Query 031282
Match_columns 162
No_of_seqs 231 out of 1908
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 11:53:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.4 2.4E-13 5.2E-18 78.1 2.9 38 66-103 1-42 (42)
2 PLN03208 E3 ubiquitin-protein 99.4 3.3E-13 7.2E-18 100.8 3.9 53 59-111 14-82 (193)
3 PF13639 zf-RING_2: Ring finge 99.4 1.9E-13 4.2E-18 79.3 1.5 40 65-104 2-44 (44)
4 PF13920 zf-C3HC4_3: Zinc fing 99.3 5.2E-13 1.1E-17 79.6 2.7 47 63-109 2-49 (50)
5 PHA02929 N1R/p28-like protein; 99.3 7.4E-13 1.6E-17 102.5 3.5 55 61-115 172-234 (238)
6 PF13923 zf-C3HC4_2: Zinc fing 99.3 1.5E-12 3.3E-17 73.6 2.7 38 66-103 1-39 (39)
7 smart00504 Ubox Modified RING 99.2 8.3E-12 1.8E-16 77.6 4.0 46 63-108 1-46 (63)
8 KOG0317 Predicted E3 ubiquitin 99.2 5.8E-12 1.2E-16 98.5 4.0 48 61-108 237-284 (293)
9 KOG0823 Predicted E3 ubiquitin 99.2 5.6E-12 1.2E-16 95.9 3.5 51 61-111 45-98 (230)
10 TIGR00599 rad18 DNA repair pro 99.2 1.6E-11 3.6E-16 101.3 5.7 66 59-127 22-87 (397)
11 PHA02926 zinc finger-like prot 99.2 1.1E-11 2.3E-16 94.0 3.3 57 61-117 168-239 (242)
12 COG5243 HRD1 HRD ubiquitin lig 99.2 6.9E-11 1.5E-15 95.4 6.5 48 61-108 285-345 (491)
13 PF12678 zf-rbx1: RING-H2 zinc 99.1 3.2E-11 7E-16 77.4 3.2 42 63-104 19-73 (73)
14 PF00097 zf-C3HC4: Zinc finger 99.1 3.5E-11 7.6E-16 68.6 2.9 38 66-103 1-41 (41)
15 KOG0320 Predicted E3 ubiquitin 99.1 3.3E-11 7.1E-16 88.3 2.5 48 62-109 130-179 (187)
16 KOG0287 Postreplication repair 99.1 8.5E-11 1.9E-15 93.9 3.8 83 62-150 22-104 (442)
17 cd00162 RING RING-finger (Real 99.1 1E-10 2.2E-15 67.1 3.1 43 65-107 1-45 (45)
18 KOG4628 Predicted E3 ubiquitin 99.0 3E-10 6.4E-15 92.0 5.7 48 64-111 230-281 (348)
19 PF14634 zf-RING_5: zinc-RING 99.0 3.5E-10 7.7E-15 65.5 2.7 41 65-105 1-44 (44)
20 COG5432 RAD18 RING-finger-cont 99.0 4.5E-10 9.7E-15 88.2 3.9 83 62-147 24-106 (391)
21 smart00184 RING Ring finger. E 99.0 5.8E-10 1.3E-14 61.7 3.0 38 66-103 1-39 (39)
22 PF04564 U-box: U-box domain; 98.9 5.7E-10 1.2E-14 71.6 2.4 60 62-124 3-63 (73)
23 KOG1039 Predicted E3 ubiquitin 98.9 8.4E-10 1.8E-14 89.6 3.9 96 56-151 154-264 (344)
24 KOG1002 Nucleotide excision re 98.9 2E-09 4.3E-14 90.5 5.3 146 2-161 489-651 (791)
25 PF13445 zf-RING_UBOX: RING-ty 98.9 1.1E-09 2.5E-14 62.9 2.0 35 66-101 1-43 (43)
26 COG5574 PEX10 RING-finger-cont 98.8 1.5E-09 3.2E-14 84.2 2.6 48 61-108 213-262 (271)
27 KOG2164 Predicted E3 ubiquitin 98.8 1.6E-09 3.4E-14 90.7 2.8 47 63-109 186-237 (513)
28 PF12861 zf-Apc11: Anaphase-pr 98.8 3E-09 6.4E-14 69.5 3.4 47 62-108 20-82 (85)
29 KOG4172 Predicted E3 ubiquitin 98.7 1.6E-09 3.6E-14 64.3 0.0 46 64-109 8-55 (62)
30 COG5540 RING-finger-containing 98.7 7E-09 1.5E-13 81.9 3.1 47 62-108 322-372 (374)
31 KOG0802 E3 ubiquitin ligase [P 98.7 5.2E-09 1.1E-13 90.4 2.1 47 61-107 289-340 (543)
32 PF14835 zf-RING_6: zf-RING of 98.7 4E-09 8.8E-14 65.0 0.3 58 62-124 6-64 (65)
33 KOG2660 Locus-specific chromos 98.6 2.5E-08 5.4E-13 79.6 3.9 93 60-152 12-109 (331)
34 KOG2177 Predicted E3 ubiquitin 98.6 1.3E-08 2.8E-13 79.8 1.8 45 61-105 11-55 (386)
35 TIGR00570 cdk7 CDK-activating 98.6 1.1E-07 2.5E-12 76.0 5.8 50 62-111 2-57 (309)
36 KOG0978 E3 ubiquitin ligase in 98.5 2.5E-08 5.4E-13 87.0 1.7 48 62-109 642-690 (698)
37 KOG0311 Predicted E3 ubiquitin 98.4 8.7E-08 1.9E-12 77.2 0.5 66 60-127 40-107 (381)
38 KOG4159 Predicted E3 ubiquitin 98.3 3.4E-07 7.4E-12 75.9 2.5 50 60-109 81-130 (398)
39 KOG4265 Predicted E3 ubiquitin 98.3 4.6E-07 1E-11 73.2 3.1 49 61-109 288-337 (349)
40 KOG1734 Predicted RING-contain 98.3 9.2E-07 2E-11 69.1 3.9 48 61-108 222-281 (328)
41 KOG0824 Predicted E3 ubiquitin 98.3 5.5E-07 1.2E-11 71.3 2.5 48 62-109 6-54 (324)
42 COG5152 Uncharacterized conser 98.1 1E-06 2.2E-11 66.0 1.8 60 63-126 196-255 (259)
43 KOG2879 Predicted E3 ubiquitin 98.1 1.1E-05 2.4E-10 63.2 7.4 53 56-108 232-287 (298)
44 COG5219 Uncharacterized conser 98.0 2.3E-06 4.9E-11 76.6 1.3 52 58-109 1464-1524(1525)
45 PF11793 FANCL_C: FANCL C-term 98.0 1.3E-06 2.8E-11 55.6 -0.3 46 63-108 2-66 (70)
46 KOG0828 Predicted E3 ubiquitin 98.0 3.6E-06 7.8E-11 70.6 2.1 48 61-108 569-634 (636)
47 KOG0297 TNF receptor-associate 97.9 4.5E-06 9.7E-11 69.6 2.0 49 60-108 18-67 (391)
48 KOG0804 Cytoplasmic Zn-finger 97.9 5.4E-06 1.2E-10 68.8 2.4 48 59-108 171-222 (493)
49 KOG1785 Tyrosine kinase negati 97.9 4.3E-06 9.2E-11 68.7 1.5 47 63-109 369-417 (563)
50 KOG1493 Anaphase-promoting com 97.8 3.3E-06 7.1E-11 53.7 -0.0 46 63-108 20-81 (84)
51 KOG4692 Predicted E3 ubiquitin 97.8 2.1E-05 4.6E-10 63.8 4.5 48 61-108 420-467 (489)
52 KOG1813 Predicted E3 ubiquitin 97.8 7.2E-06 1.6E-10 64.8 1.7 47 62-108 240-286 (313)
53 PF11789 zf-Nse: Zinc-finger o 97.8 1.2E-05 2.6E-10 49.0 2.2 42 61-102 9-53 (57)
54 smart00744 RINGv The RING-vari 97.8 1.8E-05 4E-10 46.7 2.5 40 65-104 1-49 (49)
55 COG5194 APC11 Component of SCF 97.7 1.7E-05 3.7E-10 50.9 1.9 29 80-108 53-81 (88)
56 KOG4275 Predicted E3 ubiquitin 97.6 1.2E-05 2.5E-10 63.6 0.0 42 63-108 300-342 (350)
57 KOG0827 Predicted E3 ubiquitin 97.6 3.6E-05 7.9E-10 63.0 2.3 44 64-107 5-55 (465)
58 KOG1001 Helicase-like transcri 97.6 4.5E-05 9.9E-10 67.5 2.8 146 4-157 397-545 (674)
59 KOG2930 SCF ubiquitin ligase, 97.4 7.1E-05 1.5E-09 50.4 1.8 29 80-108 80-108 (114)
60 KOG0825 PHD Zn-finger protein 97.3 4.3E-05 9.4E-10 67.4 -0.4 51 63-113 123-176 (1134)
61 PF14447 Prok-RING_4: Prokaryo 97.2 0.00019 4.2E-09 43.0 1.8 45 63-109 7-51 (55)
62 COG5222 Uncharacterized conser 97.2 0.00018 3.9E-09 57.3 1.8 43 63-105 274-318 (427)
63 PHA03096 p28-like protein; Pro 97.2 0.00057 1.2E-08 54.6 4.4 67 28-107 155-233 (284)
64 KOG1571 Predicted E3 ubiquitin 97.2 0.00053 1.1E-08 55.8 4.2 45 61-108 303-347 (355)
65 KOG1645 RING-finger-containing 97.0 0.00042 9.1E-09 57.3 2.2 48 62-109 3-57 (463)
66 KOG4185 Predicted E3 ubiquitin 97.0 0.00055 1.2E-08 54.8 2.7 45 63-107 3-54 (296)
67 KOG2114 Vacuolar assembly/sort 96.8 0.0019 4E-08 57.8 5.0 42 63-107 840-882 (933)
68 KOG4739 Uncharacterized protei 96.7 0.0012 2.5E-08 51.2 2.4 43 64-108 4-48 (233)
69 PF10367 Vps39_2: Vacuolar sor 96.6 0.002 4.3E-08 43.6 2.8 34 58-91 73-108 (109)
70 KOG4367 Predicted Zn-finger pr 96.6 0.0012 2.6E-08 55.2 1.8 35 61-95 2-36 (699)
71 COG5236 Uncharacterized conser 96.5 0.0026 5.6E-08 51.8 3.5 50 60-109 58-109 (493)
72 KOG1428 Inhibitor of type V ad 96.5 0.0036 7.8E-08 59.2 4.6 49 61-109 3484-3545(3738)
73 KOG1941 Acetylcholine receptor 96.4 0.00095 2.1E-08 55.0 0.6 46 61-106 363-414 (518)
74 KOG4445 Uncharacterized conser 96.4 0.0038 8.2E-08 49.9 3.6 47 62-108 114-186 (368)
75 KOG3039 Uncharacterized conser 96.2 0.0038 8.2E-08 48.6 2.9 50 62-111 220-273 (303)
76 PF07800 DUF1644: Protein of u 96.2 0.0037 8.1E-08 45.5 2.6 34 62-95 1-47 (162)
77 PF04641 Rtf2: Rtf2 RING-finge 96.1 0.0081 1.8E-07 47.5 4.2 49 61-110 111-163 (260)
78 PF14570 zf-RING_4: RING/Ubox 96.0 0.0064 1.4E-07 35.6 2.4 42 66-107 1-47 (48)
79 KOG1814 Predicted E3 ubiquitin 95.9 0.0048 1E-07 51.2 2.0 45 61-105 182-237 (445)
80 KOG0826 Predicted E3 ubiquitin 95.9 0.0056 1.2E-07 49.4 2.4 47 61-107 298-345 (357)
81 KOG3268 Predicted E3 ubiquitin 95.9 0.0045 9.7E-08 46.0 1.6 47 63-109 165-229 (234)
82 PHA02825 LAP/PHD finger-like p 95.6 0.019 4.2E-07 41.9 4.0 47 61-108 6-59 (162)
83 KOG3970 Predicted E3 ubiquitin 95.5 0.011 2.4E-07 45.5 2.7 47 62-108 49-105 (299)
84 KOG3800 Predicted E3 ubiquitin 95.3 0.027 5.9E-07 44.8 4.2 45 65-109 2-52 (300)
85 PF10272 Tmpp129: Putative tra 95.3 0.031 6.6E-07 46.2 4.6 28 81-108 311-351 (358)
86 PF03854 zf-P11: P-11 zinc fin 95.2 0.0098 2.1E-07 34.5 1.0 43 65-109 4-47 (50)
87 PHA02862 5L protein; Provision 95.1 0.024 5.2E-07 40.7 3.2 44 64-108 3-53 (156)
88 PF05883 Baculo_RING: Baculovi 94.8 0.01 2.3E-07 42.1 0.7 34 63-96 26-68 (134)
89 KOG1100 Predicted E3 ubiquitin 94.8 0.014 3.1E-07 44.7 1.4 40 65-108 160-200 (207)
90 PF08746 zf-RING-like: RING-li 94.8 0.035 7.5E-07 31.7 2.7 38 66-103 1-43 (43)
91 COG5175 MOT2 Transcriptional r 94.6 0.043 9.3E-07 44.8 3.7 48 64-111 15-67 (480)
92 KOG3002 Zn finger protein [Gen 94.5 0.025 5.5E-07 45.6 2.3 45 61-108 46-91 (299)
93 PF05290 Baculo_IE-1: Baculovi 94.4 0.041 8.9E-07 39.0 2.9 48 62-109 79-133 (140)
94 KOG1940 Zn-finger protein [Gen 94.3 0.027 5.8E-07 44.8 1.9 44 62-105 157-204 (276)
95 KOG1952 Transcription factor N 94.1 0.04 8.8E-07 49.6 2.9 48 61-108 189-247 (950)
96 PF02891 zf-MIZ: MIZ/SP-RING z 94.1 0.026 5.7E-07 33.3 1.1 42 64-106 3-50 (50)
97 KOG0298 DEAD box-containing he 94.0 0.014 2.9E-07 54.7 -0.2 46 61-106 1151-1197(1394)
98 PF12906 RINGv: RING-variant d 94.0 0.032 7E-07 32.4 1.5 38 66-103 1-47 (47)
99 KOG2932 E3 ubiquitin ligase in 93.8 0.026 5.6E-07 45.4 0.9 44 65-110 92-136 (389)
100 KOG4362 Transcriptional regula 93.8 0.016 3.6E-07 51.1 -0.2 48 62-109 20-70 (684)
101 KOG2034 Vacuolar sorting prote 93.5 0.08 1.7E-06 48.0 3.5 33 61-93 815-849 (911)
102 KOG2817 Predicted E3 ubiquitin 93.4 0.073 1.6E-06 44.2 3.0 48 61-108 332-385 (394)
103 KOG3899 Uncharacterized conser 92.3 0.078 1.7E-06 42.4 1.6 28 81-108 325-365 (381)
104 KOG3161 Predicted E3 ubiquitin 91.1 0.084 1.8E-06 46.5 0.7 39 61-101 9-51 (861)
105 COG5220 TFB3 Cdk activating ki 90.7 0.1 2.3E-06 40.6 0.9 47 62-108 9-64 (314)
106 KOG3579 Predicted E3 ubiquitin 90.0 0.19 4E-06 40.2 1.7 34 62-95 267-304 (352)
107 KOG1812 Predicted E3 ubiquitin 88.9 0.21 4.6E-06 41.7 1.4 34 62-95 145-182 (384)
108 KOG3039 Uncharacterized conser 88.4 0.42 9.1E-06 37.5 2.6 35 60-94 40-74 (303)
109 KOG2113 Predicted RNA binding 88.3 0.42 9.2E-06 38.7 2.7 56 50-107 330-386 (394)
110 KOG1815 Predicted E3 ubiquitin 87.7 0.37 8E-06 41.0 2.1 35 61-95 68-103 (444)
111 KOG0309 Conserved WD40 repeat- 87.6 0.39 8.4E-06 43.2 2.2 26 77-102 1044-1069(1081)
112 COG5183 SSM4 Protein involved 85.5 0.87 1.9E-05 41.4 3.2 49 61-109 10-67 (1175)
113 COG5109 Uncharacterized conser 84.9 0.59 1.3E-05 38.0 1.8 46 62-107 335-386 (396)
114 KOG1812 Predicted E3 ubiquitin 83.7 0.49 1.1E-05 39.6 0.9 41 63-103 306-351 (384)
