10 (26)
138 PF04423 Rad50_zn_hook: Rad50 67.0 2.4 5.1E-05 23.9 0.5 9 124-132 22-30 (54)
139 PF06750 DiS_P_DiS: Bacterial 66.3 8.3 0.00018 24.3 2.9 38 84-133 32-69 (92)
140 PF05605 zf-Di19: Drought indu 65.9 0.85 1.8E-05 25.7 -1.5 11 86-96 3-13 (54)
141 PF07191 zinc-ribbons_6: zinc- 65.5 0.33 7.1E-06 29.3 -3.4 39 87-133 3-41 (70)
142 PF13771 zf-HC5HC2H: PHD-like 63.2 5.9 0.00013 24.3 1.8 33 85-117 36-68 (90)
143 PF04216 FdhE: Protein involve 63.1 0.86 1.9E-05 34.7 -2.4 43 85-130 172-219 (290)
144 KOG3579 Predicted E3 ubiquitin 62.5 4.5 9.7E-05 31.1 1.3 37 85-122 268-306 (352)
145 PF13240 zinc_ribbon_2: zinc-r 62.2 1.2 2.6E-05 20.8 -1.1 9 123-131 14-22 (23)
146 PF00412 LIM: LIM domain; Int 61.5 7.5 0.00016 21.5 1.9 9 106-114 18-26 (58)
147 PF14311 DUF4379: Domain of un 61.4 5.3 0.00011 22.5 1.3 22 106-128 34-55 (55)
148 PF13832 zf-HC5HC2H_2: PHD-zin 60.5 6.5 0.00014 25.2 1.7 31 86-118 56-88 (110)
149 cd00065 FYVE FYVE domain; Zinc 57.3 9.5 0.00021 21.2 1.9 35 86-120 3-38 (57)
150 cd00350 rubredoxin_like Rubred 57.1 5.6 0.00012 20.0 0.8 10 121-130 16-25 (33)
151 COG5627 MMS21 DNA repair prote 55.2 6.6 0.00014 29.3 1.2 41 85-127 189-231 (275)
152 PF01363 FYVE: FYVE zinc finge 54.9 4.7 0.0001 23.6 0.3 34 86-119 10-44 (69)
153 PRK11088 rrmA 23S rRNA methylt 53.9 9.3 0.0002 28.6 1.8 26 86-111 3-28 (272)
154 KOG2979 Protein involved in DN 53.8 7.7 0.00017 29.3 1.3 40 86-127 177-218 (262)
155 COG4847 Uncharacterized protei 52.4 18 0.00039 23.1 2.6 36 84-120 5-40 (103)
156 PF14353 CpXC: CpXC protein 52.4 20 0.00043 23.7 3.1 44 87-133 3-49 (128)
157 PF14569 zf-UDP: Zinc-binding 52.1 16 0.00034 22.5 2.3 49 83-131 7-60 (80)
158 PF02809 UIM: Ubiquitin intera 52.1 14 0.00029 16.1 1.5 13 3-15 1-13 (18)
159 PF14169 YdjO: Cold-inducible 51.2 7.8 0.00017 22.5 0.8 11 122-132 39-49 (59)
160 KOG0956 PHD finger protein AF1 50.9 7.7 0.00017 33.4 1.0 44 87-130 119-179 (900)
161 PF10235 Cript: Microtubule-as 50.8 12 0.00026 23.7 1.6 34 87-132 46-79 (90)
162 KOG1245 Chromatin remodeling c 49.7 5.8 0.00013 36.9 0.1 44 88-131 1111-1158(1404)
163 PF13717 zinc_ribbon_4: zinc-r 49.2 9.4 0.0002 19.7 0.9 13 87-99 4-16 (36)
164 PF11023 DUF2614: Protein of u 48.5 15 0.00032 24.2 1.9 17 118-134 81-97 (114)
165 KOG3799 Rab3 effector RIM1 and 48.1 3.2 7E-05 28.3 -1.3 48 85-132 65-117 (169)
166 KOG2169 Zn-finger transcriptio 47.4 26 0.00056 30.0 3.6 39 88-133 309-356 (636)
167 PF10497 zf-4CXXC_R1: Zinc-fin 47.3 15 0.00033 23.8 1.8 24 107-130 37-69 (105)
168 smart00734 ZnF_Rad18 Rad18-lik 47.3 8.9 0.00019 18.3 0.5 9 124-132 3-11 (26)
169 PF03119 DNA_ligase_ZBD: NAD-d 44.7 9.5 0.00021 18.6 0.4 10 124-133 1-10 (28)
170 PF07649 C1_3: C1-like domain; 44.4 18 0.0004 17.5 1.5 29 87-115 2-30 (30)
171 PLN02189 cellulose synthase 44.2 27 0.00058 31.6 3.3 49 83-131 32-85 (1040)
172 TIGR01562 FdhE formate dehydro 43.2 5.6 0.00012 30.8 -0.8 43 87-130 186-232 (305)
173 COG3492 Uncharacterized protei 43.2 13 0.00028 23.6 0.9 12 109-120 42-53 (104)
174 KOG2113 Predicted RNA binding 43.1 23 0.00049 27.8 2.4 40 87-131 345-385 (394)
175 PRK01343 zinc-binding protein; 42.4 14 0.00031 21.3 1.0 8 84-91 8-15 (57)
176 PLN02436 cellulose synthase A 42.3 30 0.00064 31.4 3.3 49 83-131 34-87 (1094)
177 KOG2231 Predicted E3 ubiquitin 42.3 19 0.0004 31.0 2.0 44 87-133 2-52 (669)
178 PRK03564 formate dehydrogenase 41.4 13 0.00029 28.8 1.0 44 85-130 187-234 (309)
179 smart00064 FYVE Protein presen 40.9 20 0.00043 20.8 1.5 35 86-120 11-46 (68)
180 KOG0824 Predicted E3 ubiquitin 40.5 7.4 0.00016 30.1 -0.5 44 85-130 105-148 (324)
181 KOG1815 Predicted E3 ubiquitin 40.4 7.5 0.00016 31.5 -0.5 37 85-121 226-267 (444)
182 PF10146 zf-C4H2: Zinc finger- 38.9 22 0.00048 26.4 1.8 21 110-130 196-216 (230)
183 COG3813 Uncharacterized protei 38.5 24 0.00053 21.4 1.6 44 88-133 8-52 (84)
184 PF10083 DUF2321: Uncharacteri 38.3 15 0.00032 25.7 0.7 23 107-132 27-49 (158)
185 cd00730 rubredoxin Rubredoxin; 36.6 37 0.00081 18.9 2.1 39 87-131 3-43 (50)
186 PF06957 COPI_C: Coatomer (COP 36.2 26 0.00056 28.5 1.9 36 88-129 367-403 (422)
187 PF09943 DUF2175: Uncharacteri 35.6 36 0.00077 22.0 2.1 33 86-119 3-35 (101)
188 PF02318 FYVE_2: FYVE-type zin 35.4 21 0.00045 23.4 1.0 46 84-130 53-102 (118)
189 smart00647 IBR In Between Ring 34.4 11 0.00025 21.2 -0.3 19 100-118 39-58 (64)
190 KOG1244 Predicted transcriptio 34.0 8 0.00017 29.6 -1.2 43 88-130 284-330 (336)
191 PF09723 Zn-ribbon_8: Zinc rib 33.5 7.2 0.00016 20.8 -1.1 25 105-130 10-34 (42)
192 COG2835 Uncharacterized conser 33.2 18 0.00038 21.2 0.4 9 124-132 10-18 (60)
193 PF13248 zf-ribbon_3: zinc-rib 32.5 7.3 0.00016 18.5 -1.1 9 123-131 17-25 (26)
194 PRK11595 DNA utilization prote 32.1 43 0.00093 24.5 2.4 37 87-131 7-43 (227)
195 KOG4451 Uncharacterized conser 31.6 31 0.00067 25.8 1.5 21 110-130 251-271 (286)
196 KOG0883 Cyclophilin type, U bo 31.2 40 0.00088 27.3 2.2 49 77-128 32-80 (518)
197 PF09297 zf-NADH-PPase: NADH p 31.2 6 0.00013 19.7 -1.6 24 108-131 3-30 (32)
198 PF06677 Auto_anti-p27: Sjogre 30.9 37 0.0008 18.1 1.4 15 118-132 13-27 (41)
199 smart00531 TFIIE Transcription 30.5 52 0.0011 22.4 2.5 11 123-133 124-134 (147)
200 COG4647 AcxC Acetone carboxyla 30.1 32 0.0007 23.4 1.3 15 99-113 68-82 (165)
201 PF10013 DUF2256: Uncharacteri 29.7 33 0.00071 18.5 1.0 15 82-96 5-19 (42)
202 KOG4218 Nuclear hormone recept 29.6 27 0.00058 27.8 1.0 9 122-130 67-75 (475)
203 PLN02638 cellulose synthase A 29.3 71 0.0015 29.2 3.6 51 81-131 13-68 (1079)
204 KOG1729 FYVE finger containing 29.2 8.7 0.00019 29.5 -1.7 34 88-121 217-250 (288)
205 PF04710 Pellino: Pellino; In 28.9 19 0.0004 29.0 0.0 30 103-132 362-400 (416)
206 KOG4021 Mitochondrial ribosoma 28.7 30 0.00064 25.2 1.0 21 112-132 97-118 (239)
207 KOG2041 WD40 repeat protein [G 28.4 29 0.00063 30.5 1.0 24 106-133 1162-1185(1189)
208 KOG3726 Uncharacterized conser 28.4 31 0.00068 29.7 1.2 39 88-129 657-696 (717)
209 PF09237 GAGA: GAGA factor; I 28.3 20 0.00043 20.3 0.0 8 124-131 26-33 (54)
210 PF07227 DUF1423: Protein of u 28.2 44 0.00095 27.3 2.0 31 88-119 131-165 (446)
211 KOG4577 Transcription factor L 28.1 14 0.0003 28.6 -0.8 29 87-116 94-122 (383)
212 PF00159 Hormone_3: Pancreatic 27.6 82 0.0018 16.4 2.3 17 2-18 10-26 (36)
213 PLN02915 cellulose synthase A 26.4 83 0.0018 28.7 3.5 49 83-131 13-66 (1044)
214 TIGR00686 phnA alkylphosphonat 26.0 39 0.00085 22.1 1.1 24 87-110 4-29 (109)
215 PRK11827 hypothetical protein; 25.9 22 0.00047 20.8 -0.1 15 118-132 4-18 (60)
216 KOG3842 Adaptor protein Pellin 25.9 46 0.001 26.2 1.7 29 104-132 376-413 (429)
217 smart00726 UIM Ubiquitin-inter 25.5 73 0.0016 15.1 1.8 13 5-17 2-14 (26)
218 PF05191 ADK_lid: Adenylate ki 25.2 21 0.00045 18.4 -0.2 27 105-133 6-32 (36)
219 PF05502 Dynactin_p62: Dynacti 24.7 39 0.00084 27.9 1.2 9 125-133 55-63 (483)
220 KOG4443 Putative transcription 24.6 41 0.0009 28.9 1.3 25 106-130 41-70 (694)
221 COG4306 Uncharacterized protei 24.4 26 0.00057 23.7 0.1 22 108-132 28-49 (160)
222 PRK00420 hypothetical protein; 24.4 17 0.00038 23.9 -0.8 10 87-96 25-34 (112)
223 COG1645 Uncharacterized Zn-fin 23.8 53 0.0012 22.3 1.5 11 87-97 30-40 (131)
224 KOG2071 mRNA cleavage and poly 23.6 36 0.00079 28.7 0.8 33 87-119 515-557 (579)
225 PF09986 DUF2225: Uncharacteri 23.6 19 0.00041 26.3 -0.8 42 86-130 6-56 (214)
226 KOG1512 PHD Zn-finger protein 23.5 35 0.00075 26.4 0.6 29 88-116 317-345 (381)
227 PF08461 HTH_12: Ribonuclease 22.7 86 0.0019 18.3 2.1 18 3-20 29-46 (66)
228 PLN02248 cellulose synthase-li 22.7 64 0.0014 29.6 2.1 27 106-132 150-176 (1135)
229 PF15353 HECA: Headcase protei 22.5 56 0.0012 21.3 1.3 15 105-119 39-53 (107)
230 COG4357 Zinc finger domain con 22.5 67 0.0015 20.7 1.6 26 106-132 65-90 (105)
231 PF08882 Acetone_carb_G: Aceto 22.3 44 0.00095 22.0 0.8 13 100-112 23-35 (112)
232 PLN02400 cellulose synthase 21.9 79 0.0017 28.9 2.5 50 82-131 33-87 (1085)
233 PF14205 Cys_rich_KTR: Cystein 21.5 36 0.00078 19.5 0.3 10 124-133 30-39 (55)
234 PF11682 DUF3279: Protein of u 21.5 54 0.0012 22.2 1.1 10 122-131 110-119 (128)
235 COG1545 Predicted nucleic-acid 20.9 47 0.001 22.5 0.8 18 106-131 35-52 (140)
236 PF09538 FYDLN_acid: Protein o 20.8 44 0.00096 21.8 0.6 26 88-113 12-39 (108)
237 KOG0957 PHD finger protein [Ge 20.6 18 0.00039 30.2 -1.5 45 84-128 543-595 (707)
238 PRK10220 hypothetical protein; 20.3 73 0.0016 20.9 1.5 24 87-110 5-30 (111)
239 PF07282 OrfB_Zn_ribbon: Putat 20.3 1.5E+02 0.0031 17.0 2.8 34 85-118 28-64 (69)
240 PF06467 zf-FCS: MYM-type Zinc 20.1 1.2E+02 0.0026 15.5 2.2 34 84-117 5-42 (43)
No 1
>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=99.62 E-value=1.6e-16 Score=88.39 Aligned_cols=43 Identities=49% Similarity=1.317 Sum_probs=40.0
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCC
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
.|+||++.|..++.++.++|+|.||.+|+.+|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 5999999999888999999999999999999999999999996
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=5.9e-16 Score=118.71 Aligned_cols=46 Identities=46% Similarity=1.205 Sum_probs=43.0
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCC-cccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNEN-CCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~-CP~Cr~~v 132 (134)
.|+||+++|..+++++.|||+|.||..||++||...++ ||+||.++
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence 59999999999999999999999999999999988755 99999875
No 3
>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=99.41 E-value=2.3e-13 Score=83.43 Aligned_cols=45 Identities=40% Similarity=0.982 Sum_probs=35.5
Q ss_pred CCcccccCccccCC----------CceEEecCCccccHHHHHHHhhCCCCcccCC
Q 045064 85 SHKCAICKLEYERG----------DRLITLPCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 85 ~~~C~IC~~~~~~~----------~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
...|+||++.+..+ -.+...+|+|.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 34599999999432 2334457999999999999999999999997
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=6e-13 Score=99.80 Aligned_cols=48 Identities=38% Similarity=0.983 Sum_probs=44.2
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhh-CCCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLR-DNENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~CP~Cr~~v~ 133 (134)
..|+||++.|...++++.+||+|.||..|+.+|+. -+..||+||.+++
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 45999999999999999999999999999999998 5668999999886
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.31 E-value=2e-12 Score=95.35 Aligned_cols=49 Identities=29% Similarity=0.710 Sum_probs=40.0
Q ss_pred CCcccccCccccCCCc-----eEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 85 SHKCAICKLEYERGDR-----LITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~-----~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
...|+||++.+..+.. .+..+|+|.||..||.+|++.+.+||+||.++.
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 4469999999775431 234469999999999999999999999998764
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=3.5e-12 Score=98.02 Aligned_cols=50 Identities=38% Similarity=0.861 Sum_probs=41.6
Q ss_pred CCCcccccCccc-cCC---------CceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 84 PSHKCAICKLEY-ERG---------DRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 84 ~~~~C~IC~~~~-~~~---------~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.+..|.||++++ ..+ ...+++||||.||.+|++-|++++.+||+||.++.
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 445599999994 333 13478999999999999999999999999999865
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.19 E-value=2e-11 Score=69.42 Aligned_cols=45 Identities=33% Similarity=0.882 Sum_probs=37.6
Q ss_pred CcccccCccccCCCceEEecCCcc-ccHHHHHHHhhCCCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHK-YHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
..|.||++.... ++.+||||. ||..|+.+|+.....||+||+++.
T Consensus 3 ~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 359999887554 588899999 999999999999999999999873
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.18 E-value=2.2e-11 Score=65.78 Aligned_cols=39 Identities=38% Similarity=1.026 Sum_probs=32.7
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~C 128 (134)
|+||++.+.+ .++.++|||.||..|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998876 34567899999999999999998899998
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.17 E-value=2.6e-11 Score=86.43 Aligned_cols=47 Identities=26% Similarity=0.681 Sum_probs=38.8
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHhhC----------------CCCcccCCCccc
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD----------------NENCCICREEVV 133 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~v~ 133 (134)
....|+||++.+.++ +.++|||.||..||..|+.. ...||+||.++.