115 KOG0825 PHD Zn-finger protein 83.7 0.82 1.8E-05 41.5 2.3 46 63-108 96-154 (1134)
116 KOG0827 Predicted E3 ubiquitin 83.6 0.11 2.4E-06 43.2 -2.9 46 63-108 196-245 (465)
117 PF02318 FYVE_2: FYVE-type zin 82.1 1.5 3.3E-05 30.3 2.8 44 62-105 53-102 (118)
118 KOG3053 Uncharacterized conser 81.1 1.2 2.5E-05 35.2 2.1 53 61-113 18-87 (293)
119 KOG3113 Uncharacterized conser 80.6 2.7 5.9E-05 33.2 3.9 47 61-109 109-159 (293)
120 KOG2068 MOT2 transcription fac 79.4 1.7 3.7E-05 35.5 2.5 46 64-109 250-299 (327)
121 KOG4718 Non-SMC (structural ma 79.3 1.3 2.8E-05 34.0 1.8 47 63-109 181-228 (235)
122 PF04216 FdhE: Protein involve 77.4 0.49 1.1E-05 37.9 -1.1 47 61-107 170-221 (290)
123 PF07975 C1_4: TFIIH C1-like d 75.3 3.1 6.8E-05 24.6 2.3 26 79-104 25-50 (51)
124 KOG0269 WD40 repeat-containing 75.0 2.8 6.1E-05 37.9 2.9 44 64-107 780-827 (839)
125 PF07191 zinc-ribbons_6: zinc- 74.2 0.28 6.1E-06 31.0 -2.5 40 64-108 2-41 (70)
126 PF06844 DUF1244: Protein of u 71.8 2.4 5.3E-05 26.4 1.3 12 84-95 11-22 (68)
127 TIGR01562 FdhE formate dehydro 70.3 0.99 2.2E-05 36.6 -0.9 45 62-106 183-233 (305)
128 PF14569 zf-UDP: Zinc-binding 67.6 6.9 0.00015 25.2 2.7 47 62-108 8-62 (80)
129 PRK03564 formate dehydrogenase 67.1 1.7 3.6E-05 35.4 -0.2 44 62-105 186-234 (309)
130 TIGR00622 ssl1 transcription f 65.5 6.6 0.00014 27.1 2.5 41 64-104 56-110 (112)
131 PF10235 Cript: Microtubule-as 64.3 4.7 0.0001 26.7 1.6 37 63-108 44-80 (90)
132 KOG2231 Predicted E3 ubiquitin 64.3 4.9 0.00011 36.0 2.1 44 65-108 2-52 (669)
133 KOG4185 Predicted E3 ubiquitin 63.8 1.2 2.6E-05 35.6 -1.6 44 63-106 207-265 (296)
134 KOG3799 Rab3 effector RIM1 and 63.7 12 0.00026 26.8 3.6 45 59-107 61-117 (169)
135 smart00132 LIM Zinc-binding do 63.5 5.2 0.00011 21.0 1.5 34 66-107 2-37 (39)
136 smart00647 IBR In Between Ring 62.9 1.4 3.1E-05 26.4 -1.1 16 80-95 45-60 (64)
137 PF06906 DUF1272: Protein of u 62.3 10 0.00022 22.8 2.6 43 65-109 7-53 (57)
138 KOG0824 Predicted E3 ubiquitin 61.5 2.9 6.3E-05 33.8 0.2 50 61-110 103-153 (324)
139 PF10571 UPF0547: Uncharacteri 61.3 1.9 4.2E-05 21.7 -0.5 9 97-105 14-22 (26)
140 PF13240 zinc_ribbon_2: zinc-r 60.6 1.4 3E-05 21.5 -1.1 8 98-105 14-21 (23)
141 PF04710 Pellino: Pellino; In 60.5 2.8 6.2E-05 35.1 0.0 30 77-109 305-340 (416)
142 KOG1609 Protein involved in mR 59.5 8.6 0.00019 30.6 2.6 46 63-108 78-134 (323)
143 PF10146 zf-C4H2: Zinc finger- 58.8 8.8 0.00019 29.9 2.5 29 85-113 196-224 (230)
144 KOG2066 Vacuolar assembly/sort 58.8 6.3 0.00014 35.9 1.8 41 62-103 783-830 (846)
145 PF10497 zf-4CXXC_R1: Zinc-fin 58.1 8.4 0.00018 26.2 2.0 25 82-106 37-70 (105)
146 KOG1829 Uncharacterized conser 57.8 3.7 8E-05 36.2 0.2 23 79-104 535-557 (580)
147 PF05605 zf-Di19: Drought indu 57.1 5.6 0.00012 23.4 0.9 36 63-105 2-39 (54)
148 cd00065 FYVE FYVE domain; Zinc 56.4 8.1 0.00018 22.6 1.5 30 64-93 3-36 (57)
149 KOG4451 Uncharacterized conser 56.3 9.5 0.00021 29.7 2.2 28 85-112 251-278 (286)
150 smart00064 FYVE Protein presen 56.1 11 0.00023 23.0 2.1 31 63-93 10-44 (68)
151 PF14446 Prok-RING_1: Prokaryo 55.8 13 0.00028 22.2 2.3 30 63-92 5-38 (54)
152 KOG2041 WD40 repeat protein [G 55.7 17 0.00036 33.3 3.9 78 27-108 1088-1185(1189)
153 PF01363 FYVE: FYVE zinc finge 55.1 2.8 6E-05 25.8 -0.7 31 62-92 8-42 (69)
154 PF04710 Pellino: Pellino; In 53.2 4.5 9.6E-05 34.0 0.0 46 63-108 328-401 (416)
155 PF06937 EURL: EURL protein; 52.8 64 0.0014 25.8 6.3 72 64-149 31-108 (285)
156 KOG3842 Adaptor protein Pellin 52.5 12 0.00026 30.6 2.3 47 62-108 340-414 (429)
157 COG4647 AcxC Acetone carboxyla 52.3 6.6 0.00014 27.9 0.7 23 66-88 60-82 (165)
158 COG0068 HypF Hydrogenase matur 51.9 11 0.00023 34.1 2.1 48 61-108 99-184 (750)
159 KOG0801 Predicted E3 ubiquitin 51.1 5.6 0.00012 29.4 0.2 26 62-87 176-204 (205)
160 COG3058 FdhE Uncharacterized p 50.8 1.1E+02 0.0024 24.8 7.3 91 61-156 183-283 (308)
161 PF04423 Rad50_zn_hook: Rad50 50.3 6.1 0.00013 23.2 0.3 11 98-108 21-31 (54)
162 COG3813 Uncharacterized protei 49.4 15 0.00032 23.4 1.9 26 82-109 28-53 (84)
163 PF09723 Zn-ribbon_8: Zinc rib 49.0 3.7 8E-05 23.0 -0.8 28 80-108 10-38 (42)
164 PLN02189 cellulose synthase 48.1 16 0.00034 34.6 2.6 48 62-109 33-88 (1040)
165 PF13901 DUF4206: Domain of un 47.1 15 0.00032 27.9 2.0 39 62-105 151-197 (202)
166 PLN02436 cellulose synthase A 46.8 19 0.00041 34.2 2.9 48 62-109 35-90 (1094)
167 KOG2807 RNA polymerase II tran 46.5 18 0.00039 29.8 2.4 44 62-105 329-375 (378)
168 COG3492 Uncharacterized protei 46.0 10 0.00022 25.2 0.8 12 84-95 42-53 (104)
169 KOG2462 C2H2-type Zn-finger pr 45.8 9.3 0.0002 30.5 0.7 47 62-108 160-226 (279)
170 PRK04023 DNA polymerase II lar 45.1 12 0.00026 35.2 1.4 45 62-108 625-674 (1121)
171 PF15616 TerY-C: TerY-C metal 44.7 8.9 0.00019 27.2 0.4 49 55-109 69-117 (131)
172 PLN02638 cellulose synthase A 44.2 29 0.00062 33.0 3.7 47 62-108 16-70 (1079)
173 PF00412 LIM: LIM domain; Int 41.9 12 0.00025 21.8 0.6 21 80-108 17-37 (58)
174 PRK11595 DNA utilization prote 40.4 24 0.00052 27.1 2.3 38 65-107 7-44 (227)
175 KOG2979 Protein involved in DN 40.0 16 0.00035 28.9 1.2 44 63-106 176-222 (262)
176 PLN02400 cellulose synthase 39.4 29 0.00063 33.0 3.0 47 62-108 35-89 (1085)
177 PF14353 CpXC: CpXC protein 39.1 20 0.00042 24.9 1.5 45 64-108 2-49 (128)
178 PF01485 IBR: IBR domain; Int 37.1 3.2 7E-05 24.7 -2.5 32 64-95 19-60 (64)
179 KOG2169 Zn-finger transcriptio 36.0 27 0.00058 31.3 2.2 66 57-127 300-372 (636)
180 KOG0802 E3 ubiquitin ligase [P 34.8 25 0.00054 30.8 1.8 43 62-108 478-520 (543)
181 PF05320 Pox_RNA_Pol_19: Poxvi 34.0 70 0.0015 23.4 3.6 82 3-97 75-165 (167)
182 KOG1815 Predicted E3 ubiquitin 33.7 16 0.00035 31.1 0.4 35 75-109 178-238 (444)
183 KOG2071 mRNA cleavage and poly 31.5 13 0.00027 32.8 -0.6 33 61-93 511-556 (579)
184 COG5242 TFB4 RNA polymerase II 31.4 25 0.00055 27.5 1.1 12 97-108 274-285 (296)
185 PF00628 PHD: PHD-finger; Int 30.8 20 0.00044 20.3 0.4 41 65-105 1-50 (51)
186 PF14311 DUF4379: Domain of un 30.7 32 0.0007 20.1 1.3 9 95-103 47-55 (55)
187 PLN02915 cellulose synthase A 30.7 36 0.00078 32.3 2.1 48 62-109 14-69 (1044)
188 smart00249 PHD PHD zinc finger 30.6 29 0.00062 18.6 1.0 27 66-92 2-31 (47)
189 PF09297 zf-NADH-PPase: NADH p 29.3 5.8 0.00013 20.7 -2.0 23 83-105 3-29 (32)
190 cd00350 rubredoxin_like Rubred 29.2 44 0.00095 17.4 1.5 11 96-106 16-26 (33)
191 PF14097 SpoVAE: Stage V sporu 28.8 48 0.001 24.7 2.1 19 138-159 43-61 (180)
192 PRK00418 DNA gyrase inhibitor; 28.5 42 0.00092 20.6 1.5 11 98-108 7-17 (62)
193 smart00290 ZnF_UBP Ubiquitin C 26.8 40 0.00088 19.0 1.2 23 66-88 2-24 (50)
194 PLN02195 cellulose synthase A 26.4 67 0.0015 30.4 3.1 47 62-108 5-59 (977)
195 KOG1818 Membrane trafficking a 25.9 33 0.00071 30.7 1.0 45 59-103 161-217 (634)
196 PF10083 DUF2321: Uncharacteri 25.4 41 0.00089 24.6 1.2 24 82-108 27-50 (158)
197 KOG1356 Putative transcription 25.0 21 0.00046 32.9 -0.3 45 63-107 229-281 (889)
198 smart00734 ZnF_Rad18 Rad18-lik 25.0 35 0.00077 16.9 0.6 10 98-107 2-11 (26)
199 PF10186 Atg14: UV radiation r 24.7 49 0.0011 25.9 1.7 10 83-92 11-20 (302)
200 PRK01343 zinc-binding protein; 24.4 42 0.00091 20.3 1.0 13 96-108 8-20 (57)
201 KOG1140 N-end rule pathway, re 24.4 88 0.0019 31.5 3.5 32 77-108 1147-1198(1738)
202 TIGR00143 hypF [NiFe] hydrogen 24.2 41 0.00088 30.7 1.3 47 62-108 67-151 (711)
203 PF03884 DUF329: Domain of unk 23.8 38 0.00082 20.4 0.7 11 99-109 4-14 (57)
204 PF11023 DUF2614: Protein of u 23.5 21 0.00046 24.6 -0.5 16 93-108 81-96 (114)
205 KOG1701 Focal adhesion adaptor 23.4 8.8 0.00019 32.6 -2.8 9 99-107 396-404 (468)
206 COG5151 SSL1 RNA polymerase II 23.3 63 0.0014 26.6 2.0 44 62-105 361-418 (421)
207 PRK11088 rrmA 23S rRNA methylt 22.9 46 0.00099 26.1 1.2 22 64-85 3-27 (272)
208 smart00154 ZnF_AN1 AN1-like Zi 22.8 54 0.0012 17.9 1.1 7 81-87 18-24 (39)
209 PF13832 zf-HC5HC2H_2: PHD-zin 22.7 86 0.0019 20.8 2.4 31 62-92 54-87 (110)
210 PF14169 YdjO: Cold-inducible 22.6 45 0.00097 20.3 0.8 13 96-108 38-50 (59)
211 TIGR00373 conserved hypothetic 22.1 91 0.002 22.6 2.6 34 61-109 107-140 (158)
212 PF08882 Acetone_carb_G: Aceto 22.0 45 0.00097 23.0 0.9 12 76-87 24-35 (112)
213 COG4357 Zinc finger domain con 21.8 71 0.0015 21.5 1.7 13 97-109 80-92 (105)
214 PRK06266 transcription initiat 21.6 1E+02 0.0022 23.0 2.7 34 61-109 115-148 (178)
215 PF03119 DNA_ligase_ZBD: NAD-d 20.9 50 0.0011 16.7 0.7 11 99-109 1-11 (28)
216 COG2816 NPY1 NTP pyrophosphohy 20.9 20 0.00044 28.7 -1.1 27 81-107 109-139 (279)
217 PF09889 DUF2116: Uncharacteri 20.8 59 0.0013 19.7 1.1 13 96-108 2-14 (59)
218 COG2093 DNA-directed RNA polym 20.4 35 0.00077 21.0 0.1 21 86-106 7-27 (64)
219 COG1675 TFA1 Transcription ini 20.3 85 0.0019 23.4 2.1 36 61-111 111-146 (176)
220 KOG3475 60S ribosomal protein 20.3 58 0.0013 21.3 1.0 30 82-111 15-45 (92)
221 PF13719 zinc_ribbon_5: zinc-r 20.2 55 0.0012 17.6 0.8 10 65-74 4-13 (37)
222 PF07503 zf-HYPF: HypF finger; 20.1 79 0.0017 17.0 1.4 22 86-107 2-31 (35)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.39 E-value=2.4e-13 Score=78.15 Aligned_cols=38 Identities=37% Similarity=0.837 Sum_probs=29.6
Q ss_pred eeccccccccceecCCCCcccHHhHHHHhhcC----CCCccc
Q 031282 66 CGICLEICCKIVLPDCNHSMCMRCYRNWRARS----QSCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~----~~CP~C 103 (162)
|+||++.+.+|+.++|||+||..||..|.... ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999966532 469987
No 2
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.38 E-value=3.3e-13 Score=100.75 Aligned_cols=53 Identities=26% Similarity=0.752 Sum_probs=45.1
Q ss_pred cCCCCCeeeccccccccceecCCCCcccHHhHHHHhhc----------------CCCCccccccccccC
Q 031282 59 DIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR----------------SQSCPFCRDSLRRVN 111 (162)
Q Consensus 59 ~~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~----------------~~~CP~Cr~~~~~~~ 111 (162)
+..+++.|+||++.+.+|+.++|||.||..||..|+.. ...||+||.++....
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 34567999999999999999999999999999999742 357999999996433
No 3
>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=99.36 E-value=1.9e-13 Score=79.35 Aligned_cols=40 Identities=45% Similarity=0.998 Sum_probs=35.4
Q ss_pred eeeccccccc---cceecCCCCcccHHhHHHHhhcCCCCcccc
Q 031282 65 ECGICLEICC---KIVLPDCNHSMCMRCYRNWRARSQSCPFCR 104 (162)
Q Consensus 65 ~C~IC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 104 (162)
.|+||++.+. ..+.++|||.||.+|+.+|+..+.+||+||
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 6999999996 456789999999999999999999999997
No 4
>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=99.35 E-value=5.2e-13 Score=79.63 Aligned_cols=47 Identities=36% Similarity=0.863 Sum_probs=42.0
Q ss_pred CCeeeccccccccceecCCCCc-ccHHhHHHHhhcCCCCccccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
+..|.||++...+++.++|||. ||..|+..|......||+||.++..
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 5689999999999999999999 9999999999999999999999864
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.33 E-value=7.4e-13 Score=102.51 Aligned_cols=55 Identities=31% Similarity=0.915 Sum_probs=45.9
Q ss_pred CCCCeeeccccccccc--------eecCCCCcccHHhHHHHhhcCCCCccccccccccCCCCc
Q 031282 61 EREEECGICLEICCKI--------VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDL 115 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~--------~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~ 115 (162)
..+..|+||++.+.++ ++++|||.||..|+.+|+....+||+||.++..+....+
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~~r~ 234 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKSRF 234 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEeeeee
Confidence 4568999999987642 567899999999999999999999999999976554443
No 6
>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=99.30 E-value=1.5e-12 Score=73.62 Aligned_cols=38 Identities=34% Similarity=0.951 Sum_probs=33.9
Q ss_pred eeccccccccc-eecCCCCcccHHhHHHHhhcCCCCccc
Q 031282 66 CGICLEICCKI-VLPDCNHSMCMRCYRNWRARSQSCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~C 103 (162)
|+||++.+.+| +.++|||.||..|+.+|++....||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999 679999999999999999988899987
No 7
>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=99.24 E-value=8.3e-12 Score=77.57 Aligned_cols=46 Identities=22% Similarity=0.306 Sum_probs=42.7
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
++.|+||.+.+.+|+.++|||.||..|+..|+.....||.|+.++.
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 3579999999999999999999999999999888889999999885
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=5.8e-12 Score=98.54 Aligned_cols=48 Identities=29% Similarity=0.857 Sum_probs=45.1
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
+....|.+|++...+|..+||||.||..||..|......||+||..++
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 456899999999999999999999999999999998888999999986
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=5.6e-12 Score=95.95 Aligned_cols=51 Identities=27% Similarity=0.722 Sum_probs=44.7
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhh---cCCCCccccccccccC
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLRRVN 111 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~---~~~~CP~Cr~~~~~~~ 111 (162)
...+.|.||++..++||++.|||.||..||.+|+. ....||+|+..+....
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 45689999999999999999999999999999997 3566999999886433
No 10
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.21 E-value=1.6e-11 Score=101.27 Aligned_cols=66 Identities=26% Similarity=0.565 Sum_probs=55.9
Q ss_pred cCCCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccccCCCCccccCChhHHHHh
Q 031282 59 DIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDL 127 (162)
Q Consensus 59 ~~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~ 127 (162)
.+...+.|+||++.+.+|++++|||.||..|+..|+.....||.|+..+.. ..+..+..+.++++.
T Consensus 22 ~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~---~~Lr~N~~L~~iVe~ 87 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE---SKLRSNWLVSEIVES 87 (397)
T ss_pred ccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc---ccCccchHHHHHHHH
Confidence 346778999999999999999999999999999999887889999999853 246666777777765
No 11
>PHA02926 zinc finger-like protein; Provisional
Probab=99.19 E-value=1.1e-11 Score=94.04 Aligned_cols=57 Identities=35% Similarity=0.957 Sum_probs=46.2
Q ss_pred CCCCeeecccccccc---------ceecCCCCcccHHhHHHHhhc------CCCCccccccccccCCCCccc
Q 031282 61 EREEECGICLEICCK---------IVLPDCNHSMCMRCYRNWRAR------SQSCPFCRDSLRRVNSGDLWI 117 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~---------~~~~~CgH~fc~~Ci~~~~~~------~~~CP~Cr~~~~~~~~~~~~~ 117 (162)
+++..|+||++...+ +++.+|+|.||..|+..|... ..+||+||..+..+.++.++.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~~ 239 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFYK 239 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccccee
Confidence 467899999998632 466799999999999999874 346999999998777766654
No 12
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=6.9e-11 Score=95.39 Aligned_cols=48 Identities=29% Similarity=0.809 Sum_probs=42.5
Q ss_pred CCCCeeeccccccc-c------------ceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 61 EREEECGICLEICC-K------------IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~-~------------~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.++..|.||++.+. . |..+||||.+|.+|++.|.+++.+||+||.++.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 67889999999844 2 477999999999999999999999999999964
No 13
>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=99.14 E-value=3.2e-11 Score=77.44 Aligned_cols=42 Identities=33% Similarity=0.923 Sum_probs=34.8
Q ss_pred CCeeecccccccc-------------ceecCCCCcccHHhHHHHhhcCCCCcccc
Q 031282 63 EEECGICLEICCK-------------IVLPDCNHSMCMRCYRNWRARSQSCPFCR 104 (162)
Q Consensus 63 ~~~C~IC~~~~~~-------------~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 104 (162)
+..|+||++.+.+ ....+|||.||..||.+|+....+||+||
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 4459999999942 24458999999999999999999999997
No 14
>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=99.14 E-value=3.5e-11 Score=68.58 Aligned_cols=38 Identities=47% Similarity=1.065 Sum_probs=34.9
Q ss_pred eeccccccccce-ecCCCCcccHHhHHHHhh--cCCCCccc
Q 031282 66 CGICLEICCKIV-LPDCNHSMCMRCYRNWRA--RSQSCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~~~-~~~CgH~fc~~Ci~~~~~--~~~~CP~C 103 (162)
|+||++.+.+++ .++|||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999998 899999999999999887 66779987
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=3.3e-11 Score=88.34 Aligned_cols=48 Identities=27% Similarity=0.749 Sum_probs=42.4
Q ss_pred CCCeeeccccccccc--eecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCKI--VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~--~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
....|||||+.+.+. +-+.|||.||..||+..+.....||+|++.++.
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 458999999999854 558999999999999999999999999998754
No 16
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.08 E-value=8.5e-11 Score=93.86 Aligned_cols=83 Identities=24% Similarity=0.523 Sum_probs=64.2
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccccCCCCccccCChhHHHHhhhhcHHHHHHHHHH
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRLFMY 141 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 141 (162)
.-+.|.||.++|..|+.+||||.||.-||..++.....||.|+.++.... +..+..+.+++..-.. --..|+.+
T Consensus 22 ~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~---Lr~n~il~Eiv~S~~~---~R~~Ll~f 95 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD---LRNNRILDEIVKSLNF---ARNHLLQF 95 (442)
T ss_pred HHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhh---hhhhhHHHHHHHHHHH---HHHHHHHH
Confidence 45799999999999999999999999999999999999999999996433 5556667776665222 22467777
Q ss_pred HhcCCCCCC
Q 031282 142 IDKLPFITP 150 (162)
Q Consensus 142 ~~~~p~~~p 150 (162)
+.-=|.-+|
T Consensus 96 l~~~~~p~P 104 (442)
T KOG0287|consen 96 LLESPAPSP 104 (442)
T ss_pred HhcCCCCCc
Confidence 765554444
No 17
>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=99.08 E-value=1e-10 Score=67.08 Aligned_cols=43 Identities=37% Similarity=0.970 Sum_probs=36.6
Q ss_pred eeeccccccccceec-CCCCcccHHhHHHHhhc-CCCCccccccc
Q 031282 65 ECGICLEICCKIVLP-DCNHSMCMRCYRNWRAR-SQSCPFCRDSL 107 (162)
Q Consensus 65 ~C~IC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~ 107 (162)
.|+||++.+.+++.+ +|||.||..|+..|... ...||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 489999999766654 59999999999999886 77899998753
No 18
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=3e-10 Score=91.98 Aligned_cols=48 Identities=29% Similarity=0.767 Sum_probs=41.0
Q ss_pred Ceeeccccccccc---eecCCCCcccHHhHHHHhhcCC-CCccccccccccC
Q 031282 64 EECGICLEICCKI---VLPDCNHSMCMRCYRNWRARSQ-SCPFCRDSLRRVN 111 (162)
Q Consensus 64 ~~C~IC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~~~~~ 111 (162)
..|+||+|.|.+. ..|||+|.||..|+.+|+.... .||+|+..+....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 5999999999954 5599999999999999998764 4999999886443
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.98 E-value=3.5e-10 Score=65.54 Aligned_cols=41 Identities=34% Similarity=0.985 Sum_probs=35.7
Q ss_pred eeeccccccc---cceecCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 65 ECGICLEICC---KIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 65 ~C~IC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
.|++|++.+. .+.+++|||.||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999993 5678999999999999998867788999985
No 20
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.97 E-value=4.5e-10 Score=88.18 Aligned_cols=83 Identities=22% Similarity=0.414 Sum_probs=61.6
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccccCCCCccccCChhHHHHhhhhcHHHHHHHHHH
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRLFMY 141 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 141 (162)
.-+.|-||-+.+..|+.++|||.||.-||..++..+..||+||.+..... +..+..+.++.+.-...+.-+......
T Consensus 24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr---lr~~s~~~ei~es~~~~r~~l~~~L~~ 100 (391)
T COG5432 24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR---LRGSSGSREINESHARNRDLLRKVLES 100 (391)
T ss_pred hHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhh---cccchhHHHHHHhhhhccHHHHHHHhc
Confidence 34789999999999999999999999999999999999999999986443 444455556555544444444444444
Q ss_pred HhcCCC
Q 031282 142 IDKLPF 147 (162)
Q Consensus 142 ~~~~p~ 147 (162)
...+|.
T Consensus 101 ~~~~p~ 106 (391)
T COG5432 101 LCRLPR 106 (391)
T ss_pred ccCCCC
Confidence 444444
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.96 E-value=5.8e-10 Score=61.70 Aligned_cols=38 Identities=39% Similarity=1.037 Sum_probs=34.5
Q ss_pred eeccccccccceecCCCCcccHHhHHHHhh-cCCCCccc
Q 031282 66 CGICLEICCKIVLPDCNHSMCMRCYRNWRA-RSQSCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~C 103 (162)
|+||++....++.++|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988899999999999999999987 66779987
No 22
>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=98.92 E-value=5.7e-10 Score=71.64 Aligned_cols=60 Identities=22% Similarity=0.282 Sum_probs=44.8
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHhhc-CCCCccccccccccCCCCccccCChhHH
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSLRRVNSGDLWIYTSEDDI 124 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 124 (162)
+.+.|+|+.+.+.+|+.+++||+|+..||..|+.. ...||+|+.++.. ..+..|..+...
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~---~~l~pn~~Lk~~ 63 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE---SDLIPNRALKSA 63 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG---GGSEE-HHHHHH
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc---ccceECHHHHHH
Confidence 56899999999999999999999999999999997 8899999998863 335555444443
No 23
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=8.4e-10 Score=89.64 Aligned_cols=96 Identities=33% Similarity=0.682 Sum_probs=72.5
Q ss_pred ccccCCCCCeeeccccccccce-----e---cCCCCcccHHhHHHHhh--c-----CCCCccccccccccCCCCccccCC
Q 031282 56 SEIDIEREEECGICLEICCKIV-----L---PDCNHSMCMRCYRNWRA--R-----SQSCPFCRDSLRRVNSGDLWIYTS 120 (162)
Q Consensus 56 ~~~~~~~~~~C~IC~~~~~~~~-----~---~~CgH~fc~~Ci~~~~~--~-----~~~CP~Cr~~~~~~~~~~~~~~~~ 120 (162)
.......+..|.||++...+.. . .+|.|.||..|+..|.. + .+.||.||.....+++..+|+...
T Consensus 154 ~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~ 233 (344)
T KOG1039|consen 154 FALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETK 233 (344)
T ss_pred cCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeec
Confidence 3333456889999999888654 3 68999999999999983 4 578999999999999999898876
Q ss_pred hhHHHHhhhhcHHHHHHHHHHHhcCCCCCCC
Q 031282 121 EDDIVDLASISRENLKRLFMYIDKLPFITPN 151 (162)
Q Consensus 121 ~~~~~~~~~~~~~~~~~l~~~~~~~p~~~p~ 151 (162)
..+.....+...+.-.+...|....+...|.
T Consensus 234 ~~k~~li~e~~~~~s~~~c~yf~~~~g~cPf 264 (344)
T KOG1039|consen 234 EEKQKLIEEYEAEMSAKDCKYFSQGLGSCPF 264 (344)
T ss_pred ccccccHHHHHHHhhccchhhhcCCCCCCCC
Confidence 6554444444444444556777777777774
No 24
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=98.90 E-value=2e-09 Score=90.51 Aligned_cols=146 Identities=16% Similarity=0.310 Sum_probs=97.5
Q ss_pred chhHhHhhHHHhhhhhchhHHHHHhhcCChHHHHHHHHhHHHHhhhcccccCCCccccCCCCCeeeccccccccceecCC
Q 031282 2 CTRERKASIKEFYGVIFPSLLQLQRGITDVEDKKQKEICDAKYKKKGRMDKGKLSEIDIEREEECGICLEICCKIVLPDC 81 (162)
Q Consensus 2 ~~~~r~~ti~~~~~~i~~~l~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~C 81 (162)
.+|--+|++++.|+.||..+.++++....++--...+ .++ ... +......|.+|.+...+++...|
T Consensus 489 ntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~------~~n-------~~~-enk~~~~C~lc~d~aed~i~s~C 554 (791)
T KOG1002|consen 489 NTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSA------NAN-------LPD-ENKGEVECGLCHDPAEDYIESSC 554 (791)
T ss_pred hhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehh------hcC-------CCc-cccCceeecccCChhhhhHhhhh
Confidence 3567789999999999999999986655554222211 011 111 11456789999999999999999
Q ss_pred CCcccHHhHHHHhh-----cCCCCccccccccccCCCCccccCCh-----hHHHHhhhh-------cHHHHHHHHHHHhc
Q 031282 82 NHSMCMRCYRNWRA-----RSQSCPFCRDSLRRVNSGDLWIYTSE-----DDIVDLASI-------SRENLKRLFMYIDK 144 (162)
Q Consensus 82 gH~fc~~Ci~~~~~-----~~~~CP~Cr~~~~~~~~~~~~~~~~~-----~~~~~~~~~-------~~~~~~~l~~~~~~ 144 (162)
.|.||.-|+..+.. .+.+||.|...+.-..+.+.--...+ ..++++... .-|.+++-+-+++.