T Consensus 17 ~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 345699999998777 77889999999999999852 246999998764
No 10
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.16 E-value=2.3e-11 Score=66.77 Aligned_cols=38 Identities=29% Similarity=0.872 Sum_probs=30.4
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCC----CCcccC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN----ENCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----~~CP~C 128 (134)
|+||++.|.++ +.++|||.|+..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998 899999999999999999754 359987
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=99.13 E-value=5.4e-11 Score=65.15 Aligned_cols=43 Identities=37% Similarity=1.099 Sum_probs=35.2
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhC-CCCcccCCCcc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRD-NENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~CP~Cr~~v 132 (134)
|+||++.+.. .....+|+|.||..|+..|+.. +..||+|+..+
T Consensus 2 C~iC~~~~~~--~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 2 CPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCcCchhhhC--ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 8999998833 3344459999999999999987 77899999764
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.1e-11 Score=90.08 Aligned_cols=46 Identities=30% Similarity=0.826 Sum_probs=40.5
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
++.+|.+|++....+ ..+||||.||..||..|......||+||..+
T Consensus 238 a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence 345699999988777 7789999999999999999989999999764
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.8e-11 Score=83.46 Aligned_cols=50 Identities=28% Similarity=0.673 Sum_probs=41.2
Q ss_pred CCCCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 83 LPSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.+.++|+|||+.+..... +...|||+||..||...++....||+|++.|.
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 345669999999986522 33579999999999999999999999997663
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=6.2e-11 Score=86.04 Aligned_cols=46 Identities=28% Similarity=0.715 Sum_probs=38.6
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhC---CCCcccCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD---NENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~ 133 (134)
...|.||++.-+++ +...|||.||..||.+|+.. .+.||+||..|.
T Consensus 47 ~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 47 FFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred ceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 44599999998777 77789999999999999974 345899998775
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.05 E-value=1.7e-10 Score=71.97 Aligned_cols=49 Identities=33% Similarity=0.890 Sum_probs=36.5
Q ss_pred CCcccccCccccC--------CC--ceEEecCCccccHHHHHHHhhC---CCCcccCCCccc
Q 045064 85 SHKCAICKLEYER--------GD--RLITLPCGHKYHDECIKTWLRD---NENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~--------~~--~~~~lpC~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~ 133 (134)
+..|.||...|.. ++ .++.-.|+|.||..||.+|+.+ +..||+||++..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 3458888888862 22 2233349999999999999985 357999999864
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.04 E-value=2.4e-10 Score=63.32 Aligned_cols=43 Identities=33% Similarity=0.779 Sum_probs=37.1
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
|+||++.|........++|||.||..|+..+......||+||+
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 8999999955556777889999999999999866778999985
No 17
>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=99.01 E-value=2.6e-10 Score=62.03 Aligned_cols=39 Identities=38% Similarity=1.140 Sum_probs=33.3
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh--CCCCcccC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR--DNENCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~--~~~~CP~C 128 (134)
|+||++.+..+ ...++|+|.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 88999998866 23778999999999999998 45579987
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2.1e-10 Score=93.93 Aligned_cols=49 Identities=37% Similarity=0.954 Sum_probs=42.8
Q ss_pred CCCCcccccCccccCCCc--eEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 83 LPSHKCAICKLEYERGDR--LITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
.....|+||++.+..+.. ..++||+|.||..|+.+|+++..+||+||..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence 345569999999987544 5889999999999999999999999999974
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.97 E-value=7e-10 Score=65.63 Aligned_cols=43 Identities=21% Similarity=0.451 Sum_probs=39.5
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|+||.+.+..+ +.++|||.|+..||.+|+..+..||+|+.++
T Consensus 3 ~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 3 LCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred CCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 599999999887 7789999999999999999888999999876
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.93 E-value=1.1e-09 Score=57.80 Aligned_cols=38 Identities=45% Similarity=1.182 Sum_probs=31.9
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh-CCCCcccC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR-DNENCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~CP~C 128 (134)
|+||++.. .....++|+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78998874 3447789999999999999998 56679987
No 21
>PHA02926 zinc finger-like protein; Provisional
Probab=98.92 E-value=1.1e-09 Score=79.43 Aligned_cols=49 Identities=29% Similarity=0.611 Sum_probs=35.9
Q ss_pred CCcccccCccccCC-----C-ceEEecCCccccHHHHHHHhhCC------CCcccCCCccc
Q 045064 85 SHKCAICKLEYERG-----D-RLITLPCGHKYHDECIKTWLRDN------ENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~-----~-~~~~lpC~H~fh~~Ci~~wl~~~------~~CP~Cr~~v~ 133 (134)
...|+||++....+ . ..+..+|+|.||..||..|.... .+||+||..+.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34699999876432 1 23334699999999999999743 35999998653
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.92 E-value=1e-09 Score=67.11 Aligned_cols=28 Identities=39% Similarity=0.924 Sum_probs=26.5
Q ss_pred CCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 106 CGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
|+|.||.+||.+||.....||++|++..
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 9999999999999999999999998764
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.84 E-value=1.6e-09 Score=85.19 Aligned_cols=43 Identities=30% Similarity=0.782 Sum_probs=38.9
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|+||++.|..+ +.++|+|.||..||..|+.....||+|+..+
T Consensus 28 ~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 28 RCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred CCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 599999999877 6789999999999999999888899999865
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=2e-09 Score=65.32 Aligned_cols=50 Identities=30% Similarity=0.866 Sum_probs=36.0
Q ss_pred CCcccccCccccC--------CCce-EEec-CCccccHHHHHHHhhCC---CCcccCCCcccC
Q 045064 85 SHKCAICKLEYER--------GDRL-ITLP-CGHKYHDECIKTWLRDN---ENCCICREEVVV 134 (134)
Q Consensus 85 ~~~C~IC~~~~~~--------~~~~-~~lp-C~H~fh~~Ci~~wl~~~---~~CP~Cr~~v~~ 134 (134)
...|.||.-.|.. ++.. ..+. |.|.||..||.+|+... ..||+||++..|
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 3358888888862 2222 2222 99999999999999643 459999998654
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=8.9e-09 Score=76.18 Aligned_cols=47 Identities=34% Similarity=0.777 Sum_probs=39.1
Q ss_pred CCCCcccccCccccCCCceEEecCCccccHHHHHH-HhhCCCC-cccCCCcc
Q 045064 83 LPSHKCAICKLEYERGDRLITLPCGHKYHDECIKT-WLRDNEN-CCICREEV 132 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~-wl~~~~~-CP~Cr~~v 132 (134)
+...+|+||++....+ ..+||||.||..||.. |-++... ||+||+.+
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 3467799998887766 7889999999999999 8776665 99999764
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=2e-08 Score=64.39 Aligned_cols=47 Identities=30% Similarity=0.716 Sum_probs=35.6
Q ss_pred cccccCcccc-------------CCCceEEec-CCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 87 KCAICKLEYE-------------RGDRLITLP-CGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~-------------~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.|+||...+- ..+..+... |+|.||..||.+||+++..||+|.++..
T Consensus 48 nCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 48 NCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred hhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 3888866442 222334443 9999999999999999999999988754
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.62 E-value=1.1e-08 Score=78.10 Aligned_cols=43 Identities=28% Similarity=0.725 Sum_probs=40.1
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
+|.||.+.|..+ +.+||+|.||.-||..+|..+..||.|+.++
T Consensus 25 RC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 25 RCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 499999999988 8889999999999999999999999998765
No 28
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.59 E-value=4.9e-08 Score=55.21 Aligned_cols=41 Identities=32% Similarity=0.895 Sum_probs=31.9
Q ss_pred ccccCccccCCCceEEecCC-----ccccHHHHHHHhhC--CCCcccCC
Q 045064 88 CAICKLEYERGDRLITLPCG-----HKYHDECIKTWLRD--NENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~--~~~CP~Cr 129 (134)
|.||+. ...++.....||. |.+|..|+.+|+.. +.+||+|+
T Consensus 2 CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 2 CRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred ccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 889988 3444455678975 89999999999964 44799995
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=2.7e-08 Score=79.49 Aligned_cols=45 Identities=27% Similarity=0.645 Sum_probs=36.6
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCC-----CCcccCCCcc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN-----ENCCICREEV 132 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-----~~CP~Cr~~v 132 (134)
...||||++....+ ..+.|||+||-.||.+++... ..||+|+..|
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 45699998887666 666799999999999998654 4699998765
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.54 E-value=6.8e-08 Score=53.11 Aligned_cols=34 Identities=29% Similarity=0.903 Sum_probs=21.4
Q ss_pred ccccCccccCCC-ceEEecCCccccHHHHHHHhhCC
Q 045064 88 CAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDN 122 (134)
Q Consensus 88 C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~ 122 (134)
|+||.+ |..++ ..+.|+|||.|+..|+.+++..+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 76543 44778999999999999999854
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.52 E-value=4.9e-08 Score=73.38 Aligned_cols=42 Identities=31% Similarity=0.782 Sum_probs=38.7
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
.|-||-..|..+ ...+|||.||.-||..+|..+..||+||.+
T Consensus 27 rC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 27 RCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred Hhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence 499999998887 777899999999999999999999999975
No 32
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=3.5e-08 Score=78.63 Aligned_cols=47 Identities=26% Similarity=0.766 Sum_probs=36.9
Q ss_pred cccccCccccCC---C-----------ceEEecCCccccHHHHHHHhhCCC-CcccCCCccc
Q 045064 87 KCAICKLEYERG---D-----------RLITLPCGHKYHDECIKTWLRDNE-NCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~---~-----------~~~~lpC~H~fh~~Ci~~wl~~~~-~CP~Cr~~v~ 133 (134)
.|+||+.++.-. . .-...||.|.||..|+..|+..-+ .||+||.+++
T Consensus 573 dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 573 DCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 499999987521 1 123458999999999999998555 8999999875
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.48 E-value=4.6e-08 Score=77.08 Aligned_cols=43 Identities=26% Similarity=0.819 Sum_probs=35.8
Q ss_pred cccccCccccCCC-ceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
+|+||++.+.... .++...|.|.||..|+..| ...+||+||..
T Consensus 177 TCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~ 220 (493)
T KOG0804|consen 177 TCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYC 220 (493)
T ss_pred CcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhh
Confidence 5999999998664 3444569999999999999 67899999964
No 34
>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=98.48 E-value=1.2e-07 Score=57.92 Aligned_cols=45 Identities=24% Similarity=0.488 Sum_probs=36.2
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhC-CCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD-NENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~CP~Cr~~v~ 133 (134)
..|+|+.+.+.++ +.+|+||.|...||..|+.. +..||+|+.++.
T Consensus 5 f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 5 FLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred cCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 3599999999988 88999999999999999998 889999987763
No 35
>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=98.46 E-value=1.6e-07 Score=71.49 Aligned_cols=47 Identities=23% Similarity=0.655 Sum_probs=34.5
Q ss_pred CcccccCcc-ccCCC-ceEEecCCccccHHHHHHHhhC-CCCcccCCCcc
Q 045064 86 HKCAICKLE-YERGD-RLITLPCGHKYHDECIKTWLRD-NENCCICREEV 132 (134)
Q Consensus 86 ~~C~IC~~~-~~~~~-~~~~lpC~H~fh~~Ci~~wl~~-~~~CP~Cr~~v 132 (134)
..||+|... |..++ .+...+|||.||.+|+...+.. ...||.|+..+
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~l 53 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPL 53 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence 469999985 33343 2233379999999999997654 55799998765
No 36
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=4.9e-08 Score=72.59 Aligned_cols=49 Identities=29% Similarity=0.775 Sum_probs=39.7
Q ss_pred CCCcccccCccccCCC-------ceEEecCCccccHHHHHHHhh--CCCCcccCCCcc
Q 045064 84 PSHKCAICKLEYERGD-------RLITLPCGHKYHDECIKTWLR--DNENCCICREEV 132 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~-------~~~~lpC~H~fh~~Ci~~wl~--~~~~CP~Cr~~v 132 (134)
.+..|+||-..+.... +.-+|.|+|.||..||..|-- +..+||.|+..|
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 3445999998887554 567788999999999999984 566899998765
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.42 E-value=5e-08 Score=82.79 Aligned_cols=48 Identities=29% Similarity=0.777 Sum_probs=36.0
Q ss_pred cccccCcccc-CCC--ceEEec-CCccccHHHHHHHhhC--CCCcccCCCcccC
Q 045064 87 KCAICKLEYE-RGD--RLITLP-CGHKYHDECIKTWLRD--NENCCICREEVVV 134 (134)
Q Consensus 87 ~C~IC~~~~~-~~~--~~~~lp-C~H~fh~~Ci~~wl~~--~~~CP~Cr~~v~~ 134 (134)
+|+||...+. ... .-.+.| |+|.||..|+.+|++. +++||+||.++++
T Consensus 1471 ECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 4999987765 221 112333 9999999999999985 4579999998874
No 38
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.40 E-value=1.2e-07 Score=74.10 Aligned_cols=97 Identities=28% Similarity=0.551 Sum_probs=65.6
Q ss_pred HHHHHcCCchhhhhhhccCCCCCCCCcccc-cccccccCCCCCCCCHHHHHHHHHHhCccCCCCCHHHHhhCCCCccccc
Q 045064 13 LQEMEDGGTENMFIKETNGISTDANPILQS-IQPMYQDEFYPDNMDYEEITRLEETIGNVSRGLSERKISRLPSHKCAIC 91 (134)
Q Consensus 13 Lq~~e~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC 91 (134)
.|.+.++ +...|+-..+|... |+.+.. .++..++++.+....||-.-+++.... -|.||
T Consensus 316 ~QaL~eG-~keGFYlyPdGr~~--npdLt~l~~~~p~d~i~VtqEQyeLYceMgsTFe-----------------LCKIC 375 (563)
T KOG1785|consen 316 FQALLEG-HKEGFYLYPDGRDQ--NPDLTGLCQPPPQDRIKVTQEQYELYCEMGSTFE-----------------LCKIC 375 (563)
T ss_pred HHHHHhc-cccceEECCCCccC--CCChhhccCCCcccceeeeHHHHHHHHHccchHH-----------------HHHHh
Confidence 4555555 66667666666654 333433 355557778777777766555554332 29999
Q ss_pred CccccCCCceEEecCCccccHHHHHHHhhC--CCCcccCCCcc
Q 045064 92 KLEYERGDRLITLPCGHKYHDECIKTWLRD--NENCCICREEV 132 (134)
Q Consensus 92 ~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~CP~Cr~~v 132 (134)
-+. ...+..-||||..|..|+..|-.. ...||+||.+|
T Consensus 376 aen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 376 AEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred hcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 654 345566799999999999999754 45799999865
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.39 E-value=5.1e-08 Score=59.20 Aligned_cols=49 Identities=22% Similarity=0.644 Sum_probs=23.3
Q ss_pred CcccccCccccCCCce--EEe---cCCccccHHHHHHHhhC---C--------CCcccCCCcccC
Q 045064 86 HKCAICKLEYERGDRL--ITL---PCGHKYHDECIKTWLRD---N--------ENCCICREEVVV 134 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~--~~l---pC~H~fh~~Ci~~wl~~---~--------~~CP~Cr~~v~~ 134 (134)
..|.||...+...... ... .|+..||..|+..||.. . ..||.|+++|.+
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 3599999886633221 222 39999999999999952 1 149999998753
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2.9e-07 Score=68.37 Aligned_cols=41 Identities=29% Similarity=0.809 Sum_probs=36.9
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCC
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
..|+||++.|..+ ..+||+|.||..|+..++.....||.||
T Consensus 14 ~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 14 LTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 3599999999998 7889999999999999988556799998
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=6.3e-07 Score=69.02 Aligned_cols=47 Identities=32% Similarity=0.715 Sum_probs=39.3
Q ss_pred CCCcccccCccccCCCceEEecCCc-cccHHHHHHHhhCCCCcccCCCccc
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGH-KYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
...+|.||+.+..+- ..|||+| -.|..|.+...-+...||+||+++.
T Consensus 289 ~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 455699998776554 8999999 6899999998878889999999763
No 42
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.19 E-value=4.1e-07 Score=68.64 Aligned_cols=37 Identities=24% Similarity=0.666 Sum_probs=33.1
Q ss_pred CCCCcccccCccccCCCceEEecCCccccHHHHHHHh
Q 045064 83 LPSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWL 119 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl 119 (134)
+|.-.|.||+.-|..++...+++|.|.||..|+.++|
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl 149 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYL 149 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHH
Confidence 4555699999999999888889999999999999988
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.15 E-value=3.5e-07 Score=54.03 Aligned_cols=41 Identities=24% Similarity=0.716 Sum_probs=21.8
Q ss_pred cccccCccccCCCceEEe-cCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITL-PCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
+|++|...+..+ +.+ .|.|.||..||..-+. ..||+|+.+.