T Consensus 555 hH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~ 634 (791)
T KOG1002|consen 555 HHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRE 634 (791)
T ss_pred hHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHH
Confidence 99999999988765 35789999888853322221111111 112222211 22455666677787
Q ss_pred CCCCCCCcceecccCCC
Q 031282 145 LPFITPNPTLVSYDPRY 161 (162)
Q Consensus 145 ~p~~~p~~~~~~~~~~~ 161 (162)
-+.-...-||++|+|++
T Consensus 635 rd~t~KsIVFSQFTSmL 651 (791)
T KOG1002|consen 635 RDRTAKSIVFSQFTSML 651 (791)
T ss_pred cccchhhhhHHHHHHHH
Confidence 88888899999999875
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.86 E-value=1.1e-09 Score=62.94 Aligned_cols=35 Identities=29% Similarity=0.800 Sum_probs=21.8
Q ss_pred eecccccccc----ceecCCCCcccHHhHHHHhhc----CCCCc
Q 031282 66 CGICLEICCK----IVLPDCNHSMCMRCYRNWRAR----SQSCP 101 (162)
Q Consensus 66 C~IC~~~~~~----~~~~~CgH~fc~~Ci~~~~~~----~~~CP 101 (162)
|+||.+ +.+ |+.|+|||.||.+|+.++... ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 776 899999999999999998763 33565
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=1.5e-09 Score=84.18 Aligned_cols=48 Identities=27% Similarity=0.693 Sum_probs=43.2
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHH-HhhcCCC-Ccccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRN-WRARSQS-CPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~-~~~~~~~-CP~Cr~~~~ 108 (162)
..+..|.||++....|..++|||.||..||.. |-.+... ||+||+...
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 45889999999999999999999999999999 9876655 999999874
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=1.6e-09 Score=90.72 Aligned_cols=47 Identities=34% Similarity=0.803 Sum_probs=41.5
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHH-Hhh----cCCCCccccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRN-WRA----RSQSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~-~~~----~~~~CP~Cr~~~~~ 109 (162)
+..||||++....|+.+.|||.||..||.. |.. ....||+||..+..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 789999999999999999999999999999 544 24579999999964
No 28
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.83 E-value=3e-09 Score=69.51 Aligned_cols=47 Identities=30% Similarity=0.786 Sum_probs=38.0
Q ss_pred CCCeeecccccccc------------c-eecCCCCcccHHhHHHHhhc---CCCCcccccccc
Q 031282 62 REEECGICLEICCK------------I-VLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~------------~-~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~ 108 (162)
++..|+||...|.. | +.-.|+|.||..||.+|+.. ...||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47789999887771 2 33579999999999999984 468999999875
No 29
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=1.6e-09 Score=64.32 Aligned_cols=46 Identities=37% Similarity=0.800 Sum_probs=41.5
Q ss_pred CeeeccccccccceecCCCCc-ccHHhHHH-HhhcCCCCccccccccc
Q 031282 64 EECGICLEICCKIVLPDCNHS-MCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
.+|.||++...+.++..|||. .|..|-.+ |...+..||+||.++..
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 689999999999999999997 89999988 66678899999999864
No 30
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=7e-09 Score=81.95 Aligned_cols=47 Identities=30% Similarity=0.808 Sum_probs=40.6
Q ss_pred CCCeeecccccccc---ceecCCCCcccHHhHHHHhh-cCCCCcccccccc
Q 031282 62 REEECGICLEICCK---IVLPDCNHSMCMRCYRNWRA-RSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~---~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 108 (162)
....|+||++.+.+ -+.+||.|.||..|+.+|.. -+..||+||.+++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 34789999999874 35689999999999999987 5778999999885
No 31
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=5.2e-09 Score=90.40 Aligned_cols=47 Identities=38% Similarity=0.725 Sum_probs=43.3
Q ss_pred CCCCeeecccccccc-----ceecCCCCcccHHhHHHHhhcCCCCccccccc
Q 031282 61 EREEECGICLEICCK-----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~-----~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
..+..|+||.+.+.. +..++|||.||..|+..|+++..+||+||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 457899999999997 78899999999999999999999999999955
No 32
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.68 E-value=4e-09 Score=65.05 Aligned_cols=58 Identities=28% Similarity=0.619 Sum_probs=29.0
Q ss_pred CCCeeecccccccccee-cCCCCcccHHhHHHHhhcCCCCccccccccccCCCCccccCChhHH
Q 031282 62 REEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDI 124 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 124 (162)
+.+.|++|.+.+.+|+. ..|.|.||..|+..-+. ..||+|+.+.. ..++..|..++++
T Consensus 6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw---~qD~~~NrqLd~~ 64 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW---IQDIQINRQLDSM 64 (65)
T ss_dssp HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S----SS----HHHHHH
T ss_pred HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHH---HHHHHhhhhhhcc
Confidence 45789999999999975 79999999999977433 45999999885 3345555555443
No 33
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=98.64 E-value=2.5e-08 Score=79.63 Aligned_cols=93 Identities=18% Similarity=0.380 Sum_probs=71.8
Q ss_pred CCCCCeeecccccccccee-cCCCCcccHHhHHHHhhcCCCCccccccccccC-CCCccccCChhHHHHhhh--hcHHHH
Q 031282 60 IEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVN-SGDLWIYTSEDDIVDLAS--ISRENL 135 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~ 135 (162)
......|.+|..++.++.+ ..|-|+||.+||..++.....||.|...+.... ...+.....+.+++-.-- ....++
T Consensus 12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~erE~ 91 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQEREM 91 (331)
T ss_pred cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHHHHH
Confidence 4567899999999999866 689999999999999888999999999886443 333444444555443322 567889
Q ss_pred HHHHHHHhcCC-CCCCCc
Q 031282 136 KRLFMYIDKLP-FITPNP 152 (162)
Q Consensus 136 ~~l~~~~~~~p-~~~p~~ 152 (162)
+++..|+++.| .++|..
T Consensus 92 k~~rdFy~~~~~~d~~~~ 109 (331)
T KOG2660|consen 92 KRRRDFYKSRPLVDVPAG 109 (331)
T ss_pred HHHHHHHHhCCCcccCCC
Confidence 99999999999 777743
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.3e-08 Score=79.77 Aligned_cols=45 Identities=38% Similarity=0.786 Sum_probs=40.5
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
.+...|+||++.+.+|..++|||.||..|+..+......||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 577899999999999988999999999999996556678999995
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=98.57 E-value=1.1e-07 Score=75.99 Aligned_cols=50 Identities=28% Similarity=0.632 Sum_probs=37.7
Q ss_pred CCCeeeccccc-cccce---e-cCCCCcccHHhHHH-HhhcCCCCccccccccccC
Q 031282 62 REEECGICLEI-CCKIV---L-PDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 111 (162)
Q Consensus 62 ~~~~C~IC~~~-~~~~~---~-~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~~~ 111 (162)
++..||+|... +.+|. + .+|||.||..|+.. |......||.|+.++....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 34689999974 33332 2 27999999999999 6566678999999996544
No 36
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=2.5e-08 Score=87.03 Aligned_cols=48 Identities=23% Similarity=0.701 Sum_probs=43.4
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHH-HhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
.-+.|++|...+.+.+.+.|||.||..|+.+ +-.+...||.|...|..
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 4589999999999999999999999999999 55588999999999964
No 37
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=8.7e-08 Score=77.17 Aligned_cols=66 Identities=27% Similarity=0.615 Sum_probs=51.1
Q ss_pred CCCCCeeecccccccccee-cCCCCcccHHhHHH-HhhcCCCCccccccccccCCCCccccCChhHHHHh
Q 031282 60 IEREEECGICLEICCKIVL-PDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDL 127 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~ 127 (162)
+..++.|+||++.+....+ ..|+|.||..||.. .......||.||+.+. ..+.+.....+..++..
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~--SkrsLr~Dp~fdaLis~ 107 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV--SKRSLRIDPNFDALISK 107 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc--ccccCCCCccHHHHHHH
Confidence 3567899999999998765 57999999999988 4557889999999986 34456666665555444
No 38
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3.4e-07 Score=75.93 Aligned_cols=50 Identities=34% Similarity=0.780 Sum_probs=46.0
Q ss_pred CCCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 60 IEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
...++.|.||+..+.+|+.++|||.||..|+.+-+.....||.||.++..
T Consensus 81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 36789999999999999999999999999999987888899999999964
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=4.6e-07 Score=73.20 Aligned_cols=49 Identities=33% Similarity=0.821 Sum_probs=44.3
Q ss_pred CCCCeeeccccccccceecCCCCc-ccHHhHHHHhhcCCCCccccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
....+|-||+....+.+.+||.|. .|..|.+...-+...||+||.++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 446799999999999999999997 8999999988788899999999963
No 40
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=9.2e-07 Score=69.06 Aligned_cols=48 Identities=25% Similarity=0.716 Sum_probs=39.4
Q ss_pred CCCCeeeccccccc----------cceecCCCCcccHHhHHHHhh--cCCCCcccccccc
Q 031282 61 EREEECGICLEICC----------KIVLPDCNHSMCMRCYRNWRA--RSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~----------~~~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~ 108 (162)
.++..|+||-..+. +...++|+|.||..||+.|.. +..+||.|+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 56788999987665 345689999999999999975 5678999988773
No 41
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=5.5e-07 Score=71.26 Aligned_cols=48 Identities=25% Similarity=0.641 Sum_probs=41.5
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHH-HhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
....|+||+....-|+.++|+|.||.-||+. +.....+|++||.++..
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 4567999999999999999999999999999 44456679999999963
No 42
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.14 E-value=1e-06 Score=65.98 Aligned_cols=60 Identities=23% Similarity=0.610 Sum_probs=47.9
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccccCCCCccccCChhHHHH
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVD 126 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 126 (162)
.+.|.||...+..|+.+.|||.||..|...-......|.+|.+... ..+++...++.|+.
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~----G~f~V~~d~~kmL~ 255 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY----GRFWVVSDLQKMLN 255 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc----cceeHHhhHHHHHh
Confidence 4789999999999999999999999999887777889999987663 23455555554443
No 43
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.1e-05 Score=63.20 Aligned_cols=53 Identities=26% Similarity=0.546 Sum_probs=42.9
Q ss_pred ccccCCCCCeeeccccccccceec-CCCCcccHHhHHHHhh--cCCCCcccccccc
Q 031282 56 SEIDIEREEECGICLEICCKIVLP-DCNHSMCMRCYRNWRA--RSQSCPFCRDSLR 108 (162)
Q Consensus 56 ~~~~~~~~~~C~IC~~~~~~~~~~-~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~ 108 (162)
.......+.+|++|.+....|... +|||.||..|+..-.. .+.+||.|..+..
T Consensus 232 sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 232 SSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 333446788999999999999775 5999999999988433 5789999988775
No 44
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.99 E-value=2.3e-06 Score=76.62 Aligned_cols=52 Identities=27% Similarity=0.683 Sum_probs=41.2
Q ss_pred ccCCCCCeeeccccccc--c-----ceecCCCCcccHHhHHHHhh--cCCCCccccccccc
Q 031282 58 IDIEREEECGICLEICC--K-----IVLPDCNHSMCMRCYRNWRA--RSQSCPFCRDSLRR 109 (162)
Q Consensus 58 ~~~~~~~~C~IC~~~~~--~-----~~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~~ 109 (162)
...+...+|+||+..+. + .....|.|.||..|+.+|+. .+.+||+||..++.
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 34567789999998877 1 23346999999999999997 46689999988863
No 45
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.98 E-value=1.3e-06 Score=55.58 Aligned_cols=46 Identities=28% Similarity=0.793 Sum_probs=23.5
Q ss_pred CCeeeccccccc-c---cee----cCCCCcccHHhHHHHhhc-----------CCCCcccccccc
Q 031282 63 EEECGICLEICC-K---IVL----PDCNHSMCMRCYRNWRAR-----------SQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~-~---~~~----~~CgH~fc~~Ci~~~~~~-----------~~~CP~Cr~~~~ 108 (162)
+..|+||+.... + |.. ..|++.||..||.+|+.. ...||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 457999998765 2 222 279999999999999862 125999999885
No 46
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.6e-06 Score=70.65 Aligned_cols=48 Identities=29% Similarity=0.706 Sum_probs=38.8
Q ss_pred CCCCeeecccccccc-----------------ceecCCCCcccHHhHHHHhhc-CCCCcccccccc
Q 031282 61 EREEECGICLEICCK-----------------IVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~-----------------~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~ 108 (162)
+....|+||+..+.- -..+||.|.||..|+.+|... +-.||.||.+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 456789999976651 134699999999999999984 458999999985
No 47
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.92 E-value=4.5e-06 Score=69.57 Aligned_cols=49 Identities=29% Similarity=0.727 Sum_probs=45.1
Q ss_pred CCCCCeeecccccccccee-cCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 60 IEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
..+++.|++|...+.+|+. +.|||.||..|+..|...+..||.|+..+.
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccc
Confidence 4577999999999999999 599999999999999999999999988885
No 48
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.92 E-value=5.4e-06 Score=68.84 Aligned_cols=48 Identities=31% Similarity=0.676 Sum_probs=39.0
Q ss_pred cCCCCCeeeccccccccc----eecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 59 DIEREEECGICLEICCKI----VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 59 ~~~~~~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
...+-.+||||++.+-.- +.+.|.|+||..|+..|. ..+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 345667999999998853 457899999999999994 478999998664
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.91 E-value=4.3e-06 Score=68.68 Aligned_cols=47 Identities=34% Similarity=0.879 Sum_probs=41.6
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhh--cCCCCccccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRA--RSQSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~~ 109 (162)
-.-|.||-+.-++...-||||..|..|+..|.. .+.+||+||..+..
T Consensus 369 FeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 369 FELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 357999999999998999999999999999985 36789999999964
No 50
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=3.3e-06 Score=53.72 Aligned_cols=46 Identities=28% Similarity=0.712 Sum_probs=35.3
Q ss_pred CCeeecccccccc------------ce-ecCCCCcccHHhHHHHhh---cCCCCcccccccc
Q 031282 63 EEECGICLEICCK------------IV-LPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~------------~~-~~~CgH~fc~~Ci~~~~~---~~~~CP~Cr~~~~ 108 (162)
+..|.||.-.|.. |. .--|.|.||..||.+|+. ....||+||..+.
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3488888877762 22 235999999999999986 3567999999875
No 51
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=2.1e-05 Score=63.75 Aligned_cols=48 Identities=23% Similarity=0.620 Sum_probs=44.7
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.++..|+||+....+.+..||+|.-|+.||.+.+-+.+.|-+|+..+.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 578899999999999999999999999999999999999999988775
No 52
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=7.2e-06 Score=64.84 Aligned_cols=47 Identities=21% Similarity=0.500 Sum_probs=42.8
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
-.+.|-||...+..||.+.|||.||..|...-+..+..|++|.+.+.
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 35789999999999999999999999999988888899999988774
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.83 E-value=1.2e-05 Score=49.00 Aligned_cols=42 Identities=21% Similarity=0.369 Sum_probs=29.9
Q ss_pred CCCCeeecccccccccee-cCCCCcccHHhHHHHhh--cCCCCcc
Q 031282 61 EREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRA--RSQSCPF 102 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~--~~~~CP~ 102 (162)
...+.|||.+..+.+|+. ..|||.|..+.|..|+. ....||.