T Consensus 9 rCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 9 RCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp S-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred CCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 599999998877 444 5999999999988544 4599998765
No 44
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.15 E-value=6.6e-07 Score=75.24 Aligned_cols=124 Identities=17% Similarity=0.303 Sum_probs=77.8
Q ss_pred CchHHHHHHHHHHHHcC--CchhhhhhhccCCCCCCCCccccccccccc-CCCCCCCCHHHHHHHHHHhCccCCCCCHHH
Q 045064 3 DDNDEAIARALQEMEDG--GTENMFIKETNGISTDANPILQSIQPMYQD-EFYPDNMDYEEITRLEETIGNVSRGLSERK 79 (134)
Q Consensus 3 ~~~d~~~~~~Lq~~e~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~e~l~~~~~~~~~~~~~~~~~~ 79 (134)
++.-+.+..+|..++.. ..|..++.-.+.++....+.++++...+-+ .-.....+.+.+....+.+....+.+..-.
T Consensus 753 ~~~~~~v~~vl~~I~~~~~ippl~VL~~Lakn~~ltls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk~~i~e~r~~l~~lr 832 (933)
T KOG2114|consen 753 EDCYEIVYKVLEAIEMQERIPPLHVLQILAKNGTLTLSVIKDYIIKWLNKYSTIIEQDEDAIEVYKKDIEEKRQELETLR 832 (933)
T ss_pred hhHHHHHHHHHHHHHhcccCCHHHHHHHHhcCCceEEehhHHHHHHHHHhhhHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Confidence 45556677788888776 467888888888988888888888777632 222222333333333333322221111111
Q ss_pred H--hhCCCCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 80 I--SRLPSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 80 ~--~~~~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
. .-+...+|..|-..++-| .+...|+|.||.+|+. .+...||.|+-+
T Consensus 833 ~sa~i~q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 833 TSAQIFQVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred cccceeeeeeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 1 112345699997777655 4555699999999998 466789999753
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.2e-06 Score=68.11 Aligned_cols=43 Identities=30% Similarity=0.873 Sum_probs=32.2
Q ss_pred cccccCccccCCCceEEec-CCccccHHHHHHHhhCC---CCcccCC
Q 045064 87 KCAICKLEYERGDRLITLP-CGHKYHDECIKTWLRDN---ENCCICR 129 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~---~~CP~Cr 129 (134)
.|.||.+-+.....+.... |||.||..|+..|+... ..||+|+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 4999944444443444444 99999999999999853 4699998
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=2e-06 Score=64.94 Aligned_cols=46 Identities=28% Similarity=0.610 Sum_probs=37.9
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCCC-CcccCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNE-NCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~-~CP~Cr~~v~ 133 (134)
+..|+||+....-+ +.++|+|.||..||+.-.+..+ .|++||.++.
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 34599997776655 8889999999999998887655 5999999874
No 47
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=7.6e-06 Score=63.28 Aligned_cols=46 Identities=28% Similarity=0.723 Sum_probs=39.0
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
+..|+|| |-.+...+..||+|.-|..||.+.+...+.|-+|+..+.
T Consensus 422 d~lCpIC---yA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 422 DNLCPIC---YAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccCcce---ecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 3349999 555666688899999999999999999999999998763
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=3.2e-06 Score=65.59 Aligned_cols=47 Identities=26% Similarity=0.654 Sum_probs=35.3
Q ss_pred CCcccccCccccCCC-----ceEEecCCccccHHHHHHHh--hC-----CCCcccCCCc
Q 045064 85 SHKCAICKLEYERGD-----RLITLPCGHKYHDECIKTWL--RD-----NENCCICREE 131 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~-----~~~~lpC~H~fh~~Ci~~wl--~~-----~~~CP~Cr~~ 131 (134)
..+|.||++...... ..+..+|.|.||..||..|- .+ .+.||.||..
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 345999999876553 22223499999999999998 34 4679999864
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.92 E-value=1.6e-06 Score=72.62 Aligned_cols=46 Identities=22% Similarity=0.479 Sum_probs=37.1
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|++|+..+.+.......+|+|.||..|+..|-+...+||+||.++
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 3777777776554444556999999999999999999999999754
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=8.2e-06 Score=64.00 Aligned_cols=46 Identities=33% Similarity=0.941 Sum_probs=36.0
Q ss_pred CcccccCccccCCC--ceEEecCCccccHHHHHHHhhC--CCCcccCCCc
Q 045064 86 HKCAICKLEYERGD--RLITLPCGHKYHDECIKTWLRD--NENCCICREE 131 (134)
Q Consensus 86 ~~C~IC~~~~~~~~--~~~~lpC~H~fh~~Ci~~wl~~--~~~CP~Cr~~ 131 (134)
..|+||++.+..+- .++.+.|+|.|...||.+|+.+ .+.||.|..+
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 35999999997543 4455569999999999999953 3369999754
No 51
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=1.4e-06 Score=67.03 Aligned_cols=43 Identities=33% Similarity=0.721 Sum_probs=35.8
Q ss_pred cccccCccccCCCceEEec-CCccccHHHHHHHhh-CCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLP-CGHKYHDECIKTWLR-DNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~-~~~~CP~Cr~~v 132 (134)
.|+||+.-+... +..+ |.|.||..||..-++ .++.||.||+.+
T Consensus 45 ~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 45 ICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred ccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 499999987655 5555 999999999999987 577899999764
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=6.3e-06 Score=68.77 Aligned_cols=43 Identities=26% Similarity=0.822 Sum_probs=34.5
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhh-CCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLR-DNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~CP~Cr~~v 132 (134)
+|++|-..+.+. +...|+|.||..|+.+.+. +...||.|...+
T Consensus 645 kCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 645 KCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred eCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 499997554433 5567999999999999997 567899998764
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.68 E-value=3e-05 Score=45.15 Aligned_cols=40 Identities=25% Similarity=0.633 Sum_probs=27.1
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhC--CCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD--NENCCI 127 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~CP~ 127 (134)
.+|+|.+..|.++ ++...|+|.|-...|..|+.. ...||+
T Consensus 12 ~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4699999999876 333469999999999999944 346998
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=2.4e-05 Score=61.96 Aligned_cols=45 Identities=31% Similarity=0.843 Sum_probs=39.6
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
+.|.||..-+..+ +.+||||.||..||.+-+.....||.||.++.
T Consensus 85 f~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 85 FECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred hhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence 4599999888887 77899999999999998888888999998764
No 55
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.56 E-value=2.6e-05 Score=55.99 Aligned_cols=41 Identities=29% Similarity=0.821 Sum_probs=37.0
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.|.||..+|..+ +...|||.||..|.-.-++....|-+|.+
T Consensus 198 ~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk 238 (259)
T COG5152 198 LCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGK 238 (259)
T ss_pred eehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecch
Confidence 399999999988 77789999999999998888889999965
No 56
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=2.2e-05 Score=44.83 Aligned_cols=44 Identities=25% Similarity=0.505 Sum_probs=32.6
Q ss_pred CcccccCccccCCCceEEecCCc-cccHHHHHHHhh-CCCCcccCCCcc
Q 045064 86 HKCAICKLEYERGDRLITLPCGH-KYHDECIKTWLR-DNENCCICREEV 132 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~-~~~~CP~Cr~~v 132 (134)
.+|.||.+... ..+...||| -.|..|..+.++ .+..||+||.++
T Consensus 8 dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 46999965533 334456999 477889887776 677899999876
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.49 E-value=3e-05 Score=60.70 Aligned_cols=43 Identities=35% Similarity=0.854 Sum_probs=36.2
Q ss_pred ccccCccccCC-CceEEecCCccccHHHHHHHhhCCC--CcccCCC
Q 045064 88 CAICKLEYERG-DRLITLPCGHKYHDECIKTWLRDNE--NCCICRE 130 (134)
Q Consensus 88 C~IC~~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~--~CP~Cr~ 130 (134)
|..|-+.+... +.+..|||.|+||..|+..+|.++. +||.||+
T Consensus 368 Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 368 CGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 99998888643 4667789999999999999998654 6999983
No 58
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=4.3e-05 Score=57.73 Aligned_cols=42 Identities=29% Similarity=0.781 Sum_probs=38.4
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
.|-||...|..+ +...|+|.||..|..+-++....|++|.+.
T Consensus 243 ~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 243 KCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred cccccccccccc---hhhcCCceeehhhhccccccCCcceecccc
Confidence 499999999988 778899999999999999999999999764
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.45 E-value=5.6e-05 Score=59.94 Aligned_cols=45 Identities=27% Similarity=0.749 Sum_probs=38.8
Q ss_pred CcccccCccccCCCceEE-ecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLIT-LPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~-lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
..|++|...+.++ .. ..|||.||..|+..|+..+..||.|+..+.
T Consensus 22 l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 22 LLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred ccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccc
Confidence 4599999999888 44 479999999999999999899999987653
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.44 E-value=3.4e-05 Score=59.06 Aligned_cols=45 Identities=24% Similarity=0.611 Sum_probs=37.0
Q ss_pred CCCcccccCccccCCCceEEec-CCccccHHHHHHHhhCCCCcccCCCc
Q 045064 84 PSHKCAICKLEYERGDRLITLP-CGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
+...|.+|...|.+. .... |-|.||.+||..+|..++.||.|...
T Consensus 14 ~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ 59 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEESKYCPTCDIV 59 (331)
T ss_pred cceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence 344699998888766 3333 99999999999999999999999754
No 61
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.41 E-value=0.00018 Score=54.74 Aligned_cols=42 Identities=36% Similarity=0.793 Sum_probs=34.4
Q ss_pred CcccccCccccCCCceEEec-CCccccHHHHHHHhh-CCCCcccCCC
Q 045064 86 HKCAICKLEYERGDRLITLP-CGHKYHDECIKTWLR-DNENCCICRE 130 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~-~~~~CP~Cr~ 130 (134)
.+|+.|..-+..+ .+.| |+|.||..||...|. ....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 4599998888777 5566 999999999997765 6778999954
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.33 E-value=0.00017 Score=64.44 Aligned_cols=48 Identities=29% Similarity=0.661 Sum_probs=38.8
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCCC----------CcccCCCcc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNE----------NCCICREEV 132 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~----------~CP~Cr~~v 132 (134)
+..|.||+.+--.....++|.|+|.||..|..+.|++.. +||+|+.++
T Consensus 3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 445999987766666778899999999999998886543 599998765
No 63
>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=97.20 E-value=0.00024 Score=48.06 Aligned_cols=38 Identities=24% Similarity=0.624 Sum_probs=30.9
Q ss_pred CCcccccCccccCCCceEEecCC------ccccHHHHHHHhhCC
Q 045064 85 SHKCAICKLEYERGDRLITLPCG------HKYHDECIKTWLRDN 122 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~------H~fh~~Ci~~wl~~~ 122 (134)
..+|.||++.+.....++.++|+ |.||.+|+.+|-...
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 45699999999986677777876 899999999994333
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.15 E-value=0.00028 Score=39.37 Aligned_cols=40 Identities=35% Similarity=0.899 Sum_probs=26.6
Q ss_pred ccccCccccCCCceEEecC--Cc---cccHHHHHHHhh--CCCCcccC
Q 045064 88 CAICKLEYERGDRLITLPC--GH---KYHDECIKTWLR--DNENCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC--~H---~fh~~Ci~~wl~--~~~~CP~C 128 (134)
|-||++...... ....|| .- ..|..|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678988866654 345674 43 789999999997 45679887
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.03 E-value=0.00068 Score=37.93 Aligned_cols=44 Identities=27% Similarity=0.654 Sum_probs=22.8
Q ss_pred ccccCccccCCC-ceEEecCCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 88 CAICKLEYERGD-RLITLPCGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 88 C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
|++|.+++...+ ...--+|+...+..|....++ .+..||.||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 788988884433 233334999999999999886 47889999986
No 66
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00084 Score=50.44 Aligned_cols=46 Identities=28% Similarity=0.475 Sum_probs=34.7
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCC--CCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN--ENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~CP~Cr~~v~ 133 (134)
.+|++|-+.-..| -...+|+|.||..|+..-+... .+||.|..++.
T Consensus 240 ~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 240 TECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3499997775544 2334699999999999887644 68999987654
No 67
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.88 E-value=0.00043 Score=44.65 Aligned_cols=31 Identities=39% Similarity=0.910 Sum_probs=25.4
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHH
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIK 116 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~ 116 (134)
...|++|-..+.. ......||||.||..|+.
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 3459999999887 455677999999999975
No 68
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.82 E-value=0.0012 Score=48.91 Aligned_cols=49 Identities=16% Similarity=0.333 Sum_probs=41.4
Q ss_pred CCCcccccCccccCCCceEEe-cCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 84 PSHKCAICKLEYERGDRLITL-PCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
..+.|++|.+.+.+.-.+..| ||||+|+..|+.+.+.....||+|-.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 344499999999887766666 6999999999999999999999997654
No 69
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.79 E-value=0.00055 Score=39.23 Aligned_cols=43 Identities=26% Similarity=0.606 Sum_probs=31.3
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
..|..|...-.. ...+||+|..+..|..-+ +-+.||+|.+++.
T Consensus 8 ~~~~~~~~~~~~---~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 8 QPCVFCGFVGTK---GTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred eeEEEccccccc---cccccccceeeccccChh--hccCCCCCCCccc
Confidence 346666544333 377899999999998765 5567999988763
No 70
>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=96.69 E-value=0.0024 Score=34.94 Aligned_cols=41 Identities=32% Similarity=0.797 Sum_probs=22.5
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCC--CcccC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNE--NCCIC 128 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~CP~C 128 (134)
|.+|.+....+.....-.|+-.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667777766662221112888999999999998655 69987
No 71
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.00034 Score=52.98 Aligned_cols=39 Identities=36% Similarity=0.717 Sum_probs=29.6
Q ss_pred cccccCccccCCCceEEecCCc-cccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGH-KYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
-|.||++ .+...+.|+||| .-|..|..+. ..||+||+.|
T Consensus 302 LC~ICmD---aP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 302 LCAICMD---APRDCVFLECGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHhc---CCcceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence 3999954 456668999999 4577887664 3799999755
No 72
>PHA02862 5L protein; Provisional
Probab=96.60 E-value=0.0016 Score=44.57 Aligned_cols=43 Identities=23% Similarity=0.674 Sum_probs=31.8
Q ss_pred cccccCccccCCCceEEecCC-----ccccHHHHHHHhhC--CCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCG-----HKYHDECIKTWLRD--NENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~v~ 133 (134)
.|-||...-.+. .-||. ...|..|+.+|+.. +..|++|+.+..
T Consensus 4 iCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 4 ICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred EEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 499998875433 24653 57899999999974 446999998753
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.52 E-value=0.0014 Score=51.72 Aligned_cols=33 Identities=30% Similarity=0.716 Sum_probs=29.9
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR 120 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~ 120 (134)
|.||++...-......+||+|.||..|+..++.
T Consensus 187 C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 187 CCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred ceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 999998877667888999999999999999995
No 74
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.50 E-value=0.00093 Score=54.47 Aligned_cols=45 Identities=29% Similarity=0.702 Sum_probs=35.1
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhC-----CCCcccCCCcccC
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD-----NENCCICREEVVV 134 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-----~~~CP~Cr~~v~~ 134 (134)
.|.+|-+.-++. +...|.|.||..|+..+... +-+||+|...+.|
T Consensus 538 ~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 538 ECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred eecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 499997776555 56679999999999888743 4579999876654
No 75
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0022 Score=47.08 Aligned_cols=46 Identities=26% Similarity=0.684 Sum_probs=37.2
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhC--------CCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD--------NENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--------~~~CP~Cr~~v~ 133 (134)
.|..|-..+..++.+ +|-|-|.||..|+..|-.. ...||.|..+|+
T Consensus 52 NC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 52 NCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 499999998888665 4669999999999999743 235999988764
No 76
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0016 Score=46.13 Aligned_cols=47 Identities=28% Similarity=0.774 Sum_probs=31.2
Q ss_pred ccccCccccCCC----ceEEecCCccccHHHHHHHhhCC-----------CCcccCCCcccC
Q 045064 88 CAICKLEYERGD----RLITLPCGHKYHDECIKTWLRDN-----------ENCCICREEVVV 134 (134)
Q Consensus 88 C~IC~~~~~~~~----~~~~lpC~H~fh~~Ci~~wl~~~-----------~~CP~Cr~~v~~ 134 (134)
|.||.-.--++. ..-...|+..||.-|+..||+.- ..||+|..++.+
T Consensus 168 cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 168 CGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 777754433321 11223499999999999999531 149999988753
No 77
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.45 E-value=0.0012 Score=48.75 Aligned_cols=44 Identities=20% Similarity=0.576 Sum_probs=31.5
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.|..|..--. ++....+.|+|+||..|...- ....||+|++.+-
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccC--Cccccccccceee
Confidence 3777754444 556666779999999998763 2238999998753
No 78
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.27 E-value=0.0019 Score=55.02 Aligned_cols=46 Identities=30% Similarity=0.728 Sum_probs=34.6
Q ss_pred CCcccccCccccCCCceEEe-cCCccccHHHHHHHhhC-------CCCcccCCC
Q 045064 85 SHKCAICKLEYERGDRLITL-PCGHKYHDECIKTWLRD-------NENCCICRE 130 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~-------~~~CP~Cr~ 130 (134)
.+.|.||.+.+.....+-.. .|-|+||..||..|-.. ...||.|+.
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 44699999998766544322 38999999999999854 235999983
No 79
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.23 E-value=0.0046 Score=43.01 Aligned_cols=45 Identities=36% Similarity=0.811 Sum_probs=31.7
Q ss_pred CCcccccCccccCCCceEEecC--Cc---cccHHHHHHHhhC--CCCcccCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPC--GH---KYHDECIKTWLRD--NENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC--~H---~fh~~Ci~~wl~~--~~~CP~Cr~~v~ 133 (134)
...|-||.+.... ...|| .. ..|.+|+.+|+.. ...|++|+++..
T Consensus 8 ~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 8 DKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 3359999877432 23464 44 5699999999975 446999987653
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.06 E-value=0.0073 Score=45.42 Aligned_cols=47 Identities=17% Similarity=0.584 Sum_probs=36.1
Q ss_pred CCcccccCccccCCCceE-EecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 85 SHKCAICKLEYERGDRLI-TLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~-~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.+.|||....|......+ ..||||+|...++...- ....||+|..++
T Consensus 113 ~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f 160 (260)
T PF04641_consen 113 RFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPF 160 (260)
T ss_pred eeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcc
Confidence 345999999996554444 44899999999999983 466799997764
No 81
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.05 E-value=0.0033 Score=47.62 Aligned_cols=43 Identities=30% Similarity=0.620 Sum_probs=36.0
Q ss_pred ccccCccccCCC-ceEEecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 88 CAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 88 C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
|+||.+.+.... .+..++|+|..|..|+......+..||+|.+
T Consensus 161 cPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 161 CPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 999988776544 4456789999999999999888889999987
No 82
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.004 Score=48.45 Aligned_cols=39 Identities=28% Similarity=0.765 Sum_probs=28.4
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|.||++...+ ...+||||.-| |..-. +...+||+||..+
T Consensus 308 cVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 308 CVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred eEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence 9999888665 48889999866 44433 2345599999765
No 83
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.74 E-value=0.0084 Score=45.61 Aligned_cols=45 Identities=33% Similarity=0.790 Sum_probs=35.9
Q ss_pred cccccCccccCCC--c-eEEecCCccccHHHHHHHhhCCC-CcccCCCc
Q 045064 87 KCAICKLEYERGD--R-LITLPCGHKYHDECIKTWLRDNE-NCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~--~-~~~lpC~H~fh~~Ci~~wl~~~~-~CP~Cr~~ 131 (134)
.|-||-++|...+ . .+.|.|||.|+..|+.+.+.... .||.||..
T Consensus 5 ~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 5 ECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred ceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 5999999998763 2 24455999999999999887544 59999986
No 84
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.54 E-value=0.018 Score=32.93 Aligned_cols=32 Identities=34% Similarity=1.032 Sum_probs=27.9
Q ss_pred CcccccCccccCCCceEEec-CCccccHHHHHH
Q 045064 86 HKCAICKLEYERGDRLITLP-CGHKYHDECIKT 117 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~ 117 (134)
..|++|-..|..++.++..| |+-.+|..|..+
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 45999999999888888888 999999999654
No 85
>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=95.50 E-value=0.013 Score=44.46 Aligned_cols=46 Identities=24% Similarity=0.588 Sum_probs=33.1
Q ss_pred cccccCccc-cCCC-ceEEecCCccccHHHHHHHhhC-CCCcccCCCcc
Q 045064 87 KCAICKLEY-ERGD-RLITLPCGHKYHDECIKTWLRD-NENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~-~~~~-~~~~lpC~H~fh~~Ci~~wl~~-~~~CP~Cr~~v 132 (134)
.|++|..+. ..++ ....-+|+|..|.+|+...+.. ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 488887653 3443 2233379999999999999975 45799996543
No 86
>PHA03096 p28-like protein; Provisional
Probab=95.49 E-value=0.008 Score=45.84 Aligned_cols=44 Identities=25% Similarity=0.424 Sum_probs=30.3
Q ss_pred CcccccCccccCCC----ceEEec-CCccccHHHHHHHhhCC---CCcccCC
Q 045064 86 HKCAICKLEYERGD----RLITLP-CGHKYHDECIKTWLRDN---ENCCICR 129 (134)
Q Consensus 86 ~~C~IC~~~~~~~~----~~~~lp-C~H~fh~~Ci~~wl~~~---~~CP~Cr 129 (134)
..|.||++...... .-..|+ |.|.||..|+..|.... .+||.|+
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 45999998766432 223455 99999999999998542 2355544
No 87
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0091 Score=46.04 Aligned_cols=43 Identities=16% Similarity=0.406 Sum_probs=34.6
Q ss_pred cccccCccccCCCceEEec-CCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLP-CGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|++|+..-.++ ..+. -|-+||..|+.+++...+.||+=..+.
T Consensus 302 ~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 302 VCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred cChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 499998887665 2333 689999999999999999999966554
No 88
>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=95.40 E-value=0.0067 Score=33.69 Aligned_cols=29 Identities=24% Similarity=0.616 Sum_probs=22.3
Q ss_pred cC-CccccHHHHHHHhhCCCCcccCCCccc
Q 045064 105 PC-GHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 105 pC-~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.| .|..|..|+...+..+..||+|+.+++
T Consensus 17 ~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 45 599999999999999999999999876
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.19 E-value=0.015 Score=45.36 Aligned_cols=42 Identities=31% Similarity=0.700 Sum_probs=33.3
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHH--hhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTW--LRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~w--l~~~~~CP~Cr~~ 131 (134)
.|.||-..+.- ...+||+|..|-.|..+. |...+.||+||.+
T Consensus 63 ~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 63 NCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred eeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 39999776543 377899999999998764 4578899999975
No 90
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.17 E-value=0.00087 Score=52.62 Aligned_cols=46 Identities=28% Similarity=0.662 Sum_probs=39.4
Q ss_pred ccccCccccCC-CceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 88 CAICKLEYERG-DRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 88 C~IC~~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
|+||...+... +++..+-|||.+|..|+.+|+.....||.|+.+++
T Consensus 199 l~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 199 LSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred hHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 99998888765 55566679999999999999999888999988764
No 91
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.0056 Score=42.80 Aligned_cols=26 Identities=42% Similarity=0.917 Sum_probs=24.2
Q ss_pred cccccCccccCCCceEEecCCccccH
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHD 112 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~ 112 (134)
+|.||++++..++.+.+|||-.+||+
T Consensus 179 ECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 179 ECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cEEEEhhhccCCCceeccceEEEeec
Confidence 39999999999999999999999985
No 92
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.90 E-value=0.026 Score=44.56 Aligned_cols=42 Identities=19% Similarity=0.520 Sum_probs=36.6
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCC---CcccCC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNE---NCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~---~CP~Cr 129 (134)
|||=.+.-.+.+..+.|.|||+....-+.+..+... .||+|=
T Consensus 337 CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 337 CPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred cccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 999888888888889999999999999999887544 699994
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.78 E-value=0.021 Score=41.68 Aligned_cols=38 Identities=34% Similarity=0.698 Sum_probs=27.5
Q ss_pred ccccCccccCCCceEEecCCc-cccHHHHHHHhhCCCCcccCCCcc
Q 045064 88 CAICKLEYERGDRLITLPCGH-KYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|-.| .+.+..+..+||.| .+|..|-.. -..||+|+...
T Consensus 161 Cr~C---~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKC---GEREATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceec---CcCCceEEeecccceEeccccccc----CccCCCCcChh
Confidence 7777 44455678889998 677788654 35599998653
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.73 E-value=0.013 Score=44.94 Aligned_cols=41 Identities=24% Similarity=0.664 Sum_probs=28.7
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|.-|-..+. ...+.+||+|.||.+|... ...+.||.|-..|
T Consensus 93 Cd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 93 CDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred ecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 777733322 2235568999999999875 3577899997654
No 95
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.28 E-value=0.019 Score=48.62 Aligned_cols=43 Identities=33% Similarity=0.767 Sum_probs=34.1
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCC--CCcccCCCcc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN--ENCCICREEV 132 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~CP~Cr~~v 132 (134)
..|.+|++ .+.....+|+|.||..|+...+... ..||+||..+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 56999988 3455777899999999999988753 3599998643
No 96
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.17 E-value=0.034 Score=37.62 Aligned_cols=49 Identities=20% Similarity=0.421 Sum_probs=35.1
Q ss_pred CCCcccccCccccCCCceEEec-CCccccHHHHHHHhhC---CCCcccCCCcc
Q 045064 84 PSHKCAICKLEYERGDRLITLP-CGHKYHDECIKTWLRD---NENCCICREEV 132 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~---~~~CP~Cr~~v 132 (134)
+.++|.||.+.-.+...+.--- ||-..|..|-...++. ...||+|++.+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 5667999998876663322111 9999999988877764 45799998754
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.88 E-value=0.031 Score=48.17 Aligned_cols=35 Identities=26% Similarity=0.729 Sum_probs=27.4
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHh
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWL 119 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl 119 (134)
|...|.+|...+... .-...||||.||..|+.+..
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 455599998887765 33456899999999998876
No 98
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=93.69 E-value=0.043 Score=43.13 Aligned_cols=27 Identities=26% Similarity=0.755 Sum_probs=21.4
Q ss_pred CCccccHHHHHHHhhCC-------------CCcccCCCcc
Q 045064 106 CGHKYHDECIKTWLRDN-------------ENCCICREEV 132 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~-------------~~CP~Cr~~v 132 (134)
|...+|.+|+.+|+-.. ..||+||+.+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 77888999999999432 2599999864
No 99
>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=93.51 E-value=0.1 Score=36.41 Aligned_cols=31 Identities=23% Similarity=0.584 Sum_probs=20.2
Q ss_pred CcccccCccccCCCceEEec------------CCc-cccHHHHHHHh
Q 045064 86 HKCAICKLEYERGDRLITLP------------CGH-KYHDECIKTWL 119 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lp------------C~H-~fh~~Ci~~wl 119 (134)
..|+||++...+. +.|- |+. .-|..|++++-
T Consensus 3 ~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 3 VTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred ccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence 4699998775433 3332 433 34778999987
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.42 E-value=0.02 Score=51.10 Aligned_cols=42 Identities=29% Similarity=0.587 Sum_probs=35.3
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.|.||++.+..- .....|+|.+|..|...|+..+..||+|+.
T Consensus 1155 ~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1155 VCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred chHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 499999988732 144569999999999999999999999973
No 101
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.24 E-value=0.058 Score=43.43 Aligned_cols=33 Identities=33% Similarity=0.767 Sum_probs=29.3
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhC
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD 121 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 121 (134)
.+|+||..-|+++ +.|||+|..|..|....+.+
T Consensus 5 lkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 5 LKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 4699999999998 99999999999999987754
No 102
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.95 E-value=0.055 Score=42.18 Aligned_cols=45 Identities=24% Similarity=0.600 Sum_probs=33.3
Q ss_pred cccccCccccCCCc-eEEecCCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 87 KCAICKLEYERGDR-LITLPCGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
.|+.|++.+.-.++ ..-.|||-..|.-|.....+ -+..||.||..
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 39999999875553 34457998888888776554 36789999864
No 103
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.78 E-value=0.085 Score=40.57 Aligned_cols=44 Identities=18% Similarity=0.386 Sum_probs=32.1
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
...||||.+.+..+ +.+.+=||..|..|-.+ ....||.||.++.
T Consensus 48 lleCPvC~~~l~~P--i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP--IFQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hccCchhhccCccc--ceecCCCcEehhhhhhh---hcccCCccccccc
Confidence 33599999998876 22223379999999764 4678999998763
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.75 E-value=0.059 Score=41.18 Aligned_cols=27 Identities=19% Similarity=0.613 Sum_probs=21.9
Q ss_pred CCccccHHHHHHHhh-------------CCCCcccCCCcc
Q 045064 106 CGHKYHDECIKTWLR-------------DNENCCICREEV 132 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~-------------~~~~CP~Cr~~v 132 (134)
|...+|.+|+.+|+. ++.+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 788999999999983 234699999865
No 105
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.16 E-value=0.048 Score=40.83 Aligned_cols=47 Identities=26% Similarity=0.632 Sum_probs=31.5
Q ss_pred cccccCccccCCCce-EEecC-----CccccHHHHHHHhhCC--------CCcccCCCccc
Q 045064 87 KCAICKLEYERGDRL-ITLPC-----GHKYHDECIKTWLRDN--------ENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~-~~lpC-----~H~fh~~Ci~~wl~~~--------~~CP~Cr~~v~ 133 (134)
-|-||+..-++.... -.-|| .|..|..|+..|+..+ -+||-|+++..
T Consensus 22 ~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 22 CCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred eEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 399997765544222 11254 3899999999999421 14999988654
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.88 E-value=0.046 Score=45.84 Aligned_cols=39 Identities=26% Similarity=0.611 Sum_probs=29.4
Q ss_pred ccccCccccCCCce-EEecCCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLEYERGDRL-ITLPCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~-~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|.||+..|...... +.+-|||..|..|+... .+.+|| |+
T Consensus 14 c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~ 53 (861)
T KOG3161|consen 14 CDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TK 53 (861)
T ss_pred chHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CC
Confidence 99999888765433 34459999999999986 456777 54
No 107
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.53 E-value=0.11 Score=44.62 Aligned_cols=54 Identities=15% Similarity=0.193 Sum_probs=38.0
Q ss_pred HHHhhCCCCcccccCccccCCC-ceEEec---CCccccHHHHHHHhhC------CCCcccCCCc
Q 045064 78 RKISRLPSHKCAICKLEYERGD-RLITLP---CGHKYHDECIKTWLRD------NENCCICREE 131 (134)
Q Consensus 78 ~~~~~~~~~~C~IC~~~~~~~~-~~~~lp---C~H~fh~~Ci~~wl~~------~~~CP~Cr~~ 131 (134)
...+.++...|.+|...+..+. ....+| |+|.||..||..|..+ .-.|++|..-
T Consensus 89 ~DeK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 89 VDEKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred cCcccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence 3455566667889988887633 233445 9999999999999853 2347888653
No 108
>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=90.37 E-value=0.18 Score=37.61 Aligned_cols=43 Identities=23% Similarity=0.701 Sum_probs=31.8
Q ss_pred cccccCccc-cCCC-ceEEec-CCccccHHHHHHHhhC-CCCcc--cCC
Q 045064 87 KCAICKLEY-ERGD-RLITLP-CGHKYHDECIKTWLRD-NENCC--ICR 129 (134)
Q Consensus 87 ~C~IC~~~~-~~~~-~~~~lp-C~H~fh~~Ci~~wl~~-~~~CP--~Cr 129 (134)
+||+|..+- -.|+ .+..-| |-|..|.+|+.+.|.. ...|| -|.
T Consensus 12 ~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 12 RCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred cCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 599998764 3443 334446 9999999999999975 45799 564
No 109
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.36 E-value=0.17 Score=43.35 Aligned_cols=25 Identities=32% Similarity=0.809 Sum_probs=22.3
Q ss_pred EecCCccccHHHHHHHhhCCCCccc
Q 045064 103 TLPCGHKYHDECIKTWLRDNENCCI 127 (134)
Q Consensus 103 ~lpC~H~fh~~Ci~~wl~~~~~CP~ 127 (134)
...|+|..|.+|...|+.....||.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhcCCcCCC
Confidence 3459999999999999999999986
No 110
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.22 E-value=0.12 Score=41.12 Aligned_cols=38 Identities=29% Similarity=0.809 Sum_probs=27.1
Q ss_pred CCCcccccCccccCCC-ceEEecCCccccHHHHHHHhhC
Q 045064 84 PSHKCAICKLEYERGD-RLITLPCGHKYHDECIKTWLRD 121 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~ 121 (134)
+...|.||.......+ ......|+|.||..|+.+.++.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 4556999995544332 2234569999999999999863
No 111
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.96 E-value=0.098 Score=44.24 Aligned_cols=43 Identities=21% Similarity=0.726 Sum_probs=35.2
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCC---CCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN---ENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~---~~CP~Cr~~v 132 (134)
+|+||+..+..+ ..+.|.|.|+..|+..-|... ..||+|+..+
T Consensus 23 Ec~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 23 ECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred cCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 599999999888 667899999999988777543 3699998543
No 112
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=88.85 E-value=0.44 Score=26.69 Aligned_cols=42 Identities=17% Similarity=0.385 Sum_probs=16.5
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhh-----CCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLR-----DNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-----~~~~CP~Cr~~ 131 (134)
.|++....+..+ ++...|.|.-+-+ +..|+. ....||+|+++
T Consensus 4 ~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 488887776654 3334599974321 223332 23369999864
No 113
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=88.62 E-value=0.41 Score=40.96 Aligned_cols=22 Identities=36% Similarity=0.886 Sum_probs=20.6
Q ss_pred CCccccHHHHHHHhhCCCCccc
Q 045064 106 CGHKYHDECIKTWLRDNENCCI 127 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~ 127 (134)
|+|.-|.+|+.+|+..++.||.