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 456899999999999988 59999999999999994 4567998
No 54
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.78 E-value=1.8e-05 Score=46.71 Aligned_cols=40 Identities=20% Similarity=0.674 Sum_probs=31.1
Q ss_pred eeecccc--ccccceecCCC-----CcccHHhHHHHhhc--CCCCcccc
Q 031282 65 ECGICLE--ICCKIVLPDCN-----HSMCMRCYRNWRAR--SQSCPFCR 104 (162)
Q Consensus 65 ~C~IC~~--~~~~~~~~~Cg-----H~fc~~Ci~~~~~~--~~~CP~Cr 104 (162)
.|.||++ .-.++...||. |.+|..|+.+|+.. ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889997 33356778885 78999999999964 45899994
No 55
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.73 E-value=1.7e-05 Score=50.93 Aligned_cols=29 Identities=28% Similarity=0.674 Sum_probs=27.3
Q ss_pred CCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 80 DCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 80 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
-|.|.||..||.+|+.....||++|+++.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 59999999999999999999999999875
No 56
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=1.2e-05 Score=63.61 Aligned_cols=42 Identities=29% Similarity=0.842 Sum_probs=36.6
Q ss_pred CCeeeccccccccceecCCCCc-ccHHhHHHHhhcCCCCcccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
..-|.||++...+.++|+|||. -|..|-... ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 6789999999999999999996 799996543 48999999775
No 57
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=3.6e-05 Score=63.03 Aligned_cols=44 Identities=30% Similarity=0.730 Sum_probs=33.0
Q ss_pred Ceeeccccccccc----eecCCCCcccHHhHHHHhhc--C-CCCccccccc
Q 031282 64 EECGICLEICCKI----VLPDCNHSMCMRCYRNWRAR--S-QSCPFCRDSL 107 (162)
Q Consensus 64 ~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~--~-~~CP~Cr~~~ 107 (162)
..|.||.+.+... ..-.|||.||..|+..|++. + ..||.|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 4799996655532 22359999999999999983 3 5799999544
No 58
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=97.57 E-value=4.5e-05 Score=67.46 Aligned_cols=146 Identities=14% Similarity=0.302 Sum_probs=77.7
Q ss_pred hHhHhhHHHhhhhhchhHHHHHhhcCChHHHHHHHHhHHHHhhhcccccCCCccccCCCCCeeeccccccccceecCCCC
Q 031282 4 RERKASIKEFYGVIFPSLLQLQRGITDVEDKKQKEICDAKYKKKGRMDKGKLSEIDIEREEECGICLEICCKIVLPDCNH 83 (162)
Q Consensus 4 ~~r~~ti~~~~~~i~~~l~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~CgH 83 (162)
+.-.+++...|+.++..++++++...+...-.....+.+-.......... -.........|.+|.+ ...++.+.|||
T Consensus 397 ~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~--~i~~l~~~~~c~ic~~-~~~~~it~c~h 473 (674)
T KOG1001|consen 397 YANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIR--LIVDLSVSHWCHICCD-LDSFFITRCGH 473 (674)
T ss_pred HhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchHHHH--HHHHHhhccccccccc-cccceeecccc
Confidence 44567788889999888888875444443222111000000000000000 0001111279999999 77888899999
Q ss_pred cccHHhHHHHhh-c-CCCCccccccccccCCCCc-cccCChhHHHHhhhhcHHHHHHHHHHHhcCCCCCCCcceecc
Q 031282 84 SMCMRCYRNWRA-R-SQSCPFCRDSLRRVNSGDL-WIYTSEDDIVDLASISRENLKRLFMYIDKLPFITPNPTLVSY 157 (162)
Q Consensus 84 ~fc~~Ci~~~~~-~-~~~CP~Cr~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~p~~~~~~~ 157 (162)
.||..|+..... . ...||.||..+........ .....+.... -.+..+..+.+++...++..- ...++|
T Consensus 474 ~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~~~~~~~~----~~s~ki~~~~~~l~~~~~s~~-~kiiif 545 (674)
T KOG1001|consen 474 DFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLPSIINDLL----PESSKIYAFLKILQAKEMSEQ-PKIVIF 545 (674)
T ss_pred hHHHHHHHhccccccCCCCcHHHHHHHHHHHhhcccccchhhhcc----chhhhhHHHHHHHhhccCCCC-Cceeee
Confidence 999999999443 3 3369999998853322211 1111111101 144555666666665555433 244444
No 59
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=7.1e-05 Score=50.41 Aligned_cols=29 Identities=24% Similarity=0.690 Sum_probs=26.5
Q ss_pred CCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 80 DCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 80 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.|.|.||..||.+|+.....||+|.++-.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 69999999999999999999999987653
No 60
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.33 E-value=4.3e-05 Score=67.45 Aligned_cols=51 Identities=27% Similarity=0.623 Sum_probs=39.8
Q ss_pred CCeeeccccccccc---eecCCCCcccHHhHHHHhhcCCCCccccccccccCCC
Q 031282 63 EEECGICLEICCKI---VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSG 113 (162)
Q Consensus 63 ~~~C~IC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 113 (162)
...|++|+..+.+. ...+|+|.||..|+..|.....+||+||..|..+.+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 34677777665543 2357999999999999999999999999999765543
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.22 E-value=0.00019 Score=42.97 Aligned_cols=45 Identities=29% Similarity=0.699 Sum_probs=36.4
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
...|-.|...-...+.++|||..|..|...+ +.+.||+|..++..
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh--hccCCCCCCCcccC
Confidence 4567777777778889999999999996654 66789999998853
No 62
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.19 E-value=0.00018 Score=57.32 Aligned_cols=43 Identities=21% Similarity=0.570 Sum_probs=38.1
Q ss_pred CCeeeccccccccceec-CCCCcccHHhHHH-HhhcCCCCccccc
Q 031282 63 EEECGICLEICCKIVLP-DCNHSMCMRCYRN-WRARSQSCPFCRD 105 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~-~CgH~fc~~Ci~~-~~~~~~~CP~Cr~ 105 (162)
.+.|+.|..++.+|+.+ -|+|.||..||.. ++...+.||.|..
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 38999999999999887 6899999999998 6678899999955
No 63
>PHA03096 p28-like protein; Provisional
Probab=97.16 E-value=0.00057 Score=54.62 Aligned_cols=67 Identities=22% Similarity=0.395 Sum_probs=42.8
Q ss_pred cCChHHHHH-HHHhHHHHhhhcccccCCCccccCCCCCeeecccccccc--------ceecCCCCcccHHhHHHHhhc--
Q 031282 28 ITDVEDKKQ-KEICDAKYKKKGRMDKGKLSEIDIEREEECGICLEICCK--------IVLPDCNHSMCMRCYRNWRAR-- 96 (162)
Q Consensus 28 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~--------~~~~~CgH~fc~~Ci~~~~~~-- 96 (162)
+.+.+++.. ...+......... .-.|.||++.... ..+..|.|.||..|+..|...
T Consensus 155 p~d~eqr~~h~k~c~~~~~~~~~-------------~k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~ 221 (284)
T PHA03096 155 PTDIKQRYNEQKTCLSYQLRLLL-------------SKICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL 221 (284)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHH-------------HhhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh
Confidence 455555554 5555544433321 1579999987662 355689999999999999863
Q ss_pred -CCCCccccccc
Q 031282 97 -SQSCPFCRDSL 107 (162)
Q Consensus 97 -~~~CP~Cr~~~ 107 (162)
..+||.||...
T Consensus 222 ~~e~~~~c~~~~ 233 (284)
T PHA03096 222 YKETEPENRRLN 233 (284)
T ss_pred hcccCccccchh
Confidence 33455555443
No 64
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00053 Score=55.82 Aligned_cols=45 Identities=29% Similarity=0.727 Sum_probs=35.6
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.....|.||.+...+.+.+||||.-| |..- ......||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLC-SKHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHH-HhhCCCCchhHHHHH
Confidence 45678999999999999999999866 5544 233455999999875
No 65
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00042 Score=57.27 Aligned_cols=48 Identities=25% Similarity=0.703 Sum_probs=38.4
Q ss_pred CCCeeeccccccccc-----eecCCCCcccHHhHHHHhhc--CCCCccccccccc
Q 031282 62 REEECGICLEICCKI-----VLPDCNHSMCMRCYRNWRAR--SQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~-----~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~ 109 (162)
....||||++.+.-+ +.+.|||.|-..|+.+|+.+ ...||.|...-.+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 356899999998854 55799999999999999963 3469999776643
No 66
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00055 Score=54.84 Aligned_cols=45 Identities=31% Similarity=0.716 Sum_probs=37.3
Q ss_pred CCeeeccccccc------cceecCCCCcccHHhHHHHhhc-CCCCccccccc
Q 031282 63 EEECGICLEICC------KIVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSL 107 (162)
Q Consensus 63 ~~~C~IC~~~~~------~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~ 107 (162)
...|-||-+.+. .|..+.|||.+|..|+...+.. ...||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 357999998888 3677889999999999997664 55699999985
No 67
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.82 E-value=0.0019 Score=57.84 Aligned_cols=42 Identities=26% Similarity=0.513 Sum_probs=35.3
Q ss_pred CCeeeccccccccc-eecCCCCcccHHhHHHHhhcCCCCccccccc
Q 031282 63 EEECGICLEICCKI-VLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 63 ~~~C~IC~~~~~~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
...|..|-..+.-| |...|||.||.+|+. .....||.|+...
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 46899999999977 448999999999987 5678899998743
No 68
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.69 E-value=0.0012 Score=51.16 Aligned_cols=43 Identities=28% Similarity=0.815 Sum_probs=30.9
Q ss_pred Ceeeccccccc-cc-eecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 64 EECGICLEICC-KI-VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 64 ~~C~IC~~~~~-~~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
..|..|..... ++ .++.|+|+||..|...-. ...||+|++++.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir 48 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIR 48 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceee
Confidence 45777765544 33 457999999999976522 228999999975
No 69
>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=96.58 E-value=0.002 Score=43.58 Aligned_cols=34 Identities=21% Similarity=0.520 Sum_probs=27.3
Q ss_pred ccCCCCCeeeccccccccc--eecCCCCcccHHhHH
Q 031282 58 IDIEREEECGICLEICCKI--VLPDCNHSMCMRCYR 91 (162)
Q Consensus 58 ~~~~~~~~C~IC~~~~~~~--~~~~CgH~fc~~Ci~ 91 (162)
.....+..|++|...+.+. +..||||.||..|+.
T Consensus 73 v~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 73 VVITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EEECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 3445677899999999865 447999999999975
No 70
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=96.55 E-value=0.0012 Score=55.20 Aligned_cols=35 Identities=29% Similarity=0.686 Sum_probs=31.7
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhh
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRA 95 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~ 95 (162)
++++.|+||...|.+|+.++|+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 56789999999999999999999999999987554
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.52 E-value=0.0026 Score=51.82 Aligned_cols=50 Identities=24% Similarity=0.537 Sum_probs=42.3
Q ss_pred CCCCCeeeccccccccceecCCCCcccHHhHHHH--hhcCCCCccccccccc
Q 031282 60 IEREEECGICLEICCKIVLPDCNHSMCMRCYRNW--RARSQSCPFCRDSLRR 109 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~--~~~~~~CP~Cr~~~~~ 109 (162)
.++...|-||-+.+.-...+||+|..|--|..+. +...+.||+||.....
T Consensus 58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 3567899999999888888999999999999884 4478899999987753
No 72
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.49 E-value=0.0036 Score=59.18 Aligned_cols=49 Identities=24% Similarity=0.679 Sum_probs=36.9
Q ss_pred CCCCeeeccccc-cc--cceecCCCCcccHHhHHHHhhc----------CCCCccccccccc
Q 031282 61 EREEECGICLEI-CC--KIVLPDCNHSMCMRCYRNWRAR----------SQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~-~~--~~~~~~CgH~fc~~Ci~~~~~~----------~~~CP~Cr~~~~~ 109 (162)
..+..|-||+.. +. ..+.+.|+|.||..|....+++ -.+||+|..++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 356789999754 33 4577999999999998775442 2479999998864
No 73
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.44 E-value=0.00095 Score=55.03 Aligned_cols=46 Identities=33% Similarity=0.679 Sum_probs=36.3
Q ss_pred CCCCeeecccccccc----ceecCCCCcccHHhHHHHhhc--CCCCcccccc
Q 031282 61 EREEECGICLEICCK----IVLPDCNHSMCMRCYRNWRAR--SQSCPFCRDS 106 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~----~~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~ 106 (162)
+-++.|..|-+.+.- ---+||.|.||..|+..++.+ ..+||-||+-
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 346789999988772 233899999999999997764 4679999943
No 74
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.38 E-value=0.0038 Score=49.89 Aligned_cols=47 Identities=26% Similarity=0.687 Sum_probs=36.8
Q ss_pred CCCeeeccccccccc---eecCCCCcccHHhHHHHhh-----------------------cCCCCcccccccc
Q 031282 62 REEECGICLEICCKI---VLPDCNHSMCMRCYRNWRA-----------------------RSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~---~~~~CgH~fc~~Ci~~~~~-----------------------~~~~CP~Cr~~~~ 108 (162)
....|.||+--|.+. ..++|.|-||..|+.+++. ....||+||..+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 457899999888743 5589999999999977654 1236999999985
No 75
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.25 E-value=0.0038 Score=48.60 Aligned_cols=50 Identities=14% Similarity=0.268 Sum_probs=43.5
Q ss_pred CCCeeeccccccccc----eecCCCCcccHHhHHHHhhcCCCCccccccccccC
Q 031282 62 REEECGICLEICCKI----VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVN 111 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~ 111 (162)
..+.||+|.+.+.+. ++-+|||.||.+|..++......||+|-.++...+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 457899999999974 55699999999999999998999999999986544
No 76
>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=96.23 E-value=0.0037 Score=45.49 Aligned_cols=34 Identities=26% Similarity=0.556 Sum_probs=25.9
Q ss_pred CCCeeeccccccccceecCC------------CCc-ccHHhHHHHhh
Q 031282 62 REEECGICLEICCKIVLPDC------------NHS-MCMRCYRNWRA 95 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~C------------gH~-fc~~Ci~~~~~ 95 (162)
++..|+||++...++|+|-| +.. -|..|+.++.+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 35789999999999999854 332 26789988664
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.11 E-value=0.0081 Score=47.49 Aligned_cols=49 Identities=16% Similarity=0.404 Sum_probs=39.7
Q ss_pred CCCCeeecccccccc----ceecCCCCcccHHhHHHHhhcCCCCcccccccccc
Q 031282 61 EREEECGICLEICCK----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 110 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~----~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 110 (162)
...+.|||....+.. ..+.+|||.|+..++.... ....||+|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence 456899999988853 2446999999999999974 466799999999743
No 78
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.02 E-value=0.0064 Score=35.55 Aligned_cols=42 Identities=26% Similarity=0.696 Sum_probs=20.9
Q ss_pred eeccccccccc--eec--CCCCcccHHhHHHHhh-cCCCCccccccc
Q 031282 66 CGICLEICCKI--VLP--DCNHSMCMRCYRNWRA-RSQSCPFCRDSL 107 (162)
Q Consensus 66 C~IC~~~~~~~--~~~--~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~ 107 (162)
|++|.+.+... ... +||+..|..|...... ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 67888877422 223 6889999999988775 578899999874
No 79
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.0048 Score=51.24 Aligned_cols=45 Identities=22% Similarity=0.554 Sum_probs=34.3
Q ss_pred CCCCeeecccccccc---ceecCCCCcccHHhHHHHhh--------cCCCCccccc
Q 031282 61 EREEECGICLEICCK---IVLPDCNHSMCMRCYRNWRA--------RSQSCPFCRD 105 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~---~~~~~CgH~fc~~Ci~~~~~--------~~~~CP~Cr~ 105 (162)
.....|.||++.... -+.+||+|.||..|+..+.. +.-.||-+.-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 356789999988774 36699999999999999765 2335776644
No 80
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.0056 Score=49.42 Aligned_cols=47 Identities=17% Similarity=0.359 Sum_probs=39.3
Q ss_pred CCCCeeeccccccccceec-CCCCcccHHhHHHHhhcCCCCccccccc
Q 031282 61 EREEECGICLEICCKIVLP-DCNHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
.+...|++|+..-.+|..+ --|-.||..|+..+......||+=..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 3557899999999988665 4599999999999999999999865554
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.0045 Score=45.99 Aligned_cols=47 Identities=26% Similarity=0.656 Sum_probs=35.1
Q ss_pred CCeeeccccccccce-------ecCCCCcccHHhHHHHhhc------C-----CCCccccccccc
Q 031282 63 EEECGICLEICCKIV-------LPDCNHSMCMRCYRNWRAR------S-----QSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~-------~~~CgH~fc~~Ci~~~~~~------~-----~~CP~Cr~~~~~ 109 (162)
...|.||+.+--+.. ...||..||.-|+..|+.. + ..||.|..++.-
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 456888886554332 2479999999999999972 1 369999999863
No 82
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.58 E-value=0.019 Score=41.86 Aligned_cols=47 Identities=23% Similarity=0.587 Sum_probs=35.5
Q ss_pred CCCCeeeccccccccceecCCCC-----cccHHhHHHHhh--cCCCCcccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNH-----SMCMRCYRNWRA--RSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH-----~fc~~Ci~~~~~--~~~~CP~Cr~~~~ 108 (162)
..+..|-||.+.-. +...||.. .-|.+|+.+|.. +...|++|+.++.
T Consensus 6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 45678999998754 33456654 349999999987 4567999988884
No 83
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.011 Score=45.52 Aligned_cols=47 Identities=19% Similarity=0.487 Sum_probs=38.8
Q ss_pred CCCeeeccccccc--cceecCCCCcccHHhHHHHhhc--------CCCCcccccccc
Q 031282 62 REEECGICLEICC--KIVLPDCNHSMCMRCYRNWRAR--------SQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~--~~~~~~CgH~fc~~Ci~~~~~~--------~~~CP~Cr~~~~ 108 (162)
-.-.|..|...+. +.+.+.|-|.||..|+..|... ...||.|..++-
T Consensus 49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3467999998888 4577999999999999999762 457999988873
No 84
>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=95.28 E-value=0.027 Score=44.82 Aligned_cols=45 Identities=24% Similarity=0.616 Sum_probs=33.1
Q ss_pred eeeccccc-cccc----eecCCCCcccHHhHHHHhh-cCCCCccccccccc
Q 031282 65 ECGICLEI-CCKI----VLPDCNHSMCMRCYRNWRA-RSQSCPFCRDSLRR 109 (162)
Q Consensus 65 ~C~IC~~~-~~~~----~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~ 109 (162)
.||+|... +.+| ..-+|||..|.+|....+. +...||.|...+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence 48888643 3344 1138999999999999654 67789999887743
No 85
>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=95.26 E-value=0.031 Score=46.16 Aligned_cols=28 Identities=32% Similarity=0.920 Sum_probs=22.0
Q ss_pred CCCcccHHhHHHHhh-------------cCCCCcccccccc
Q 031282 81 CNHSMCMRCYRNWRA-------------RSQSCPFCRDSLR 108 (162)
Q Consensus 81 CgH~fc~~Ci~~~~~-------------~~~~CP~Cr~~~~ 108 (162)
|..++|.+|+-+|+. +...||+||+.+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 445679999999886 2347999999985
No 86
>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=95.16 E-value=0.0098 Score=34.51 Aligned_cols=43 Identities=30% Similarity=0.770 Sum_probs=26.3
Q ss_pred eeeccccccccceecCCC-CcccHHhHHHHhhcCCCCccccccccc
Q 031282 65 ECGICLEICCKIVLPDCN-HSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 65 ~C~IC~~~~~~~~~~~Cg-H~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
.|.-|. |.+..+..|. |-.|..|+...+..+..||+|..+++.
T Consensus 4 nCKsCW--f~~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FANKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S--SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhh--hcCCCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 344443 4445567786 778999999999999999999999864
No 87
>PHA02862 5L protein; Provisional
Probab=95.13 E-value=0.024 Score=40.71 Aligned_cols=44 Identities=20% Similarity=0.702 Sum_probs=33.9
Q ss_pred CeeeccccccccceecCCCC-----cccHHhHHHHhh--cCCCCcccccccc
Q 031282 64 EECGICLEICCKIVLPDCNH-----SMCMRCYRNWRA--RSQSCPFCRDSLR 108 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~~~CgH-----~fc~~Ci~~~~~--~~~~CP~Cr~~~~ 108 (162)
..|-||.+.-.+. ..||.. .-|.+|+.+|+. +...|++|+.++.
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4799999876544 467654 369999999997 4567999998884
No 88
>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=94.85 E-value=0.01 Score=42.09 Aligned_cols=34 Identities=26% Similarity=0.630 Sum_probs=26.9
Q ss_pred CCeeecccccccc--cee-cCCC------CcccHHhHHHHhhc
Q 031282 63 EEECGICLEICCK--IVL-PDCN------HSMCMRCYRNWRAR 96 (162)
Q Consensus 63 ~~~C~IC~~~~~~--~~~-~~Cg------H~fc~~Ci~~~~~~ 96 (162)
..+|.||++.+.+ ++. ++|| |.||..|+.+|...
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 6789999999886 433 5665 78999999999543
No 89
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.79 E-value=0.014 Score=44.67 Aligned_cols=40 Identities=30% Similarity=0.725 Sum_probs=32.7
Q ss_pred eeeccccccccceecCCCCc-ccHHhHHHHhhcCCCCcccccccc
Q 031282 65 ECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 65 ~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.|-.|.+.-...+++||.|. +|..|-.. -..||+|+.+..
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 39999998888888999996 89999543 456999988764
No 90
>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=94.78 E-value=0.035 Score=31.69 Aligned_cols=38 Identities=29% Similarity=0.712 Sum_probs=21.8
Q ss_pred eeccccccccceec---CCCCcccHHhHHHHhhcCC--CCccc
Q 031282 66 CGICLEICCKIVLP---DCNHSMCMRCYRNWRARSQ--SCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~~~~~---~CgH~fc~~Ci~~~~~~~~--~CP~C 103 (162)
|.+|.+.....+.= .|+=.+|..|+..++.... .||.|
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 66788877766553 4998999999999766433 69987
No 91
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.58 E-value=0.043 Score=44.77 Aligned_cols=48 Identities=29% Similarity=0.665 Sum_probs=35.6
Q ss_pred Ceeeccccccc--ccee--cCCCCcccHHhHHHHhh-cCCCCccccccccccC
Q 031282 64 EECGICLEICC--KIVL--PDCNHSMCMRCYRNWRA-RSQSCPFCRDSLRRVN 111 (162)
Q Consensus 64 ~~C~IC~~~~~--~~~~--~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~ 111 (162)
..||.|++.+. +.-. -+||-..|.-|+....+ -...||-||......+
T Consensus 15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 34999999876 3323 47888889999877555 3668999999887544
No 92
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.51 E-value=0.025 Score=45.62 Aligned_cols=45 Identities=24% Similarity=0.558 Sum_probs=36.8
Q ss_pred CCCCeeecccccccccee-cCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 61 EREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.+-+.||||.+.+..|+. -+=||.-|..|-.+ ....||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCccccccc
Confidence 456899999999998864 34489999999653 5678999999986
No 93
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.44 E-value=0.041 Score=38.97 Aligned_cols=48 Identities=33% Similarity=0.817 Sum_probs=39.6
Q ss_pred CCCeeeccccccccceec----CCCCcccHHhHHH-Hhh--cCCCCccccccccc
Q 031282 62 REEECGICLEICCKIVLP----DCNHSMCMRCYRN-WRA--RSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~----~CgH~fc~~Ci~~-~~~--~~~~CP~Cr~~~~~ 109 (162)
.-.+|.||.+...+...+ -||-..|.-|-.. |.. -...||.|+..+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 557999999998887665 3999999999988 654 46789999998863
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.29 E-value=0.027 Score=44.83 Aligned_cols=44 Identities=30% Similarity=0.686 Sum_probs=36.3
Q ss_pred CCCeeeccccccc----cceecCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 62 REEECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~~~----~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
....||||.+.+. .+..++|||..+..|+......+-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3455999998776 4677899999999999987665599999988
No 95
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.14 E-value=0.04 Score=49.64 Aligned_cols=48 Identities=29% Similarity=0.714 Sum_probs=36.8
Q ss_pred CCCCeeecccccccc--cee--cCCCCcccHHhHHHHhh-------cCCCCcccccccc
Q 031282 61 EREEECGICLEICCK--IVL--PDCNHSMCMRCYRNWRA-------RSQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~--~~~--~~CgH~fc~~Ci~~~~~-------~~~~CP~Cr~~~~ 108 (162)
.....|.||.+.+.. ++. ..|-|+||..||..|.. ....||.|+....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 356899999998883 332 35789999999999976 3467999985544
No 96
>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=94.06 E-value=0.026 Score=33.27 Aligned_cols=42 Identities=19% Similarity=0.529 Sum_probs=21.0
Q ss_pred Ceeecccccccccee-cCCCCcccHHhHHHHhh-----cCCCCcccccc
Q 031282 64 EECGICLEICCKIVL-PDCNHSMCMRCYRNWRA-----RSQSCPFCRDS 106 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~-----~~~~CP~Cr~~ 106 (162)
+.|++....+..|+. ..|.|.-|.+ +..|+. ....||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 579999999998877 6899986644 223333 34679999764
No 97
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.05 E-value=0.014 Score=54.68 Aligned_cols=46 Identities=33% Similarity=0.764 Sum_probs=40.5
Q ss_pred CCCCeeeccccccc-cceecCCCCcccHHhHHHHhhcCCCCcccccc
Q 031282 61 EREEECGICLEICC-KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDS 106 (162)
Q Consensus 61 ~~~~~C~IC~~~~~-~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~ 106 (162)
.....|.||.+.+. ......|||.+|..|...|+..+..||.|...
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 34569999999999 56778999999999999999999999999743
No 98
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.03 E-value=0.032 Score=32.41 Aligned_cols=38 Identities=26% Similarity=0.714 Sum_probs=24.1
Q ss_pred eecccccccc--ceecCCCC-----cccHHhHHHHhh--cCCCCccc
Q 031282 66 CGICLEICCK--IVLPDCNH-----SMCMRCYRNWRA--RSQSCPFC 103 (162)
Q Consensus 66 C~IC~~~~~~--~~~~~CgH-----~fc~~Ci~~~~~--~~~~CP~C 103 (162)
|-||++.-.+ +...||+- ..|..|+..|+. ....|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6688876553 45677753 469999999987 45678887
No 99
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.78 E-value=0.026 Score=45.43 Aligned_cols=44 Identities=27% Similarity=0.665 Sum_probs=31.3
Q ss_pred eeeccccccc-cceecCCCCcccHHhHHHHhhcCCCCcccccccccc
Q 031282 65 ECGICLEICC-KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 110 (162)
Q Consensus 65 ~C~IC~~~~~-~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 110 (162)
.|--|--.+. -..+++|.|.||.+|...- ..+.||.|-..+.++
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~--~dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARSD--SDKICPLCDDRVQRI 136 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhcC--ccccCcCcccHHHHH
Confidence 4555654444 3466899999999997642 367899998877543
No 100
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=93.75 E-value=0.016 Score=51.15 Aligned_cols=48 Identities=25% Similarity=0.600 Sum_probs=40.1
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHh---hcCCCCccccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWR---ARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~---~~~~~CP~Cr~~~~~ 109 (162)
...+|+||...+.+|+.+.|.|.||..|+...+ .....||+|+..+..
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 466899999999999999999999999998733 236679999987753
No 101
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.45 E-value=0.08 Score=48.01 Aligned_cols=33 Identities=21% Similarity=0.408 Sum_probs=26.5
Q ss_pred CCCCeeeccccccc-cc-eecCCCCcccHHhHHHH
Q 031282 61 EREEECGICLEICC-KI-VLPDCNHSMCMRCYRNW 93 (162)
Q Consensus 61 ~~~~~C~IC~~~~~-~~-~~~~CgH~fc~~Ci~~~ 93 (162)
+....|.+|...+. .| ...+|||.||.+|+.+.
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~ 849 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRH 849 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHH
Confidence 45678999987766 44 55799999999999874
No 102
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.44 E-value=0.073 Score=44.16 Aligned_cols=48 Identities=17% Similarity=0.303 Sum_probs=36.7
Q ss_pred CCCCeeeccccccc---cceecCCCCcccHHhHHHHhhc---CCCCcccccccc
Q 031282 61 EREEECGICLEICC---KIVLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSLR 108 (162)
Q Consensus 61 ~~~~~C~IC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~ 108 (162)
..-+.|||=.+.-. .|..+.|||..+.+-+.+...+ +..||.|-....
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 34578998666555 4788999999999999997653 368999966553
No 103
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.30 E-value=0.078 Score=42.43 Aligned_cols=28 Identities=29% Similarity=0.696 Sum_probs=22.7
Q ss_pred CCCcccHHhHHHHhh-------------cCCCCcccccccc
Q 031282 81 CNHSMCMRCYRNWRA-------------RSQSCPFCRDSLR 108 (162)
Q Consensus 81 CgH~fc~~Ci~~~~~-------------~~~~CP~Cr~~~~ 108 (162)
|...+|.+|+-+|+. ++.+||+||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 566789999988775 3568999999985
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.08 E-value=0.084 Score=46.45 Aligned_cols=39 Identities=31% Similarity=0.675 Sum_probs=31.1
Q ss_pred CCCCeeeccccccc----cceecCCCCcccHHhHHHHhhcCCCCc
Q 031282 61 EREEECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCP 101 (162)
Q Consensus 61 ~~~~~C~IC~~~~~----~~~~~~CgH~fc~~Ci~~~~~~~~~CP 101 (162)
.+-+.|+||+..|. .|+.+.|||..|..|+.... ..+||
T Consensus 9 ~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 9 VLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 34578999987777 57889999999999998753 35677
No 105
>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=90.73 E-value=0.1 Score=40.64 Aligned_cols=47 Identities=28% Similarity=0.692 Sum_probs=33.4
Q ss_pred CCCeeeccccc-cccc--ee---cCCCCcccHHhHHHHhh-cCCCCc--ccccccc
Q 031282 62 REEECGICLEI-CCKI--VL---PDCNHSMCMRCYRNWRA-RSQSCP--FCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~-~~~~--~~---~~CgH~fc~~Ci~~~~~-~~~~CP--~Cr~~~~ 108 (162)
.+..||+|... +-+| .. ..|-|..|.+|+.+.+. ....|| -|.+-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 45689999754 4444 11 24999999999999655 566799 7866553
No 106
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.96 E-value=0.19 Score=40.17 Aligned_cols=34 Identities=24% Similarity=0.520 Sum_probs=29.3
Q ss_pred CCCeeeccccccccceecCC----CCcccHHhHHHHhh
Q 031282 62 REEECGICLEICCKIVLPDC----NHSMCMRCYRNWRA 95 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~C----gH~fc~~Ci~~~~~ 95 (162)
..+.|.+|.+.+.+..+..| .|.||..|-++..+
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK 304 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIK 304 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHH
Confidence 45899999999999888877 69999999988655
No 107
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.90 E-value=0.21 Score=41.74 Aligned_cols=34 Identities=32% Similarity=0.746 Sum_probs=25.3
Q ss_pred CCCeeeccc-ccccc---ceecCCCCcccHHhHHHHhh
Q 031282 62 REEECGICL-EICCK---IVLPDCNHSMCMRCYRNWRA 95 (162)
Q Consensus 62 ~~~~C~IC~-~~~~~---~~~~~CgH~fc~~Ci~~~~~ 95 (162)
....|.||. +.... .....|+|.||..|+.+..+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 357899999 44332 12467999999999998765
No 108
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.37 E-value=0.42 Score=37.48 Aligned_cols=35 Identities=14% Similarity=0.196 Sum_probs=30.5
Q ss_pred CCCCCeeeccccccccceecCCCCcccHHhHHHHh
Q 031282 60 IEREEECGICLEICCKIVLPDCNHSMCMRCYRNWR 94 (162)
Q Consensus 60 ~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~ 94 (162)
...-..|+.|+....+|+..+=||.||.+||.+++
T Consensus 40 iK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred cCCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 34556789999999999999999999999998854
No 109
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=88.33 E-value=0.42 Score=38.72 Aligned_cols=56 Identities=5% Similarity=-0.128 Sum_probs=42.9
Q ss_pred cccCCCccccCCCCCeeeccccccccceecCCCCc-ccHHhHHHHhhcCCCCccccccc
Q 031282 50 MDKGKLSEIDIEREEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 50 ~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
+.+.+.....+.....|..|-..+...+..+|+|. ||.+|.. +....+||.|....