T Consensus 799 C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 799 CGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred ccccccHHHHHHHHhcCCCCcc
Confidence 9999999999999999888876
No 114
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.51 E-value=0.32 Score=42.11 Aligned_cols=46 Identities=37% Similarity=0.811 Sum_probs=33.3
Q ss_pred cccccCccccCCCceEEecCC-----ccccHHHHHHHhhCC--CCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCG-----HKYHDECIKTWLRDN--ENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~--~~CP~Cr~~v~ 133 (134)
.|.||..+-..++.+ .-||+ ...|.+|+..|+..+ +.|-+|+.++.
T Consensus 14 ~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 14 SCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred hceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 499998876554433 23654 368999999999754 45999987653
No 115
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.36 E-value=0.23 Score=37.73 Aligned_cols=46 Identities=33% Similarity=0.791 Sum_probs=33.2
Q ss_pred CcccccCccccCCCc-eEEecCC-----ccccHHHHHHHhh--CCCCcccCCCc
Q 045064 86 HKCAICKLEYERGDR-LITLPCG-----HKYHDECIKTWLR--DNENCCICREE 131 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~-~~~lpC~-----H~fh~~Ci~~wl~--~~~~CP~Cr~~ 131 (134)
..|-||......... ....||. ...|..|+..|+. .+..|.+|...
T Consensus 79 ~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 79 PICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 459999887654322 3455754 5779999999997 45679999764
No 116
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.98 E-value=0.49 Score=37.66 Aligned_cols=71 Identities=23% Similarity=0.457 Sum_probs=43.3
Q ss_pred CCCCCCHHHHHHHHHHhCccCCCCCHHHHhh--CCCCcccccCccccCCCceE--EecCCccccHHHHHHHhhCCCCccc
Q 045064 52 YPDNMDYEEITRLEETIGNVSRGLSERKISR--LPSHKCAICKLEYERGDRLI--TLPCGHKYHDECIKTWLRDNENCCI 127 (134)
Q Consensus 52 ~~~~~~~e~l~~~~~~~~~~~~~~~~~~~~~--~~~~~C~IC~~~~~~~~~~~--~lpC~H~fh~~Ci~~wl~~~~~CP~ 127 (134)
+-..++.++...+.. ....+....+. .....|+.|.-.++-..... ...|+|.||..|...|...+..|.-
T Consensus 276 wh~~~sC~eykk~~~-----~~~~d~~~~~~la~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~ 350 (384)
T KOG1812|consen 276 WHANLSCEEYKKLNP-----EEYVDDITLKYLAKRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYE 350 (384)
T ss_pred CCCCCCHHHHHHhCC-----cccccHHHHHHHHHhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccC
Confidence 334477877777664 11122222111 23445999987766544333 3349999999999999877776644
No 117
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=86.92 E-value=0.56 Score=26.52 Aligned_cols=42 Identities=21% Similarity=0.481 Sum_probs=22.1
Q ss_pred ccccCccccCCC------ceEEec-CCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLEYERGD------RLITLP-CGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~------~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|.-|+..|.... ....-| |++.|+.+|=...-+.-..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 555666666542 223344 999999999765545555799884
No 118
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.95 E-value=0.33 Score=40.51 Aligned_cols=21 Identities=24% Similarity=0.808 Sum_probs=17.1
Q ss_pred cCCccccHHHHHHHhhCCCCcccC
Q 045064 105 PCGHKYHDECIKTWLRDNENCCIC 128 (134)
Q Consensus 105 pC~H~fh~~Ci~~wl~~~~~CP~C 128 (134)
-|++.||..|+.. .+.-||.|
T Consensus 536 ~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 536 TCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHhc---cCCCCCch
Confidence 4999999999665 45559999
No 119
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.05 E-value=0.56 Score=37.94 Aligned_cols=35 Identities=31% Similarity=0.791 Sum_probs=28.5
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhC
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD 121 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 121 (134)
...|.||...+.. ....+.|+|.|+..|+..++.+
T Consensus 70 ~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 70 DVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred cccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3469999888765 4566789999999999999854
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=81.94 E-value=0.77 Score=33.59 Aligned_cols=39 Identities=33% Similarity=0.841 Sum_probs=31.8
Q ss_pred ccccCccccCCCceEEe-cCCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLEYERGDRLITL-PCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|.+|..-.-.+ ++. .|+-.+|..|+..++.....||-|.
T Consensus 184 Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 184 CNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 99997766554 333 4888999999999999988999994
No 121
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.98 E-value=1.4 Score=34.24 Aligned_cols=42 Identities=21% Similarity=0.475 Sum_probs=32.4
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCC---CCcccCC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDN---ENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~---~~CP~Cr 129 (134)
||+=.+.-.+.+....|.|||+.-..-+...-+.. ..||+|-
T Consensus 339 CPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 339 CPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 98877766666667788899999999998876543 3599993
No 122
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.00 E-value=1.1 Score=38.58 Aligned_cols=41 Identities=32% Similarity=0.671 Sum_probs=30.0
Q ss_pred cccccCccccCC----CceEEecCCccccHHHHHHHhhCCCCcccC
Q 045064 87 KCAICKLEYERG----DRLITLPCGHKYHDECIKTWLRDNENCCIC 128 (134)
Q Consensus 87 ~C~IC~~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~C 128 (134)
.|.-|....... ..++.+-|+|.||..|+..-..+++ |-.|
T Consensus 786 rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 786 RCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 499998776532 3566778999999999988776655 5444
No 124
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=75.91 E-value=2 Score=31.15 Aligned_cols=36 Identities=28% Similarity=0.924 Sum_probs=24.0
Q ss_pred ccccCcc-----ccCCCceEEec-CCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLE-----YERGDRLITLP-CGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~-----~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|-+|-.. |+. +.+...+ |+..||..|..+ ..||-|.
T Consensus 155 Ce~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 155 CEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 7777542 222 2344444 999999999662 6799994
No 125
>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=74.33 E-value=1.3 Score=24.28 Aligned_cols=42 Identities=29% Similarity=0.668 Sum_probs=26.9
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh------CCCCcccCC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR------DNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~------~~~~CP~Cr 129 (134)
|.||.........+.--.|+..||..|+..-.. ....||.|+
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 788888433333333334999999999876543 134587774
No 126
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=73.89 E-value=1.7 Score=32.87 Aligned_cols=45 Identities=27% Similarity=0.530 Sum_probs=31.9
Q ss_pred cccccCccccCCCc-eEEec---CCccccHHHHHHHhhC---------CCCcccCCCc
Q 045064 87 KCAICKLEYERGDR-LITLP---CGHKYHDECIKTWLRD---------NENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~-~~~lp---C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~ 131 (134)
.|-+|...+.+.+. ....| |+-.+|..|+...+.. ...||.|++.
T Consensus 184 ~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 184 ECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 49999999854443 33333 9999999999995432 2359999864
No 127
>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=73.53 E-value=3.8 Score=20.50 Aligned_cols=36 Identities=28% Similarity=0.700 Sum_probs=22.1
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|..|...+........ .=+..||..| ..|..|+..+
T Consensus 2 C~~C~~~i~~~~~~~~-~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLR-ALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEE-eCCccccccC--------CCCcccCCcC
Confidence 7778777665422222 2467788776 4477777665
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=73.53 E-value=2.8 Score=32.62 Aligned_cols=46 Identities=28% Similarity=0.612 Sum_probs=32.9
Q ss_pred cccccCccccCCC-ceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|+||-+.....+ ...-.||++..|..|...-...+..||.||++.
T Consensus 251 s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 251 SCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 3999988764332 233345888877778777777888999999754
No 129
>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=73.28 E-value=2.3 Score=25.32 Aligned_cols=12 Identities=25% Similarity=1.019 Sum_probs=8.7
Q ss_pred cccHHHHHHHhh
Q 045064 109 KYHDECIKTWLR 120 (134)
Q Consensus 109 ~fh~~Ci~~wl~ 120 (134)
.||..|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999984
No 130
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.90 E-value=4.7 Score=26.58 Aligned_cols=44 Identities=14% Similarity=0.257 Sum_probs=32.6
Q ss_pred cccccCccccCCC----------ceEEec-CCccccHHHHHHHhhCCCCcccCCC
Q 045064 87 KCAICKLEYERGD----------RLITLP-CGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 87 ~C~IC~~~~~~~~----------~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.|.-|...|..+. ..-.-+ |++.|+.+|=..+-+.-..||.|..
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 4999999886431 111233 9999999999988877778999963
No 131
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.29 E-value=2.9 Score=31.48 Aligned_cols=30 Identities=17% Similarity=0.361 Sum_probs=27.5
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR 120 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~ 120 (134)
|..|+..+.++ +..|=||.|+..||..++.
T Consensus 46 CsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 46 CSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred eeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 99999999988 8889999999999999874
No 132
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.26 E-value=4.1 Score=30.72 Aligned_cols=43 Identities=19% Similarity=0.414 Sum_probs=31.8
Q ss_pred ccccCccccCCC-ceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 88 CAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 88 C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|+|---.|...- .+...+|||.|-..-+.+. ..++|++|...+
T Consensus 114 CPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y 157 (293)
T KOG3113|consen 114 CPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAY 157 (293)
T ss_pred cccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcc
Confidence 888766665443 3445579999999888876 578899997643
No 133
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=71.35 E-value=2.7 Score=21.87 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=9.2
Q ss_pred cccccCccccCCC
Q 045064 87 KCAICKLEYERGD 99 (134)
Q Consensus 87 ~C~IC~~~~~~~~ 99 (134)
.|+-|...|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 4888888777554
No 134
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.96 E-value=2.9 Score=34.79 Aligned_cols=39 Identities=36% Similarity=0.845 Sum_probs=31.2
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|.+|.... ..+..+|. |..|+..|+.....||.|...+
T Consensus 481 ~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 481 VCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred cchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 399998877 33455677 8999999999999999997643
No 135
>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=69.08 E-value=11 Score=21.66 Aligned_cols=45 Identities=22% Similarity=0.486 Sum_probs=29.7
Q ss_pred cccccCccccCCC-ceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 87 KCAICKLEYERGD-RLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.|-.|-.++.... ...+..=...||..|....| +..||-|..+++
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 3777777766554 22222212369999999976 688999987654
No 136
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=68.71 E-value=4.7 Score=31.51 Aligned_cols=44 Identities=20% Similarity=0.376 Sum_probs=29.6
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
|-.|..........+.-.|++.||.+|-...-+.-..||.|...
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 77775554443333333499999999977665556679999743
No 137
>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=68.54 E-value=2.6 Score=20.32 Aligned_cols=9 Identities=44% Similarity=0.877 Sum_probs=4.5
Q ss_pred CcccCCCcc
Q 045064 124 NCCICREEV 132 (134)
Q Consensus 124 ~CP~Cr~~v 132 (134)
+||-|++.|
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355555444
No 138
>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=67.05 E-value=2.4 Score=23.89 Aligned_cols=9 Identities=22% Similarity=0.800 Sum_probs=4.9
Q ss_pred CcccCCCcc
Q 045064 124 NCCICREEV 132 (134)
Q Consensus 124 ~CP~Cr~~v 132 (134)
.||+|..++
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 799998765
No 139
>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=66.34 E-value=8.3 Score=24.35 Aligned_cols=38 Identities=21% Similarity=0.420 Sum_probs=28.2
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
|...|+-|...+.--+.+. +-.|+..+..|..|+++++
T Consensus 32 ~rS~C~~C~~~L~~~~lIP------------i~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIP------------ILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CCCcCcCCCCcCcccccch------------HHHHHHhCCCCcccCCCCC
Confidence 3445988877766554443 5678889999999998875
No 140
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=65.89 E-value=0.85 Score=25.74 Aligned_cols=11 Identities=18% Similarity=0.724 Sum_probs=7.3
Q ss_pred CcccccCcccc
Q 045064 86 HKCAICKLEYE 96 (134)
Q Consensus 86 ~~C~IC~~~~~ 96 (134)
+.||.|-..+.
T Consensus 3 f~CP~C~~~~~ 13 (54)
T PF05605_consen 3 FTCPYCGKGFS 13 (54)
T ss_pred cCCCCCCCccC
Confidence 45888876544
No 141
>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=65.51 E-value=0.33 Score=29.28 Aligned_cols=39 Identities=26% Similarity=0.543 Sum_probs=20.0
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.||.|...+... =++.+|..|-.. +.....||-|..++.
T Consensus 3 ~CP~C~~~L~~~-------~~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 3 TCPKCQQELEWQ-------GGHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp B-SSS-SBEEEE-------TTEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred cCCCCCCccEEe-------CCEEECcccccc-ceecccCCCcccHHH
Confidence 488887665433 256666666554 345567999987764
No 142
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=63.17 E-value=5.9 Score=24.34 Aligned_cols=33 Identities=24% Similarity=0.465 Sum_probs=20.0
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHH
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKT 117 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~ 117 (134)
...|.+|............-.|...||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 345999975522111111123899999999876
No 143
>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=63.06 E-value=0.86 Score=34.72 Aligned_cols=43 Identities=14% Similarity=0.209 Sum_probs=19.9
Q ss_pred CCcccccCccccCCCceEEec-----CCccccHHHHHHHhhCCCCcccCCC
Q 045064 85 SHKCAICKLEYERGDRLITLP-----CGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lp-----C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
...||||-....-. .... =.+.+|.-|-..|......||.|-.
T Consensus 172 ~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 34599996553211 1111 1467888899999888889999954
No 144
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.50 E-value=4.5 Score=31.10 Aligned_cols=37 Identities=19% Similarity=0.442 Sum_probs=28.5
Q ss_pred CCcccccCccccCCCceEEec--CCccccHHHHHHHhhCC
Q 045064 85 SHKCAICKLEYERGDRLITLP--CGHKYHDECIKTWLRDN 122 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lp--C~H~fh~~Ci~~wl~~~ 122 (134)
...|.+|.+.+++...+ ..| =.|.||-.|-...++..
T Consensus 268 pLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhh
Confidence 34599999999876444 344 47999999999998754
No 145
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=62.23 E-value=1.2 Score=20.80 Aligned_cols=9 Identities=22% Similarity=0.504 Sum_probs=4.4
Q ss_pred CCcccCCCc
Q 045064 123 ENCCICREE 131 (134)
Q Consensus 123 ~~CP~Cr~~ 131 (134)
+.||.|.++
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 345555443
No 146
>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=61.46 E-value=7.5 Score=21.55 Aligned_cols=9 Identities=44% Similarity=1.017 Sum_probs=4.5
Q ss_pred CCccccHHH
Q 045064 106 CGHKYHDEC 114 (134)
Q Consensus 106 C~H~fh~~C 114 (134)
-+..||..|
T Consensus 18 ~~~~~H~~C 26 (58)
T PF00412_consen 18 MGKFWHPEC 26 (58)
T ss_dssp TTEEEETTT
T ss_pred CCcEEEccc
Confidence 445555544
No 147
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=61.41 E-value=5.3 Score=22.48 Aligned_cols=22 Identities=27% Similarity=0.750 Sum_probs=12.7
Q ss_pred CCccccHHHHHHHhhCCCCcccC
Q 045064 106 CGHKYHDECIKTWLRDNENCCIC 128 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~C 128 (134)
|+|.|-..=-.+- .....||.|
T Consensus 34 Cgh~w~~~v~~R~-~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVNDRT-RRGKGCPYC 55 (55)
T ss_pred CCCeeEccHhhhc-cCCCCCCCC
Confidence 6666554333322 456679988
No 148
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=60.47 E-value=6.5 Score=25.21 Aligned_cols=31 Identities=26% Similarity=0.618 Sum_probs=20.3
Q ss_pred CcccccCccccCCCceEEe--cCCccccHHHHHHH
Q 045064 86 HKCAICKLEYERGDRLITL--PCGHKYHDECIKTW 118 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~l--pC~H~fh~~Ci~~w 118 (134)
..|.||... .+..+.-. .|...||..|....
T Consensus 56 ~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 56 LKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 459999776 22122212 28889999998764
No 149
>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=57.34 E-value=9.5 Score=21.21 Aligned_cols=35 Identities=17% Similarity=0.436 Sum_probs=23.9
Q ss_pred CcccccCccccCCCceEEe-cCCccccHHHHHHHhh
Q 045064 86 HKCAICKLEYERGDRLITL-PCGHKYHDECIKTWLR 120 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~ 120 (134)
..|.+|-..|..-..-... .||+.|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3588898777653222222 3999999999887654
No 150
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=57.14 E-value=5.6 Score=20.03 Aligned_cols=10 Identities=20% Similarity=0.478 Sum_probs=7.0
Q ss_pred CCCCcccCCC
Q 045064 121 DNENCCICRE 130 (134)
Q Consensus 121 ~~~~CP~Cr~ 130 (134)
....||+|..
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4457999865
No 151
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=55.22 E-value=6.6 Score=29.35 Aligned_cols=41 Identities=22% Similarity=0.287 Sum_probs=30.0
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhh--CCCCccc
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLR--DNENCCI 127 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~--~~~~CP~ 127 (134)
..+|+|-+..+.-+ +....|+|.|-.+-|...+. ....||.