T Consensus 330 ~~~~~~~~~~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 330 EKREESPTNGLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhccccccccchhhcccccccCceeeeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 33344444555667899999998888888999996 9999987 55678899997754
No 110
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.70 E-value=0.37 Score=41.00 Aligned_cols=35 Identities=29% Similarity=0.780 Sum_probs=30.3
Q ss_pred CCCCeeecccccccc-ceecCCCCcccHHhHHHHhh
Q 031282 61 EREEECGICLEICCK-IVLPDCNHSMCMRCYRNWRA 95 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~-~~~~~CgH~fc~~Ci~~~~~ 95 (162)
.....|.||.+.+.. ...+.|||.||..|+..++.
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence 456899999999985 67789999999999999776
No 111
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.58 E-value=0.39 Score=43.25 Aligned_cols=26 Identities=23% Similarity=0.585 Sum_probs=22.8
Q ss_pred eecCCCCcccHHhHHHHhhcCCCCcc
Q 031282 77 VLPDCNHSMCMRCYRNWRARSQSCPF 102 (162)
Q Consensus 77 ~~~~CgH~fc~~Ci~~~~~~~~~CP~ 102 (162)
+...|||..|.+|...|+.....||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 34579999999999999998888886
No 112
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.45 E-value=0.87 Score=41.43 Aligned_cols=49 Identities=20% Similarity=0.543 Sum_probs=37.3
Q ss_pred CCCCeeeccccccc--cceecCCCCc-----ccHHhHHHHhhc--CCCCccccccccc
Q 031282 61 EREEECGICLEICC--KIVLPDCNHS-----MCMRCYRNWRAR--SQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~~~--~~~~~~CgH~-----fc~~Ci~~~~~~--~~~CP~Cr~~~~~ 109 (162)
+++..|.||...-. +|..-||..+ .|.+|+.+|.+. ...|-+|..++..
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 35589999985433 6777787653 599999999984 4569999998864
No 113
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.90 E-value=0.59 Score=37.95 Aligned_cols=46 Identities=22% Similarity=0.509 Sum_probs=34.6
Q ss_pred CCCeeeccccccc---cceecCCCCcccHHhHHHHhhc---CCCCccccccc
Q 031282 62 REEECGICLEICC---KIVLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSL 107 (162)
Q Consensus 62 ~~~~C~IC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~ 107 (162)
.-+.||+=.+.-. .|+.+.|||..-..-+....+. .+.||.|....
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4578887655444 4788999999999999886653 56799995543
No 114
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.67 E-value=0.49 Score=39.62 Aligned_cols=41 Identities=22% Similarity=0.628 Sum_probs=30.3
Q ss_pred CCeeeccccccc-----cceecCCCCcccHHhHHHHhhcCCCCccc
Q 031282 63 EEECGICLEICC-----KIVLPDCNHSMCMRCYRNWRARSQSCPFC 103 (162)
Q Consensus 63 ~~~C~IC~~~~~-----~~~~~~CgH~fc~~Ci~~~~~~~~~CP~C 103 (162)
...|+.|.-.+. +-++-.|||-||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 457888876554 23444599999999999998887777555
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.65 E-value=0.82 Score=41.45 Aligned_cols=46 Identities=11% Similarity=0.339 Sum_probs=33.1
Q ss_pred CCeeeccccccccc-------eecCCCCcccHHhHHHHhhc------CCCCcccccccc
Q 031282 63 EEECGICLEICCKI-------VLPDCNHSMCMRCYRNWRAR------SQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~~-------~~~~CgH~fc~~Ci~~~~~~------~~~CP~Cr~~~~ 108 (162)
...|.+|...+.++ ..-.|+|.||..||..|..+ ...|++|...|-
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 45677777666652 22359999999999999873 446889877663
No 116
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.62 E-value=0.11 Score=43.15 Aligned_cols=46 Identities=26% Similarity=0.419 Sum_probs=39.4
Q ss_pred CCeeecccccccc----ceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 63 EEECGICLEICCK----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~----~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
...|.||...+.. ...+.|||.++..|+.+|+.....||.|+..+.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 4579999987773 345789999999999999998888999999885
No 117
>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=82.14 E-value=1.5 Score=30.35 Aligned_cols=44 Identities=25% Similarity=0.547 Sum_probs=26.7
Q ss_pred CCCeeeccccccc---c--ceecCCCCcccHHhHHHH-hhcCCCCccccc
Q 031282 62 REEECGICLEICC---K--IVLPDCNHSMCMRCYRNW-RARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~~~---~--~~~~~CgH~fc~~Ci~~~-~~~~~~CP~Cr~ 105 (162)
.+..|.+|...|. + .+-..|+|.+|..|-..- ......|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 5668999987664 2 233689999999985431 112335777755
No 118
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.14 E-value=1.2 Score=35.21 Aligned_cols=53 Identities=26% Similarity=0.486 Sum_probs=37.5
Q ss_pred CCCCeeecccccccccee----cCC-----CCcccHHhHHHHhhc--------CCCCccccccccccCCC
Q 031282 61 EREEECGICLEICCKIVL----PDC-----NHSMCMRCYRNWRAR--------SQSCPFCRDSLRRVNSG 113 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~----~~C-----gH~fc~~Ci~~~~~~--------~~~CP~Cr~~~~~~~~~ 113 (162)
+.+..|-||+..-++-.. -|| .|..|..|+..|... ..+||.|+.....+.+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~ 87 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQ 87 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccc
Confidence 456789999987665322 355 367899999999862 23699999988644433
No 119
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.58 E-value=2.7 Score=33.17 Aligned_cols=47 Identities=13% Similarity=0.229 Sum_probs=36.1
Q ss_pred CCCCeeeccccccc----cceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 61 EREEECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~~~----~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
...+.|||-.-.+. -..+.+|||.|-..-+.+. ....|++|...+..
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQE 159 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccc
Confidence 34688998765554 3466799999999988876 36789999999863
No 120
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=79.37 E-value=1.7 Score=35.46 Aligned_cols=46 Identities=26% Similarity=0.634 Sum_probs=36.7
Q ss_pred Ceeeccccccc--c--ceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 64 EECGICLEICC--K--IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 64 ~~C~IC~~~~~--~--~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
..|+||.+... + .+-.+||+..|..|+.........||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 68999999774 2 2335788889999998888889999999977743
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=79.30 E-value=1.3 Score=33.96 Aligned_cols=47 Identities=21% Similarity=0.555 Sum_probs=37.8
Q ss_pred CCeeecccccccccee-cCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 63 EEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
-..|.+|.......+. -+||-.+|..|+..++.....||.|..-.+.
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h 228 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTH 228 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhcccCc
Confidence 3589999998776543 5788889999999999999999999655543
No 122
>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=77.35 E-value=0.49 Score=37.92 Aligned_cols=47 Identities=23% Similarity=0.478 Sum_probs=23.9
Q ss_pred CCCCeeeccccccccceecCC-----CCcccHHhHHHHhhcCCCCccccccc
Q 031282 61 EREEECGICLEICCKIVLPDC-----NHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~C-----gH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
.....||+|-....-.++..= .|.+|.-|-..|......||.|-..-
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTD 221 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---S
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCC
Confidence 345799999987664433322 35689999999998888999995543
No 123
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=75.26 E-value=3.1 Score=24.57 Aligned_cols=26 Identities=27% Similarity=0.829 Sum_probs=15.8
Q ss_pred cCCCCcccHHhHHHHhhcCCCCcccc
Q 031282 79 PDCNHSMCMRCYRNWRARSQSCPFCR 104 (162)
Q Consensus 79 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr 104 (162)
..|++.||.+|=.=..+.-..||-|-
T Consensus 25 ~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCCccccCcChhhhccccCCcCCC
Confidence 46899999999554455677899884
No 124
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=75.02 E-value=2.8 Score=37.86 Aligned_cols=44 Identities=16% Similarity=0.445 Sum_probs=33.8
Q ss_pred Ceeecccccccccee--cCCCCcccHHhHHHHhhcCCCCcc--ccccc
Q 031282 64 EECGICLEICCKIVL--PDCNHSMCMRCYRNWRARSQSCPF--CRDSL 107 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~--~~CgH~fc~~Ci~~~~~~~~~CP~--Cr~~~ 107 (162)
..|.+|-..+..... -.|||.-|.+|+..|+.....||. |...-
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~c 827 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHLC 827 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCccc
Confidence 467888776664322 469999999999999999988987 65543
No 125
>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=74.20 E-value=0.28 Score=30.96 Aligned_cols=40 Identities=23% Similarity=0.546 Sum_probs=22.4
Q ss_pred CeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 64 EECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
..||.|...+.... ||.+|..|-..+ .....||.|..++.
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC----CEEECccccccc-eecccCCCcccHHH
Confidence 57999988766332 777888886653 33467999998885
No 126
>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=71.85 E-value=2.4 Score=26.36 Aligned_cols=12 Identities=25% Similarity=0.999 Sum_probs=8.7
Q ss_pred cccHHhHHHHhh
Q 031282 84 SMCMRCYRNWRA 95 (162)
Q Consensus 84 ~fc~~Ci~~~~~ 95 (162)
.||..|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999975
No 127
>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=70.27 E-value=0.99 Score=36.62 Aligned_cols=45 Identities=18% Similarity=0.451 Sum_probs=33.3
Q ss_pred CCCeeeccccccccceec----CCC--CcccHHhHHHHhhcCCCCcccccc
Q 031282 62 REEECGICLEICCKIVLP----DCN--HSMCMRCYRNWRARSQSCPFCRDS 106 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~----~Cg--H~fc~~Ci~~~~~~~~~CP~Cr~~ 106 (162)
....||+|-....-.+.. .=| +.+|.-|-..|......||.|...
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 345899999876533221 234 457999999999999999999763
No 128
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=67.59 E-value=6.9 Score=25.19 Aligned_cols=47 Identities=26% Similarity=0.664 Sum_probs=20.8
Q ss_pred CCCeeecccccccc---c-ee---cCCCCcccHHhHHH-HhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCK---I-VL---PDCNHSMCMRCYRN-WRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~---~-~~---~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~ 108 (162)
....|.||-+...- . ++ ..|+-..|..|..= .......||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 45689999987762 1 22 35777789999865 5567889999998775
No 129
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=67.08 E-value=1.7 Score=35.38 Aligned_cols=44 Identities=18% Similarity=0.472 Sum_probs=32.9
Q ss_pred CCCeeecccccccccee-c--CCC--CcccHHhHHHHhhcCCCCccccc
Q 031282 62 REEECGICLEICCKIVL-P--DCN--HSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~-~--~Cg--H~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
....||+|-....-.+. . .=| |.+|.-|-..|......||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 46899999987653322 1 234 45799999999998899999975
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=65.54 E-value=6.6 Score=27.13 Aligned_cols=41 Identities=22% Similarity=0.376 Sum_probs=32.1
Q ss_pred Ceeeccccccccce--------------ecCCCCcccHHhHHHHhhcCCCCcccc
Q 031282 64 EECGICLEICCKIV--------------LPDCNHSMCMRCYRNWRARSQSCPFCR 104 (162)
Q Consensus 64 ~~C~IC~~~~~~~~--------------~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 104 (162)
..|--|+..|.++. -..|++.||.+|-.=+.+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45888888776431 247999999999877888888899995
No 131
>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=64.30 E-value=4.7 Score=26.72 Aligned_cols=37 Identities=19% Similarity=0.570 Sum_probs=28.4
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
...|.||-.....+ ||.||..|.. ....|.+|-+.+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAY----kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAY----KKGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC-----CCccChhhhc----ccCcccccCCeec
Confidence 45899998765543 7889999954 4578999998874
No 132
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.27 E-value=4.9 Score=36.02 Aligned_cols=44 Identities=30% Similarity=0.677 Sum_probs=36.3
Q ss_pred eeeccccccccceecCCCC-cccHHhHHHHhh--c----CCCCcccccccc
Q 031282 65 ECGICLEICCKIVLPDCNH-SMCMRCYRNWRA--R----SQSCPFCRDSLR 108 (162)
Q Consensus 65 ~C~IC~~~~~~~~~~~CgH-~fc~~Ci~~~~~--~----~~~CP~Cr~~~~ 108 (162)
.|+||-........-.||| ..|..|..+... . ...||.||..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 5999999988888899999 799999988543 3 456899999774
No 133
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.75 E-value=1.2 Score=35.57 Aligned_cols=44 Identities=30% Similarity=0.641 Sum_probs=33.7
Q ss_pred CCeeeccccccc------cceecC--------CCCcccHHhHHHHhh-cCCCCcccccc
Q 031282 63 EEECGICLEICC------KIVLPD--------CNHSMCMRCYRNWRA-RSQSCPFCRDS 106 (162)
Q Consensus 63 ~~~C~IC~~~~~------~~~~~~--------CgH~fc~~Ci~~~~~-~~~~CP~Cr~~ 106 (162)
...|.||...+. .|..+. |||..|..|+...+. ....||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 356999987777 245556 999999999999544 44789999874
No 134
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.71 E-value=12 Score=26.80 Aligned_cols=45 Identities=29% Similarity=0.767 Sum_probs=25.4
Q ss_pred cCCCCCeeeccccc-cccceecCCCCc-------ccHHhHHHHhhc----CCCCccccccc
Q 031282 59 DIEREEECGICLEI-CCKIVLPDCNHS-------MCMRCYRNWRAR----SQSCPFCRDSL 107 (162)
Q Consensus 59 ~~~~~~~C~IC~~~-~~~~~~~~CgH~-------fc~~Ci~~~~~~----~~~CP~Cr~~~ 107 (162)
...++..|.||+.. |.+ .|||. ||..|--+...+ ...|-+|+...
T Consensus 61 Gv~ddatC~IC~KTKFAD----G~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFAD----GCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred ccCcCcchhhhhhccccc----ccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 34678899999863 333 46663 444443331111 23588887654
No 135
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=63.51 E-value=5.2 Score=20.95 Aligned_cols=34 Identities=24% Similarity=0.371 Sum_probs=20.3
Q ss_pred eeccccccccc--eecCCCCcccHHhHHHHhhcCCCCccccccc
Q 031282 66 CGICLEICCKI--VLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 66 C~IC~~~~~~~--~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
|..|...+... ....=+..||..| ..|..|..++
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcC
Confidence 66677666542 3233355666665 6677777665
No 136
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=62.88 E-value=1.4 Score=26.39 Aligned_cols=16 Identities=38% Similarity=1.171 Sum_probs=13.7
Q ss_pred CCCCcccHHhHHHHhh
Q 031282 80 DCNHSMCMRCYRNWRA 95 (162)
Q Consensus 80 ~CgH~fc~~Ci~~~~~ 95 (162)
.|||.||..|...|..