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 34599988876655 22234999999999999987 3455775
No 152
>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=54.89 E-value=4.7 Score=23.59 Aligned_cols=34 Identities=21% Similarity=0.456 Sum_probs=16.6
Q ss_pred CcccccCccccCCCceEEe-cCCccccHHHHHHHh
Q 045064 86 HKCAICKLEYERGDRLITL-PCGHKYHDECIKTWL 119 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~l-pC~H~fh~~Ci~~wl 119 (134)
..|.+|...|.--..-..- .||+.|+..|.....
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3599999999643222222 399999999987554
No 153
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=53.87 E-value=9.3 Score=28.56 Aligned_cols=26 Identities=15% Similarity=0.468 Sum_probs=19.8
Q ss_pred CcccccCccccCCCceEEecCCcccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYH 111 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh 111 (134)
..||+|...+.........+.+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 35999999997666656667789883
No 154
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=53.81 E-value=7.7 Score=29.26 Aligned_cols=40 Identities=28% Similarity=0.474 Sum_probs=29.8
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHhhCCC--Cccc
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNE--NCCI 127 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~CP~ 127 (134)
.+|||-...+..+ ++.-.|+|.|-.+-|...+.... .||+
T Consensus 177 ~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 3588887777765 23335999999999999987643 4887
No 155
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=52.44 E-value=18 Score=23.15 Aligned_cols=36 Identities=22% Similarity=0.383 Sum_probs=28.7
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHhh
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLR 120 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~ 120 (134)
...+|.||-..+..++.....+ .-..|.+|+.+-..
T Consensus 5 kewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 3457999999999988777777 66789999987653
No 156
>PF14353 CpXC: CpXC protein
Probab=52.39 E-value=20 Score=23.66 Aligned_cols=44 Identities=18% Similarity=0.250 Sum_probs=22.4
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhC---CCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD---NENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~CP~Cr~~v~ 133 (134)
+||-|...+...- ...-.-.....=..+.+.. ..+||-|...+.
T Consensus 3 tCP~C~~~~~~~v---~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 3 TCPHCGHEFEFEV---WTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred CCCCCCCeeEEEE---EeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 5888877766442 1112222333444444432 235888876543
No 157
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=52.12 E-value=16 Score=22.53 Aligned_cols=49 Identities=18% Similarity=0.405 Sum_probs=19.2
Q ss_pred CCCCcccccCccccCC---Cc-eEEecCCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 83 LPSHKCAICKLEYERG---DR-LITLPCGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~~---~~-~~~lpC~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
+....|.||-++.... +. +...-|+--.|..|..-=.+ .++.||-|++.
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTR 60 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCC
Confidence 4445699998876532 22 22223777888888875444 56789999865
No 158
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=52.11 E-value=14 Score=16.14 Aligned_cols=13 Identities=46% Similarity=0.616 Sum_probs=9.2
Q ss_pred CchHHHHHHHHHH
Q 045064 3 DDNDEAIARALQE 15 (134)
Q Consensus 3 ~~~d~~~~~~Lq~ 15 (134)
+++|+.++++|+.
T Consensus 1 ~~Ed~~L~~Al~~ 13 (18)
T PF02809_consen 1 MDEDEDLQRALEM 13 (18)
T ss_dssp SHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHh
Confidence 3567778888764
No 159
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=51.22 E-value=7.8 Score=22.54 Aligned_cols=11 Identities=18% Similarity=0.754 Sum_probs=8.2
Q ss_pred CCCcccCCCcc
Q 045064 122 NENCCICREEV 132 (134)
Q Consensus 122 ~~~CP~Cr~~v 132 (134)
...||+|+.+.
T Consensus 39 ~p~CPlC~s~M 49 (59)
T PF14169_consen 39 EPVCPLCKSPM 49 (59)
T ss_pred CccCCCcCCcc
Confidence 34699998764
No 160
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=50.93 E-value=7.7 Score=33.40 Aligned_cols=44 Identities=20% Similarity=0.487 Sum_probs=27.8
Q ss_pred cccccCccccCCC--ceEEe-----cCCccccHHHHHHHh----------hCCCCcccCCC
Q 045064 87 KCAICKLEYERGD--RLITL-----PCGHKYHDECIKTWL----------RDNENCCICRE 130 (134)
Q Consensus 87 ~C~IC~~~~~~~~--~~~~l-----pC~H~fh~~Ci~~wl----------~~~~~CP~Cr~ 130 (134)
.|.||-+.=++.. ....| .|+..||..|....- ...+.|.+|+.
T Consensus 119 tCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~ 179 (900)
T KOG0956|consen 119 TCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKY 179 (900)
T ss_pred eeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHH
Confidence 3999977633222 11222 288999999988643 22346999964
No 161
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=50.77 E-value=12 Score=23.71 Aligned_cols=34 Identities=32% Similarity=0.816 Sum_probs=24.5
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.|.||...... =+|.||..|..+ ...|.+|-..|
T Consensus 46 ~C~~CK~~v~q--------~g~~YCq~CAYk----kGiCamCGKki 79 (90)
T PF10235_consen 46 KCKICKTKVHQ--------PGAKYCQTCAYK----KGICAMCGKKI 79 (90)
T ss_pred ccccccccccc--------CCCccChhhhcc----cCcccccCCee
Confidence 59999655433 367799999653 56899997765
No 162
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=49.67 E-value=5.8 Score=36.85 Aligned_cols=44 Identities=25% Similarity=0.581 Sum_probs=34.8
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhC----CCCcccCCCc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRD----NENCCICREE 131 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~----~~~CP~Cr~~ 131 (134)
|.+|.........+...-|.-.||..|+.+-+.. ...||-|+..
T Consensus 1111 c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1111 CKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred hhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 9999988777655555559999999999998864 3469999864
No 163
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=49.25 E-value=9.4 Score=19.69 Aligned_cols=13 Identities=38% Similarity=0.920 Sum_probs=9.0
Q ss_pred cccccCccccCCC
Q 045064 87 KCAICKLEYERGD 99 (134)
Q Consensus 87 ~C~IC~~~~~~~~ 99 (134)
.|+-|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 4888888776544
No 164
>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=48.47 E-value=15 Score=24.25 Aligned_cols=17 Identities=24% Similarity=0.612 Sum_probs=11.6
Q ss_pred HhhCCCCcccCCCcccC
Q 045064 118 WLRDNENCCICREEVVV 134 (134)
Q Consensus 118 wl~~~~~CP~Cr~~v~~ 134 (134)
.+.+...|+.|++++++
T Consensus 81 mLGr~D~CM~C~~pLTL 97 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLTL 97 (114)
T ss_pred hhchhhccCcCCCcCcc
Confidence 34445579999988753
No 165
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.11 E-value=3.2 Score=28.32 Aligned_cols=48 Identities=21% Similarity=0.415 Sum_probs=25.2
Q ss_pred CCcccccCcccc-CCCceEEecCCccccHHHHHHHhhC-CC---CcccCCCcc
Q 045064 85 SHKCAICKLEYE-RGDRLITLPCGHKYHDECIKTWLRD-NE---NCCICREEV 132 (134)
Q Consensus 85 ~~~C~IC~~~~~-~~~~~~~lpC~H~fh~~Ci~~wl~~-~~---~CP~Cr~~v 132 (134)
...|.||...-. ++-.-...-|.-.||..|..+.-.+ ++ .|.+|+...
T Consensus 65 datC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 65 DATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred CcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 345999976533 2211111125555666666554333 33 488887643
No 166
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=47.41 E-value=26 Score=29.96 Aligned_cols=39 Identities=18% Similarity=0.521 Sum_probs=22.6
Q ss_pred ccccCccccCCCceEEecCCccccH--HHHHHHhh--C-----CCCcccCCCccc
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHD--ECIKTWLR--D-----NENCCICREEVV 133 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~--~Ci~~wl~--~-----~~~CP~Cr~~v~ 133 (134)
|+|+... ..+||++..|. .|.+.-+. . ...||+|.+...
T Consensus 309 CPl~~~R-------m~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 309 CPLSKMR-------MSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred CCcccce-------eecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc
Confidence 8888555 44555555544 56654431 1 225999987543
No 167
>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=47.34 E-value=15 Score=23.77 Aligned_cols=24 Identities=25% Similarity=0.605 Sum_probs=18.6
Q ss_pred CccccHHHHHHHhhC---------CCCcccCCC
Q 045064 107 GHKYHDECIKTWLRD---------NENCCICRE 130 (134)
Q Consensus 107 ~H~fh~~Ci~~wl~~---------~~~CP~Cr~ 130 (134)
.-.||..||..++.. +..||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 778999999888742 345999974
No 168
>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=47.30 E-value=8.9 Score=18.30 Aligned_cols=9 Identities=44% Similarity=1.032 Sum_probs=5.5
Q ss_pred CcccCCCcc
Q 045064 124 NCCICREEV 132 (134)
Q Consensus 124 ~CP~Cr~~v 132 (134)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 477776543
No 169
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=44.69 E-value=9.5 Score=18.56 Aligned_cols=10 Identities=30% Similarity=0.969 Sum_probs=4.5
Q ss_pred CcccCCCccc
Q 045064 124 NCCICREEVV 133 (134)
Q Consensus 124 ~CP~Cr~~v~ 133 (134)
.||+|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 3888877653
No 170
>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=44.39 E-value=18 Score=17.52 Aligned_cols=29 Identities=24% Similarity=0.571 Sum_probs=8.9
Q ss_pred cccccCccccCCCceEEecCCccccHHHH
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECI 115 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci 115 (134)
.|.+|.........-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 37778766554212222348888888875
No 171
>PLN02189 cellulose synthase
Probab=44.16 E-value=27 Score=31.57 Aligned_cols=49 Identities=29% Similarity=0.592 Sum_probs=32.3
Q ss_pred CCCCcccccCccccC---CCceEEec-CCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 83 LPSHKCAICKLEYER---GDRLITLP-CGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~---~~~~~~lp-C~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
+....|.||-++... ++.-+... |+--.|..|..-=.+ .++.||-|++.
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~ 85 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTR 85 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 344469999998753 33333333 777799999854332 46679999874
No 172
>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=43.20 E-value=5.6 Score=30.81 Aligned_cols=43 Identities=16% Similarity=0.284 Sum_probs=26.6
Q ss_pred cccccCccccCCCceEE----ecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 87 KCAICKLEYERGDRLIT----LPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~----lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.||||-..-... .+.. -.=.+.+|.-|-..|-.....||.|..
T Consensus 186 ~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 186 LCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred cCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 599996653211 0000 002355667788889878888999964
No 173
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.17 E-value=13 Score=23.65 Aligned_cols=12 Identities=25% Similarity=1.030 Sum_probs=10.4
Q ss_pred cccHHHHHHHhh
Q 045064 109 KYHDECIKTWLR 120 (134)
Q Consensus 109 ~fh~~Ci~~wl~ 120 (134)
.||..|+..|+.
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 489999999985
No 174
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=43.14 E-value=23 Score=27.78 Aligned_cols=40 Identities=8% Similarity=-0.041 Sum_probs=27.7
Q ss_pred cccccCccccCCCceEEecCCc-cccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGH-KYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
+|-.|-...... ...+|+| .|+.+|.. +....+||+|...
T Consensus 345 ~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 345 KGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred ccccccCceeee---EeecCCcccChhhhhh--cccCCcccccccc
Confidence 377774443333 5567998 67888887 5567889999754
No 175
>PRK01343 zinc-binding protein; Provisional
Probab=42.38 E-value=14 Score=21.32 Aligned_cols=8 Identities=38% Similarity=1.236 Sum_probs=3.5
Q ss_pred CCCccccc
Q 045064 84 PSHKCAIC 91 (134)
Q Consensus 84 ~~~~C~IC 91 (134)
+...|+||
T Consensus 8 p~~~CP~C 15 (57)
T PRK01343 8 PTRPCPEC 15 (57)
T ss_pred CCCcCCCC
Confidence 33344444
No 176
>PLN02436 cellulose synthase A
Probab=42.29 E-value=30 Score=31.44 Aligned_cols=49 Identities=27% Similarity=0.602 Sum_probs=32.5
Q ss_pred CCCCcccccCcccc---CCCceEEec-CCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 83 LPSHKCAICKLEYE---RGDRLITLP-CGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 83 ~~~~~C~IC~~~~~---~~~~~~~lp-C~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
+....|.||-++.. +++.-+... |+--.|..|..-=.+ .+..||-|++.
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~ 87 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTR 87 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 34446999998864 333333333 777799999854333 36679999874
No 177
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.26 E-value=19 Score=30.97 Aligned_cols=44 Identities=30% Similarity=0.667 Sum_probs=31.0
Q ss_pred cccccCccccCCCceEEecCCc-cccHHHHHHHhh--C----CCCcccCCCccc
Q 045064 87 KCAICKLEYERGDRLITLPCGH-KYHDECIKTWLR--D----NENCCICREEVV 133 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H-~fh~~Ci~~wl~--~----~~~CP~Cr~~v~ 133 (134)
.|+||-..+.- ...-.|+| ..+..|..+... . ...||+|+.++.
T Consensus 2 ~c~ic~~s~~~---~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDF---VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccc---cccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 38999666443 35556999 999999988764 2 335799987653
No 178
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=41.39 E-value=13 Score=28.81 Aligned_cols=44 Identities=14% Similarity=0.371 Sum_probs=28.0
Q ss_pred CCcccccCccccCCCceEEe--c--CCccccHHHHHHHhhCCCCcccCCC
Q 045064 85 SHKCAICKLEYERGDRLITL--P--CGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~l--p--C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
...||+|-..-... ++.+ . =.+.+|.-|-..|-.....||.|..
T Consensus 187 ~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 34599996653211 1111 1 2356677788889888888999964
No 179
>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 KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.50 E-value=7.4 Score=30.09 Aligned_cols=44 Identities=25% Similarity=0.487 Sum_probs=34.0
Q ss_pred CCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCC
Q 045064 85 SHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
...|-+|...+..+... -.|.|.|+..|...|....+.||.|+.
T Consensus 105 ~~~~~~~~g~l~vpt~~--qg~w~qf~~~~p~~~~~~~~~~~d~~~ 148 (324)
T KOG0824|consen 105 HDICYICYGKLTVPTRI--QGCWHQFCYVCPKSNFAMGNDCPDCRG 148 (324)
T ss_pred ccceeeeeeeEEecccc--cCceeeeeecCCchhhhhhhccchhhc
Confidence 33488888777655222 139999999999999999999999875
No 181
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.40 E-value=7.5 Score=31.51 Aligned_cols=37 Identities=19% Similarity=0.516 Sum_probs=27.0
Q ss_pred CCcccccCccccCCCceE-----EecCCccccHHHHHHHhhC
Q 045064 85 SHKCAICKLEYERGDRLI-----TLPCGHKYHDECIKTWLRD 121 (134)
Q Consensus 85 ~~~C~IC~~~~~~~~~~~-----~lpC~H~fh~~Ci~~wl~~ 121 (134)
...||.|....+...... ..+|+|.||..|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 344999998887665221 1249999999999888755
No 182
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=38.93 E-value=22 Score=26.41 Aligned_cols=21 Identities=19% Similarity=0.536 Sum_probs=15.1
Q ss_pred ccHHHHHHHhhCCCCcccCCC
Q 045064 110 YHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 110 fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
-|.+|-...-..-..||+|+.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~ 216 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKA 216 (230)
T ss_pred hhHhHHHHHhcCCCCCccccc
Confidence 355676666556778999975
No 183
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.51 E-value=24 Score=21.42 Aligned_cols=44 Identities=18% Similarity=0.425 Sum_probs=26.1
Q ss_pred ccccCccccCCCc-eEEecCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 88 CAICKLEYERGDR-LITLPCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 88 C~IC~~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
|--|-.++-.... ..+..=.+.||..|...-| +..||-|..+++
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv 52 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELV 52 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhh
Confidence 5555444433321 1222224779999998654 678999976553
No 184
>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=38.26 E-value=15 Score=25.68 Aligned_cols=23 Identities=17% Similarity=0.498 Sum_probs=15.3
Q ss_pred CccccHHHHHHHhhCCCCcccCCCcc
Q 045064 107 GHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 107 ~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
.+.||..|-.+-+ ..||-|..+|
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~I 49 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPI 49 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCC
Confidence 4567777777654 3577777654
No 185
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=36.56 E-value=37 Score=18.90 Aligned_cols=39 Identities=28% Similarity=0.648 Sum_probs=19.9
Q ss_pred cccccCccccCCC--ceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGD--RLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~--~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
.|.+|-..|.... ....++=|-.|-. |-....||+|...
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~------Lp~~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFED------LPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhH------CCCCCCCCCCCCc
Confidence 5888877776431 1112223332221 3345679998653
No 186
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=36.25 E-value=26 Score=28.47 Aligned_cols=36 Identities=36% Similarity=0.775 Sum_probs=20.5
Q ss_pred ccccCccccCCCceEEec-CCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLEYERGDRLITLP-CGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|+.=+..+-.+...+..| |+-.||... +.+.||+|.
T Consensus 367 Ca~s~tPIY~G~~~v~CP~cgA~y~~~~------kG~lC~vC~ 403 (422)
T PF06957_consen 367 CAASYTPIYRGSPSVKCPYCGAKYHPEY------KGQLCPVCE 403 (422)
T ss_dssp BTTT--EEETTS-EEE-TTT--EEEGGG------TTSB-TTTT
T ss_pred eecccccccCCCCCeeCCCCCCccChhh------CCCCCCCCc
Confidence 555555555666677778 999888744 567899996
No 187
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=35.58 E-value=36 Score=22.04 Aligned_cols=33 Identities=24% Similarity=0.366 Sum_probs=24.6
Q ss_pred CcccccCccccCCCceEEecCCccccHHHHHHHh
Q 045064 86 HKCAICKLEYERGDRLITLPCGHKYHDECIKTWL 119 (134)
Q Consensus 86 ~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl 119 (134)
.+|.||-.++..++....++ +-..|..|+..-.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~-kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTK-KGPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEec-CCcEeHHHHHHHH
Confidence 46999999998886554443 3568999988754
No 188
>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=35.35 E-value=21 Score=23.45 Aligned_cols=46 Identities=17% Similarity=0.487 Sum_probs=27.1
Q ss_pred CCCcccccCccccC--CCceEEecCCccccHHHHHHHhhCCC--CcccCCC
Q 045064 84 PSHKCAICKLEYER--GDRLITLPCGHKYHDECIKTWLRDNE--NCCICRE 130 (134)
Q Consensus 84 ~~~~C~IC~~~~~~--~~~~~~lpC~H~fh~~Ci~~wl~~~~--~CP~Cr~ 130 (134)
....|.+|...|.. +.......|+|.+|..|-.. ..... .|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 44569999887642 22334445999999999765 11111 4877753
No 189
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=34.35 E-value=11 Score=21.18 Aligned_cols=19 Identities=26% Similarity=0.726 Sum_probs=14.9
Q ss_pred ceEEe-cCCccccHHHHHHH
Q 045064 100 RLITL-PCGHKYHDECIKTW 118 (134)
Q Consensus 100 ~~~~l-pC~H~fh~~Ci~~w 118 (134)
..+.. .|++.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34555 48999999998888
No 190
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=33.98 E-value=8 Score=29.58 Aligned_cols=43 Identities=26% Similarity=0.585 Sum_probs=28.9
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhh----CCCCcccCCC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLR----DNENCCICRE 130 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~----~~~~CP~Cr~ 130 (134)
|.||-..-.+.+.+..=.|...||..|+.+=+. .+.+|-+|-.
T Consensus 284 csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 284 CSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred eccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 788866644433333334999999999998774 3457888843
No 191
>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=33.46 E-value=7.2 Score=20.78 Aligned_cols=25 Identities=24% Similarity=0.436 Sum_probs=12.6
Q ss_pred cCCccccHHHHHHHhhCCCCcccCCC
Q 045064 105 PCGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 105 pC~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 36666654211000 12346999987
No 192
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=33.20 E-value=18 Score=21.15 Aligned_cols=9 Identities=22% Similarity=0.958 Sum_probs=6.4
Q ss_pred CcccCCCcc
Q 045064 124 NCCICREEV 132 (134)
Q Consensus 124 ~CP~Cr~~v 132 (134)
.||+||.++
T Consensus 10 aCP~~kg~L 18 (60)
T COG2835 10 ACPVCKGPL 18 (60)
T ss_pred eccCcCCcc
Confidence 478887765
No 193
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.51 E-value=7.3 Score=18.48 Aligned_cols=9 Identities=22% Similarity=0.571 Sum_probs=4.2
Q ss_pred CCcccCCCc
Q 045064 123 ENCCICREE 131 (134)
Q Consensus 123 ~~CP~Cr~~ 131 (134)
+.||.|-++
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 345555443
No 194
>PRK11595 DNA utilization protein GntX; Provisional
Probab=32.13 E-value=43 Score=24.47 Aligned_cols=37 Identities=14% Similarity=0.318 Sum_probs=18.9
Q ss_pred cccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccCCCc
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
.|.+|-..+... ....|..|...|-.....||.|..+
T Consensus 7 ~C~~C~~~~~~~--------~~~lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 7 LCWLCRMPLALS--------HWGICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred cCccCCCccCCC--------CCcccHHHHhhCCcccCcCccCCCc
Confidence 488886554322 1124566665543223456666543
No 195
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=31.61 E-value=31 Score=25.79 Aligned_cols=21 Identities=19% Similarity=0.471 Sum_probs=14.8
Q ss_pred ccHHHHHHHhhCCCCcccCCC
Q 045064 110 YHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 110 fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.|.+|-...-.....||+|+.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKa 271 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKA 271 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhh
Confidence 455666666566778999975
No 196
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=31.25 E-value=40 Score=27.27 Aligned_cols=49 Identities=22% Similarity=0.463 Sum_probs=40.4
Q ss_pred HHHHhhCCCCcccccCccccCCCceEEecCCccccHHHHHHHhhCCCCcccC
Q 045064 77 ERKISRLPSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRDNENCCIC 128 (134)
Q Consensus 77 ~~~~~~~~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~C 128 (134)
...++++|-.-|.+-+-.|+.+ +.+.=|.+|-..-|.+||+...+-|+=
T Consensus 32 ~~~FkrLP~~hC~lt~~Pfe~P---vC~~dg~vFd~~~Ivp~lkk~g~nP~t 80 (518)
T KOG0883|consen 32 RTQFKRLPFNHCSLTMLPFEDP---VCTVDGTVFDLTAIVPWLKKHGTNPIT 80 (518)
T ss_pred ccccccCChhhceeccccccCc---ccccCCcEEeeehhhHHHHHcCCCCCC
Confidence 5667788888899999999888 666678899999999999887765554
No 197
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=31.16 E-value=6 Score=19.68 Aligned_cols=24 Identities=21% Similarity=0.479 Sum_probs=8.8
Q ss_pred ccccHHHHHHHhhC----CCCcccCCCc
Q 045064 108 HKYHDECIKTWLRD----NENCCICREE 131 (134)
Q Consensus 108 H~fh~~Ci~~wl~~----~~~CP~Cr~~ 131 (134)
|.||..|-.+.... ...||.|...
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred CcccCcCCccccCCCCcCEeECCCCcCE
Confidence 44555554443321 2246666543
No 198
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=30.87 E-value=37 Score=18.12 Aligned_cols=15 Identities=27% Similarity=0.678 Sum_probs=7.8
Q ss_pred HhhCCCCcccCCCcc
Q 045064 118 WLRDNENCCICREEV 132 (134)
Q Consensus 118 wl~~~~~CP~Cr~~v 132 (134)
|---...||.|..++
T Consensus 13 ~~ML~~~Cp~C~~PL 27 (41)
T PF06677_consen 13 WTMLDEHCPDCGTPL 27 (41)
T ss_pred HhHhcCccCCCCCee
Confidence 433455666665443
No 199
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=30.54 E-value=52 Score=22.39 Aligned_cols=11 Identities=36% Similarity=0.612 Sum_probs=8.4
Q ss_pred CCcccCCCccc
Q 045064 123 ENCCICREEVV 133 (134)
Q Consensus 123 ~~CP~Cr~~v~ 133 (134)
..||.|...+.
T Consensus 124 f~Cp~Cg~~l~ 134 (147)
T smart00531 124 FTCPRCGEELE 134 (147)
T ss_pred EECCCCCCEEE
Confidence 56999987764
No 200
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.14 E-value=32 Score=23.36 Aligned_cols=15 Identities=40% Similarity=0.860 Sum_probs=11.5
Q ss_pred CceEEecCCccccHH
Q 045064 99 DRLITLPCGHKYHDE 113 (134)
Q Consensus 99 ~~~~~lpC~H~fh~~ 113 (134)
..+.+..|||.|+..
T Consensus 68 ~rv~rcecghsf~d~ 82 (165)
T COG4647 68 KRVIRCECGHSFGDY 82 (165)
T ss_pred ccEEEEeccccccCh
Confidence 356777899999963
No 201
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.73 E-value=33 Score=18.53 Aligned_cols=15 Identities=33% Similarity=0.893 Sum_probs=11.2
Q ss_pred hCCCCcccccCcccc
Q 045064 82 RLPSHKCAICKLEYE 96 (134)
Q Consensus 82 ~~~~~~C~IC~~~~~ 96 (134)
.+|...|++|...|.
T Consensus 5 ~lp~K~C~~C~rpf~ 19 (42)
T PF10013_consen 5 NLPSKICPVCGRPFT 19 (42)
T ss_pred cCCCCcCcccCCcch
Confidence 357777999987775
No 202
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=29.61 E-value=27 Score=27.79 Aligned_cols=9 Identities=33% Similarity=0.766 Sum_probs=6.6
Q ss_pred CCCcccCCC
Q 045064 122 NENCCICRE 130 (134)
Q Consensus 122 ~~~CP~Cr~ 130 (134)
.+.||.||.
T Consensus 67 RKRCP~CRF 75 (475)
T KOG4218|consen 67 RKRCPSCRF 75 (475)
T ss_pred hccCCchhH
Confidence 346999985
No 203
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=29.27 E-value=71 Score=29.16 Aligned_cols=51 Identities=18% Similarity=0.449 Sum_probs=32.2
Q ss_pred hhCCCCcccccCccccC---CCceEEe-cCCccccHHHHHHHh-hCCCCcccCCCc
Q 045064 81 SRLPSHKCAICKLEYER---GDRLITL-PCGHKYHDECIKTWL-RDNENCCICREE 131 (134)
Q Consensus 81 ~~~~~~~C~IC~~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl-~~~~~CP~Cr~~ 131 (134)
+.+....|.||-++... ++.-+.. -|+--.|..|..-=. +.+..||-|++.
T Consensus 13 ~~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktr 68 (1079)
T PLN02638 13 KHGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTK 68 (1079)
T ss_pred cccCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 33444569999888753 3322222 377779999984322 246679999864
No 204
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.18 E-value=8.7 Score=29.53 Aligned_cols=34 Identities=32% Similarity=0.624 Sum_probs=23.1
Q ss_pred ccccCccccCCCceEEecCCccccHHHHHHHhhC
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIKTWLRD 121 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 121 (134)
|.+|++.|..+......-|...||..|+..|+..
T Consensus 217 C~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 217 CDICFEELEKGARGDREDSLPVFHGKCYPNWLTT 250 (288)
T ss_pred cHHHHHHHhcccccchhhcccccccccccccccc
Confidence 8888888765433344445557888888888864
No 205
>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=28.93 E-value=19 Score=29.02 Aligned_cols=30 Identities=27% Similarity=0.669 Sum_probs=0.0
Q ss_pred EecCCccccHHHHHHHhhC---------CCCcccCCCcc
Q 045064 103 TLPCGHKYHDECIKTWLRD---------NENCCICREEV 132 (134)
Q Consensus 103 ~lpC~H~fh~~Ci~~wl~~---------~~~CP~Cr~~v 132 (134)
..||||.--.....-|-.. +..||+|-..|
T Consensus 362 F~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 362 FNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp ---------------------------------------
T ss_pred ecccccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 3579999888888888742 23699997654
No 206
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=28.75 E-value=30 Score=25.23 Aligned_cols=21 Identities=38% Similarity=0.724 Sum_probs=12.6
Q ss_pred HHHHHHHhh-CCCCcccCCCcc
Q 045064 112 DECIKTWLR-DNENCCICREEV 132 (134)
Q Consensus 112 ~~Ci~~wl~-~~~~CP~Cr~~v 132 (134)
..||.+--. ...-||+||.+-
T Consensus 97 ktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCCCCCccccce
Confidence 356665433 344589998653
No 207
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=28.39 E-value=29 Score=30.47 Aligned_cols=24 Identities=25% Similarity=0.580 Sum_probs=17.4
Q ss_pred CCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 106 CGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
|.|..|..=|.+ .+.||+|...+.
T Consensus 1162 CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1162 CKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred cccccccccccc----cccCccccChhh
Confidence 888888765543 367999987653
No 208
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.38 E-value=31 Score=29.70 Aligned_cols=39 Identities=26% Similarity=0.467 Sum_probs=25.2
Q ss_pred ccccCccccCC-CceEEecCCccccHHHHHHHhhCCCCcccCC
Q 045064 88 CAICKLEYERG-DRLITLPCGHKYHDECIKTWLRDNENCCICR 129 (134)
Q Consensus 88 C~IC~~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~CP~Cr 129 (134)
|.+|...-... .-...+.|+-.||..|. +.-++.||+|-
T Consensus 657 C~vcq~pedse~~v~rt~~C~~~~C~~c~---~~~~~~~~vC~ 696 (717)
T KOG3726|consen 657 CKVCQLPEDSETDVCRTTFCYTPYCVACS---LDYASISEVCG 696 (717)
T ss_pred HHHhcCCcCccccccCccccCCcchHhhh---hhhhccCcccC
Confidence 88886653322 22334459998888884 44567799984
No 209
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=28.29 E-value=20 Score=20.35 Aligned_cols=8 Identities=38% Similarity=0.895 Sum_probs=3.0
Q ss_pred CcccCCCc
Q 045064 124 NCCICREE 131 (134)
Q Consensus 124 ~CP~Cr~~ 131 (134)
+||+|...
T Consensus 26 tCP~C~a~ 33 (54)
T PF09237_consen 26 TCPICGAV 33 (54)
T ss_dssp E-TTT--E
T ss_pred CCCcchhh
Confidence 47777544
No 210
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=28.15 E-value=44 Score=27.33 Aligned_cols=31 Identities=26% Similarity=0.639 Sum_probs=19.9
Q ss_pred ccccCccccCC-CceEEec---CCccccHHHHHHHh
Q 045064 88 CAICKLEYERG-DRLITLP---CGHKYHDECIKTWL 119 (134)
Q Consensus 88 C~IC~~~~~~~-~~~~~lp---C~H~fh~~Ci~~wl 119 (134)
|.||.. |... +....+. |+|.-|.+|..+-.
T Consensus 131 C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~~ 165 (446)
T PF07227_consen 131 CCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRHE 165 (446)
T ss_pred ccccCC-cccCCCCeeEEeccCCCceehhhhhcccc
Confidence 778855 4332 2222332 99999999987754
No 211
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=28.15 E-value=14 Score=28.58 Aligned_cols=29 Identities=21% Similarity=0.504 Sum_probs=16.7
Q ss_pred cccccCccccCCCceEEecCCccccHHHHH
Q 045064 87 KCAICKLEYERGDRLITLPCGHKYHDECIK 116 (134)
Q Consensus 87 ~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~ 116 (134)
+|..|..-+-.. .+++-.=.|+||..|..
T Consensus 94 KCsaC~~GIpPt-qVVRkAqd~VYHl~CF~ 122 (383)
T KOG4577|consen 94 KCSACQEGIPPT-QVVRKAQDFVYHLHCFA 122 (383)
T ss_pred cchhhcCCCChH-HHHHHhhcceeehhhhh
Confidence 477776554433 22222366888888854
No 212
>PF00159 Hormone_3: Pancreatic hormone peptide; InterPro: IPR001955 Pancreatic hormone (PP) [] is a peptide synthesized in pancreatic islets of Langherhans, which acts as a regulator of pancreatic and gastrointestinal functions. The hormone is produced as a larger propeptide, which is enzymatically cleaved to yield the mature active peptide: this is 36 amino acids in length [] and has an amidated C terminus []. The hormone has a globular structure, residues 2-8 forming a left-handed poly-proline-II-like helix, residues 9-13 a beta turn, and 14-32 an alpha-helix,held close to the first helix by hydrophobic interactions []. Unlike glucagon, another peptide hormone, the structure of pancreatic peptide is preserved in aqueous solution []. Both N and C termini are required for activity: receptor binding and activation functions may reside in the N and C termini respectively []. Pancreatic hormone is part of a wider family of active peptides that includes: Neuropeptide Y (NPY) [], one of the most abundant peptides in the mammalian nervous system. NPY is implicated in the control of feeding and the secretion of the gonadotrophin-releasing hormone. Peptide YY (PYY) []. PPY is a gut peptide that inhibits exocrine pancreatic secretion, has a vasoconstrictory action and inhibits jejunal and colonic mobility. Various NPY and PYY-like polypeptides from fish and amphibians [, ]. Neuropeptide F (NPF) from invertebrates such as worms and snail. Skin peptide Tyr-Tyr (SPYY) from the frog Phyllomedusa bicolor. SPYY shows a large spectra of antibacterial and antifungal activity. All these peptides are 36 to 39 amino acids long. Like most active peptides, their C-terminal is amidated and they are synthesized as larger protein precursors.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1LJV_A 1BBA_A 1V1D_A 1PPT_A 2H3T_A 2H4B_A 2BF9_A 2H3S_B 1K8V_A 2DF0_A ....
Probab=27.60 E-value=82 Score=16.35 Aligned_cols=17 Identities=12% Similarity=0.132 Sum_probs=13.9
Q ss_pred CCchHHHHHHHHHHHHc
Q 045064 2 ADDNDEAIARALQEMED 18 (134)
Q Consensus 2 ~~~~d~~~~~~Lq~~e~ 18 (134)
++.+.|++++.+.++.+
T Consensus 10 ~~aspeel~~Y~~~L~~ 26 (36)
T PF00159_consen 10 DFASPEELAQYYAALRH 26 (36)
T ss_dssp TTSSHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 57788999999988854
No 213
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=26.36 E-value=83 Score=28.66 Aligned_cols=49 Identities=20% Similarity=0.476 Sum_probs=31.6
Q ss_pred CCCCcccccCccccC---CCceEEe-cCCccccHHHHHHHhh-CCCCcccCCCc
Q 045064 83 LPSHKCAICKLEYER---GDRLITL-PCGHKYHDECIKTWLR-DNENCCICREE 131 (134)
Q Consensus 83 ~~~~~C~IC~~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~-~~~~CP~Cr~~ 131 (134)
.+...|.||-++... ++.-+.. -|+--.|..|..-=.+ .++.||-|++.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~ 66 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTR 66 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 344559999888653 2322222 3777799999843322 46679999864
No 214
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=25.99 E-value=39 Score=22.13 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=13.9
Q ss_pred cccccCccccCCCc-eEEec-CCccc
Q 045064 87 KCAICKLEYERGDR-LITLP-CGHKY 110 (134)
Q Consensus 87 ~C~IC~~~~~~~~~-~~~lp-C~H~f 110 (134)
.||-|...|.-.+. ....| |+|-+
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred cCCcCCCcceEecCCeeECccccccc
Confidence 49999888764332 22334 66644
No 215
>PRK11827 hypothetical protein; Provisional
Probab=25.94 E-value=22 Score=20.75 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=8.2
Q ss_pred HhhCCCCcccCCCcc
Q 045064 118 WLRDNENCCICREEV 132 (134)
Q Consensus 118 wl~~~~~CP~Cr~~v 132 (134)
||..--.||+|+.++
T Consensus 4 ~LLeILaCP~ckg~L 18 (60)
T PRK11827 4 RLLEIIACPVCNGKL 18 (60)
T ss_pred HHHhheECCCCCCcC
Confidence 333334577777654
No 216
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=25.93 E-value=46 Score=26.18 Aligned_cols=29 Identities=28% Similarity=0.787 Sum_probs=21.3
Q ss_pred ecCCccccHHHHHHHhhC---------CCCcccCCCcc
Q 045064 104 LPCGHKYHDECIKTWLRD---------NENCCICREEV 132 (134)
Q Consensus 104 lpC~H~fh~~Ci~~wl~~---------~~~CP~Cr~~v 132 (134)
.||||.--..-+.-|-.. +..||+|-..+
T Consensus 376 ~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 376 NPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred CCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 479998888888888743 33699996544
No 217
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=25.51 E-value=73 Score=15.15 Aligned_cols=13 Identities=31% Similarity=0.268 Sum_probs=8.0
Q ss_pred hHHHHHHHHHHHH
Q 045064 5 NDEAIARALQEME 17 (134)
Q Consensus 5 ~d~~~~~~Lq~~e 17 (134)
+|+.|+++|+.-.
T Consensus 2 EDe~Lq~Ai~lSl 14 (26)
T smart00726 2 EDEDLQLALELSL 14 (26)
T ss_pred hHHHHHHHHHHhH
Confidence 5666777766543
No 218
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=25.17 E-value=21 Score=18.44 Aligned_cols=27 Identities=33% Similarity=0.583 Sum_probs=16.1
Q ss_pred cCCccccHHHHHHHhhCCCCcccCCCccc
Q 045064 105 PCGHKYHDECIKTWLRDNENCCICREEVV 133 (134)
Q Consensus 105 pC~H~fh~~Ci~~wl~~~~~CP~Cr~~v~ 133 (134)
.||+.||..-.-+ +....|..|..+|.
T Consensus 6 ~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 6 KCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp TTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCccccccCCC--CCCCccCCCCCeeE
Confidence 3898998532221 23456888877653
No 219
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=24.73 E-value=39 Score=27.90 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=5.7
Q ss_pred cccCCCccc
Q 045064 125 CCICREEVV 133 (134)
Q Consensus 125 CP~Cr~~v~ 133 (134)
||.|...+.
T Consensus 55 CP~C~~~L~ 63 (483)
T PF05502_consen 55 CPICFSPLS 63 (483)
T ss_pred CCCCCCcce
Confidence 777766553
No 220
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=24.65 E-value=41 Score=28.85 Aligned_cols=25 Identities=40% Similarity=1.083 Sum_probs=19.7
Q ss_pred CCccccHHHHHHHhhC-----CCCcccCCC
Q 045064 106 CGHKYHDECIKTWLRD-----NENCCICRE 130 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~-----~~~CP~Cr~ 130 (134)
|+-.||..|+..|+.. ...||-||.
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 8999999999999853 235888863
No 221
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.44 E-value=26 Score=23.67 Aligned_cols=22 Identities=18% Similarity=0.625 Sum_probs=14.3
Q ss_pred ccccHHHHHHHhhCCCCcccCCCcc
Q 045064 108 HKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 108 H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
..||..|-..-+ ..||+|..++
T Consensus 28 eafcskcgeati---~qcp~csasi 49 (160)
T COG4306 28 EAFCSKCGEATI---TQCPICSASI 49 (160)
T ss_pred HHHHhhhchHHH---hcCCccCCcc
Confidence 357777766543 4588887654
No 222
>PRK00420 hypothetical protein; Validated
Probab=24.39 E-value=17 Score=23.92 Aligned_cols=10 Identities=30% Similarity=0.849 Sum_probs=6.7
Q ss_pred cccccCcccc
Q 045064 87 KCAICKLEYE 96 (134)
Q Consensus 87 ~C~IC~~~~~ 96 (134)
.||+|-..+.
T Consensus 25 ~CP~Cg~pLf 34 (112)
T PRK00420 25 HCPVCGLPLF 34 (112)
T ss_pred CCCCCCCcce
Confidence 4999865543
No 223
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=23.80 E-value=53 Score=22.27 Aligned_cols=11 Identities=27% Similarity=0.597 Sum_probs=6.8
Q ss_pred cccccCccccC
Q 045064 87 KCAICKLEYER 97 (134)
Q Consensus 87 ~C~IC~~~~~~ 97 (134)
.|+.|-..+..
T Consensus 30 hCp~Cg~PLF~ 40 (131)
T COG1645 30 HCPKCGTPLFR 40 (131)
T ss_pred hCcccCCccee
Confidence 38888655544
No 224
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.61 E-value=36 Score=28.72 Aligned_cols=33 Identities=27% Similarity=0.650 Sum_probs=22.1
Q ss_pred cccccCccccCC-----C-----ceEEecCCccccHHHHHHHh
Q 045064 87 KCAICKLEYERG-----D-----RLITLPCGHKYHDECIKTWL 119 (134)
Q Consensus 87 ~C~IC~~~~~~~-----~-----~~~~lpC~H~fh~~Ci~~wl 119 (134)
.|+||.+.|+.- + ..+.+.=|-+||..|+..-.
T Consensus 515 ~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 515 SCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred CCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 499999998631 1 12233248899999987643
No 225
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=23.61 E-value=19 Score=26.29 Aligned_cols=42 Identities=14% Similarity=0.411 Sum_probs=23.2
Q ss_pred CcccccCccccCCC----ceEEec-----CCccccHHHHHHHhhCCCCcccCCC
Q 045064 86 HKCAICKLEYERGD----RLITLP-----CGHKYHDECIKTWLRDNENCCICRE 130 (134)
Q Consensus 86 ~~C~IC~~~~~~~~----~~~~lp-----C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (134)
.+||+|-..|.... .++... |.|.-. +.+.+-.-.+||-|..
T Consensus 6 ~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~---vnP~~Y~V~vCP~Cgy 56 (214)
T PF09986_consen 6 ITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKG---VNPLFYEVWVCPHCGY 56 (214)
T ss_pred eECCCCCCeeeeeEEEcCCceEeeecCCCccccCC---CCCeeeeEEECCCCCC
Confidence 35999999987541 111111 443211 4454445557998864
No 226
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.49 E-value=35 Score=26.44 Aligned_cols=29 Identities=24% Similarity=0.496 Sum_probs=19.4
Q ss_pred ccccCccccCCCceEEecCCccccHHHHH
Q 045064 88 CAICKLEYERGDRLITLPCGHKYHDECIK 116 (134)
Q Consensus 88 C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~ 116 (134)
|.||...-.+.+.+..=-|...||.-|+.
T Consensus 317 C~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 317 CRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred hhccCCcccchheeccccccCCCCccccc
Confidence 77887776555444333488888888875
No 227
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=22.75 E-value=86 Score=18.28 Aligned_cols=18 Identities=39% Similarity=0.643 Sum_probs=14.8
Q ss_pred CchHHHHHHHHHHHHcCC
Q 045064 3 DDNDEAIARALQEMEDGG 20 (134)
Q Consensus 3 ~~~d~~~~~~Lq~~e~~~ 20 (134)
+-+.+++++.|..|+..+
T Consensus 29 ~~se~avRrrLr~me~~G 46 (66)
T PF08461_consen 29 ELSEEAVRRRLRAMERDG 46 (66)
T ss_pred hhhHHHHHHHHHHHHHCC
Confidence 345688999999999987
No 228
>PLN02248 cellulose synthase-like protein
Probab=22.66 E-value=64 Score=29.56 Aligned_cols=27 Identities=26% Similarity=0.600 Sum_probs=24.0
Q ss_pred CCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 106 CGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
|+...|.+|..--++....||-|+.+.
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 889999999999998888999998753
No 229
>PF15353 HECA: Headcase protein family homologue
Probab=22.53 E-value=56 Score=21.32 Aligned_cols=15 Identities=40% Similarity=1.039 Sum_probs=12.9
Q ss_pred cCCccccHHHHHHHh
Q 045064 105 PCGHKYHDECIKTWL 119 (134)
Q Consensus 105 pC~H~fh~~Ci~~wl 119 (134)
|.++..|..|...|=
T Consensus 39 p~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 39 PFGQYMHRECFEKWE 53 (107)
T ss_pred CCCCchHHHHHHHHH
Confidence 467899999999995
No 230
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=22.49 E-value=67 Score=20.67 Aligned_cols=26 Identities=15% Similarity=0.225 Sum_probs=15.6
Q ss_pred CCccccHHHHHHHhhCCCCcccCCCcc
Q 045064 106 CGHKYHDECIKTWLRDNENCCICREEV 132 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~Cr~~v 132 (134)
||+--|.--+..+. ...+||.|+.++
T Consensus 65 CGvC~~~LT~~EY~-~~~~Cp~C~spF 90 (105)
T COG4357 65 CGVCRKLLTRAEYG-MCGSCPYCQSPF 90 (105)
T ss_pred hhhhhhhhhHHHHh-hcCCCCCcCCCC
Confidence 66655555555553 234588887754
No 231
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=22.31 E-value=44 Score=22.00 Aligned_cols=13 Identities=31% Similarity=1.007 Sum_probs=10.0
Q ss_pred ceEEecCCccccH
Q 045064 100 RLITLPCGHKYHD 112 (134)
Q Consensus 100 ~~~~lpC~H~fh~ 112 (134)
++++..|||.|+.
T Consensus 23 k~vkc~CGh~f~d 35 (112)
T PF08882_consen 23 KVVKCDCGHEFCD 35 (112)
T ss_pred ceeeccCCCeecC
Confidence 3566679999996
No 232
>PLN02400 cellulose synthase
Probab=21.90 E-value=79 Score=28.92 Aligned_cols=50 Identities=20% Similarity=0.446 Sum_probs=31.4
Q ss_pred hCCCCcccccCccccC---CCceE-EecCCccccHHHHHHHh-hCCCCcccCCCc
Q 045064 82 RLPSHKCAICKLEYER---GDRLI-TLPCGHKYHDECIKTWL-RDNENCCICREE 131 (134)
Q Consensus 82 ~~~~~~C~IC~~~~~~---~~~~~-~lpC~H~fh~~Ci~~wl-~~~~~CP~Cr~~ 131 (134)
.+....|.||-++... ++.-+ .--|+--.|..|..-=. +.+..||-||+.
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTr 87 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTR 87 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCc
Confidence 3344569999888753 33222 22377778999984211 236679999864
No 233
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=21.55 E-value=36 Score=19.46 Aligned_cols=10 Identities=30% Similarity=0.873 Sum_probs=7.3
Q ss_pred CcccCCCccc
Q 045064 124 NCCICREEVV 133 (134)
Q Consensus 124 ~CP~Cr~~v~ 133 (134)
.||-|+++.+
T Consensus 30 yCpKCK~Etl 39 (55)
T PF14205_consen 30 YCPKCKQETL 39 (55)
T ss_pred cCCCCCceEE
Confidence 4888987654
No 234
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=21.49 E-value=54 Score=22.15 Aligned_cols=10 Identities=20% Similarity=0.554 Sum_probs=6.3
Q ss_pred CCCcccCCCc
Q 045064 122 NENCCICREE 131 (134)
Q Consensus 122 ~~~CP~Cr~~ 131 (134)
.+.||.|+.-
T Consensus 110 eK~C~~C~tG 119 (128)
T PF11682_consen 110 EKYCPKCGTG 119 (128)
T ss_pred CEecCCCCCc
Confidence 4567777653
No 235
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=20.93 E-value=47 Score=22.54 Aligned_cols=18 Identities=33% Similarity=0.792 Sum_probs=12.6
Q ss_pred CCccccHHHHHHHhhCCCCcccCCCc
Q 045064 106 CGHKYHDECIKTWLRDNENCCICREE 131 (134)
Q Consensus 106 C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (134)
|||.|+. -...||.|..+
T Consensus 35 CG~v~~P--------Pr~~Cp~C~~~ 52 (140)
T COG1545 35 CGRVYFP--------PRAYCPKCGSE 52 (140)
T ss_pred CCeEEcC--------CcccCCCCCCC
Confidence 7777775 45568888765
No 236
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.84 E-value=44 Score=21.78 Aligned_cols=26 Identities=27% Similarity=0.689 Sum_probs=11.3
Q ss_pred ccccCccccCCC-ceEEec-CCccccHH
Q 045064 88 CAICKLEYERGD-RLITLP-CGHKYHDE 113 (134)
Q Consensus 88 C~IC~~~~~~~~-~~~~lp-C~H~fh~~ 113 (134)
|+-|-..|-.=+ ..++.| ||..|...
T Consensus 12 Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 12 CPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCCcchhccCCCCCccCCCCCCccCcc
Confidence 666655543211 112334 55555543
No 237
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=20.63 E-value=18 Score=30.16 Aligned_cols=45 Identities=27% Similarity=0.513 Sum_probs=29.2
Q ss_pred CCCcccccCccccCCCceEEecCCccccHHHHHHHhhC----CC----CcccC
Q 045064 84 PSHKCAICKLEYERGDRLITLPCGHKYHDECIKTWLRD----NE----NCCIC 128 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~----~~----~CP~C 128 (134)
+.+.|.||...-...-.+..=.|.-.||..|+.+=|.+ ++ .|.-|
T Consensus 543 ~~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 543 MNYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred cceeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 44559999777554422222238888999999988843 21 37777
No 238
>PRK10220 hypothetical protein; Provisional
Probab=20.28 E-value=73 Score=20.93 Aligned_cols=24 Identities=33% Similarity=0.903 Sum_probs=13.7
Q ss_pred cccccCccccCCCc-eEEec-CCccc
Q 045064 87 KCAICKLEYERGDR-LITLP-CGHKY 110 (134)
Q Consensus 87 ~C~IC~~~~~~~~~-~~~lp-C~H~f 110 (134)
.||-|...|.-.+. ....| |+|-|
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcC
Confidence 49999887764432 22334 66543
No 239
>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=20.27 E-value=1.5e+02 Score=17.02 Aligned_cols=34 Identities=24% Similarity=0.574 Sum_probs=22.0
Q ss_pred CCcccccCccccC--CCceEEec-CCccccHHHHHHH
Q 045064 85 SHKCAICKLEYER--GDRLITLP-CGHKYHDECIKTW 118 (134)
Q Consensus 85 ~~~C~IC~~~~~~--~~~~~~lp-C~H~fh~~Ci~~w 118 (134)
...|+.|-..... .......| ||+.++.+-...+
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~ 64 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAAR 64 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHHH
Confidence 3459999777665 33444455 8888887755443
No 240
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=20.12 E-value=1.2e+02 Score=15.53 Aligned_cols=34 Identities=12% Similarity=0.320 Sum_probs=17.5
Q ss_pred CCCcccccCccccCCCc--eEEe-cCCccccH-HHHHH
Q 045064 84 PSHKCAICKLEYERGDR--LITL-PCGHKYHD-ECIKT 117 (134)
Q Consensus 84 ~~~~C~IC~~~~~~~~~--~~~l-pC~H~fh~-~Ci~~ 117 (134)
....|..|...+..... .... .-.|.||. .|+..
T Consensus 5 ~~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~~~ 42 (43)
T PF06467_consen 5 KMKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCLSS 42 (43)
T ss_dssp SCEE-TTT--EEECCC----EE-TTTTSCCSSHHHHHH
T ss_pred cCCcCcccCCcccCCCccccccccCcccChhCHHHHhh
Confidence 34469999988876653 2222 26677876 46554
Done!