T Consensus 45 ~C~~~fC~~C~~~~H~ 60 (64)
T smart00647 45 KCGFSFCFRCKVPWHS 60 (64)
T ss_pred CCCCeECCCCCCcCCC
Confidence 6899999999888854
No 137
>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=62.32 E-value=10 Score=22.81 Aligned_cols=43 Identities=23% Similarity=0.479 Sum_probs=28.0
Q ss_pred eeeccccccccc--eecCCCC--cccHHhHHHHhhcCCCCccccccccc
Q 031282 65 ECGICLEICCKI--VLPDCNH--SMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 65 ~C~IC~~~~~~~--~~~~CgH--~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
.|-.|-..+... -..-|.+ .||..|....+ ...||-|.-.+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 455665555422 1233543 69999998865 5779999887753
No 138
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.53 E-value=2.9 Score=33.78 Aligned_cols=50 Identities=26% Similarity=0.531 Sum_probs=41.2
Q ss_pred CCCCeeeccccccccceec-CCCCcccHHhHHHHhhcCCCCcccccccccc
Q 031282 61 EREEECGICLEICCKIVLP-DCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 110 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 110 (162)
.....|-+|...+..|... .|+|.||..|...|......||.|+.....+
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 3457899999988877664 5999999999999999999999998776533
No 139
>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=61.34 E-value=1.9 Score=21.73 Aligned_cols=9 Identities=33% Similarity=0.980 Sum_probs=3.8
Q ss_pred CCCCccccc
Q 031282 97 SQSCPFCRD 105 (162)
Q Consensus 97 ~~~CP~Cr~ 105 (162)
...||.|..
T Consensus 14 ~~~Cp~CG~ 22 (26)
T PF10571_consen 14 AKFCPHCGY 22 (26)
T ss_pred cCcCCCCCC
Confidence 334444433
No 140
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=60.56 E-value=1.4 Score=21.53 Aligned_cols=8 Identities=38% Similarity=1.049 Sum_probs=3.4
Q ss_pred CCCccccc
Q 031282 98 QSCPFCRD 105 (162)
Q Consensus 98 ~~CP~Cr~ 105 (162)
.-||.|..
T Consensus 14 ~fC~~CG~ 21 (23)
T PF13240_consen 14 KFCPNCGT 21 (23)
T ss_pred cchhhhCC
Confidence 33444433
No 141
>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=60.50 E-value=2.8 Score=35.08 Aligned_cols=30 Identities=37% Similarity=0.823 Sum_probs=0.0
Q ss_pred eecCCCCcccHHhHHHHhh------cCCCCccccccccc
Q 031282 77 VLPDCNHSMCMRCYRNWRA------RSQSCPFCRDSLRR 109 (162)
Q Consensus 77 ~~~~CgH~fc~~Ci~~~~~------~~~~CP~Cr~~~~~ 109 (162)
+.+.|||.+-.. .|.. ....||+||..-+.
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ---------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccCCc
Confidence 557899976543 3532 35689999987654
No 142
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=59.51 E-value=8.6 Score=30.59 Aligned_cols=46 Identities=20% Similarity=0.569 Sum_probs=35.3
Q ss_pred CCeeecccccccc----ceecCCCC-----cccHHhHHHHhh--cCCCCcccccccc
Q 031282 63 EEECGICLEICCK----IVLPDCNH-----SMCMRCYRNWRA--RSQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~~----~~~~~CgH-----~fc~~Ci~~~~~--~~~~CP~Cr~~~~ 108 (162)
...|-||...... +...+|.. ..|..|+..|.. ....|..|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4689999986653 45567753 369999999998 6778999988775
No 143
>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=58.84 E-value=8.8 Score=29.90 Aligned_cols=29 Identities=24% Similarity=0.660 Sum_probs=23.3
Q ss_pred ccHHhHHHHhhcCCCCccccccccccCCC
Q 031282 85 MCMRCYRNWRARSQSCPFCRDSLRRVNSG 113 (162)
Q Consensus 85 fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 113 (162)
-|.+|-.....+...||+|...-...++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnpK 224 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNPK 224 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCCC
Confidence 49999999888999999998877544443
No 144
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.79 E-value=6.3 Score=35.87 Aligned_cols=41 Identities=27% Similarity=0.503 Sum_probs=28.6
Q ss_pred CCCeeeccccccc-------cceecCCCCcccHHhHHHHhhcCCCCccc
Q 031282 62 REEECGICLEICC-------KIVLPDCNHSMCMRCYRNWRARSQSCPFC 103 (162)
Q Consensus 62 ~~~~C~IC~~~~~-------~~~~~~CgH~fc~~Ci~~~~~~~~~CP~C 103 (162)
.+..|..|.+... ..+.+.|||.||..|+..-..+.. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 3458999987665 235689999999999987443333 5444
No 145
>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=58.08 E-value=8.4 Score=26.21 Aligned_cols=25 Identities=32% Similarity=0.699 Sum_probs=18.4
Q ss_pred CCcccHHhHHHHhh---------cCCCCcccccc
Q 031282 82 NHSMCMRCYRNWRA---------RSQSCPFCRDS 106 (162)
Q Consensus 82 gH~fc~~Ci~~~~~---------~~~~CP~Cr~~ 106 (162)
.=.||..||..+.. ....||.||.-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 55699999987543 34579999773
No 146
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=57.80 E-value=3.7 Score=36.21 Aligned_cols=23 Identities=30% Similarity=0.824 Sum_probs=17.8
Q ss_pred cCCCCcccHHhHHHHhhcCCCCcccc
Q 031282 79 PDCNHSMCMRCYRNWRARSQSCPFCR 104 (162)
Q Consensus 79 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr 104 (162)
..||+.||..|+. ..+..||.|-
T Consensus 535 ~~C~avfH~~C~~---r~s~~CPrC~ 557 (580)
T KOG1829|consen 535 STCLAVFHKKCLR---RKSPCCPRCE 557 (580)
T ss_pred HHHHHHHHHHHHh---ccCCCCCchH
Confidence 4699999999944 4556699993
No 147
>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=57.15 E-value=5.6 Score=23.38 Aligned_cols=36 Identities=19% Similarity=0.517 Sum_probs=21.1
Q ss_pred CCeeeccccccccceecCCCCcccHHhHHHHhh--cCCCCccccc
Q 031282 63 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRA--RSQSCPFCRD 105 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~ 105 (162)
.+.||.|.+.+.... +...|...... ....||+|..
T Consensus 2 ~f~CP~C~~~~~~~~-------L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS-------LVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHHH-------HHHHHHhHCcCCCCCccCCCchh
Confidence 568999988544322 23344444322 3457999975
No 148
>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=56.39 E-value=8.1 Score=22.58 Aligned_cols=30 Identities=20% Similarity=0.447 Sum_probs=20.9
Q ss_pred Ceeeccccccccc----eecCCCCcccHHhHHHH
Q 031282 64 EECGICLEICCKI----VLPDCNHSMCMRCYRNW 93 (162)
Q Consensus 64 ~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~~ 93 (162)
..|.+|...|... .-..||+.||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 3578887666532 22579999999997653
No 149
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=56.26 E-value=9.5 Score=29.73 Aligned_cols=28 Identities=25% Similarity=0.768 Sum_probs=22.1
Q ss_pred ccHHhHHHHhhcCCCCccccccccccCC
Q 031282 85 MCMRCYRNWRARSQSCPFCRDSLRRVNS 112 (162)
Q Consensus 85 fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 112 (162)
.|.+|-.....+...||+|.......++
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCCC
Confidence 3888988888889999999887754443
No 150
>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 PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=55.83 E-value=13 Score=22.22 Aligned_cols=30 Identities=20% Similarity=0.556 Sum_probs=23.0
Q ss_pred CCeeeccccccc--cc-ee-cCCCCcccHHhHHH
Q 031282 63 EEECGICLEICC--KI-VL-PDCNHSMCMRCYRN 92 (162)
Q Consensus 63 ~~~C~IC~~~~~--~~-~~-~~CgH~fc~~Ci~~ 92 (162)
...|++|-+.|. +. +. ..||-.+|..|+..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 457999999994 33 33 68999999999543
No 152
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=55.66 E-value=17 Score=33.29 Aligned_cols=78 Identities=15% Similarity=0.316 Sum_probs=39.7
Q ss_pred hcCChHHHHHHHHhHHHHhhhcccccCCCcccc-------CCCCCeeecccccccc------ce----e---cCCCCccc
Q 031282 27 GITDVEDKKQKEICDAKYKKKGRMDKGKLSEID-------IEREEECGICLEICCK------IV----L---PDCNHSMC 86 (162)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~C~IC~~~~~~------~~----~---~~CgH~fc 86 (162)
.+.+.+.+.......+.+.+....+.......- ...+..|+-|...|.. |+ . ..|.|.-+
T Consensus 1088 ~l~~a~kq~ye~La~~iFsk~~p~d~~~~~vdc~~cg~~i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~ 1167 (1189)
T KOG2041|consen 1088 ELDDAEKQEYENLAFRIFSKNPPVDPNSAKVDCSVCGAKIDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAH 1167 (1189)
T ss_pred hCCHHHHHHHHHHHHHHhccCCCCCCCccceeeeecCCcCCccCCCChhhcCcCceeeccCCccccceEEEccccccccc
Confidence 344444444567777777776654433221110 1234667777766652 11 1 13444443
Q ss_pred HHhHHHHhhcCCCCcccccccc
Q 031282 87 MRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 87 ~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
..=| .+...||+|.....
T Consensus 1168 ~~EI----s~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1168 QHEI----SKYNCCPLCHSMES 1185 (1189)
T ss_pred cccc----cccccCccccChhh
Confidence 3222 24578999977653
No 153
>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=55.08 E-value=2.8 Score=25.81 Aligned_cols=31 Identities=19% Similarity=0.525 Sum_probs=15.9
Q ss_pred CCCeeeccccccccc----eecCCCCcccHHhHHH
Q 031282 62 REEECGICLEICCKI----VLPDCNHSMCMRCYRN 92 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~ 92 (162)
+...|.+|...|.-. .--.||+.||..|...
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 456899999988532 1147999999999754
No 154
>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=53.21 E-value=4.5 Score=33.96 Aligned_cols=46 Identities=22% Similarity=0.647 Sum_probs=0.0
Q ss_pred CCeeeccccccc--------------c---c--eecCCCCcccHHhHHHHhhc---------CCCCcccccccc
Q 031282 63 EEECGICLEICC--------------K---I--VLPDCNHSMCMRCYRNWRAR---------SQSCPFCRDSLR 108 (162)
Q Consensus 63 ~~~C~IC~~~~~--------------~---~--~~~~CgH~fc~~Ci~~~~~~---------~~~CP~Cr~~~~ 108 (162)
...||+|+..-. + | ..-||||.--.+...-|..- ...||+|-.++.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 678999985322 1 1 33589998767777668761 347999988885
No 155
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=52.78 E-value=64 Score=25.81 Aligned_cols=72 Identities=22% Similarity=0.429 Sum_probs=38.0
Q ss_pred Ceeecccccccccee-cCCCC----cccHHhHHHHhh-cCCCCccccccccccCCCCccccCChhHHHHhhhhcHHHHHH
Q 031282 64 EECGICLEICCKIVL-PDCNH----SMCMRCYRNWRA-RSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKR 137 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~-~~CgH----~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (162)
..|.||++.-...+- ..=-| .-|.+|..+|.. ....|| |..+. .+..+-+.. +-+..+..
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk~s----------kStYe~vK~--~lSkkinw 96 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSKLS----------KSTYEEVKT--ILSKKINW 96 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--ccccc----------cchHHHHHH--HHHHHHHH
Confidence 456666665543321 11112 235899999754 566787 33332 112222333 55667777
Q ss_pred HHHHHhcCCCCC
Q 031282 138 LFMYIDKLPFIT 149 (162)
Q Consensus 138 l~~~~~~~p~~~ 149 (162)
+..|-++=+.+.
T Consensus 97 ivqyAQnkd~~s 108 (285)
T PF06937_consen 97 IVQYAQNKDLDS 108 (285)
T ss_pred HHHHHhccCCcC
Confidence 777777665543
No 156
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=52.46 E-value=12 Score=30.62 Aligned_cols=47 Identities=28% Similarity=0.693 Sum_probs=30.0
Q ss_pred CCCeeeccccccc--------------c---c--eecCCCCcccHHhHHHHhhc---------CCCCcccccccc
Q 031282 62 REEECGICLEICC--------------K---I--VLPDCNHSMCMRCYRNWRAR---------SQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~--------------~---~--~~~~CgH~fc~~Ci~~~~~~---------~~~CP~Cr~~~~ 108 (162)
.+..||+|+..-. + | ...||||..-..=..=|... ...||+|-..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 3678999985422 1 1 33589996555444447651 357999987774
No 157
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=52.30 E-value=6.6 Score=27.86 Aligned_cols=23 Identities=22% Similarity=0.329 Sum_probs=16.8
Q ss_pred eeccccccccceecCCCCcccHH
Q 031282 66 CGICLEICCKIVLPDCNHSMCMR 88 (162)
Q Consensus 66 C~IC~~~~~~~~~~~CgH~fc~~ 88 (162)
=-||.+.-...+.-.|||.||..
T Consensus 60 lfi~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 60 LFICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEEecccccEEEEeccccccCh
Confidence 34677766666668999999863
No 158
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=51.88 E-value=11 Score=34.15 Aligned_cols=48 Identities=23% Similarity=0.564 Sum_probs=35.8
Q ss_pred CCCCeeeccccccccc----------eecCCCCcc--------------------cHHhHHHHhh--------cCCCCcc
Q 031282 61 EREEECGICLEICCKI----------VLPDCNHSM--------------------CMRCYRNWRA--------RSQSCPF 102 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~----------~~~~CgH~f--------------------c~~Ci~~~~~--------~~~~CP~ 102 (162)
.+-..|.-|++.+.+| ..+.||..| |..|..++.. +...||.
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~ 178 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPK 178 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcc
Confidence 4567899999888764 235788877 9999988764 3457999
Q ss_pred cccccc
Q 031282 103 CRDSLR 108 (162)
Q Consensus 103 Cr~~~~ 108 (162)
|.-.+.
T Consensus 179 CGP~~~ 184 (750)
T COG0068 179 CGPHLF 184 (750)
T ss_pred cCCCeE
Confidence 976664
No 159
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.08 E-value=5.6 Score=29.37 Aligned_cols=26 Identities=27% Similarity=0.248 Sum_probs=19.3
Q ss_pred CCCeeeccccccccc---eecCCCCcccH
Q 031282 62 REEECGICLEICCKI---VLPDCNHSMCM 87 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~---~~~~CgH~fc~ 87 (162)
+.-+|.||++.+... ..+||-..||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 456899999998843 44788877764
No 160
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=50.78 E-value=1.1e+02 Score=24.76 Aligned_cols=91 Identities=20% Similarity=0.382 Sum_probs=50.5
Q ss_pred CCCCeeecccccccccee-c---CCCC--cccHHhHHHHhhcCCCCccccccccccCCCCccccCC-hhHHHHhhhhcHH
Q 031282 61 EREEECGICLEICCKIVL-P---DCNH--SMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTS-EDDIVDLASISRE 133 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~-~---~CgH--~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 133 (162)
+.-..||+|-......+. . .=|- .-|.-|...|......|-.|-..=. . .++...+ ....+..++-.+=
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~t~~-l---~y~sl~s~E~A~vkAEtC~~C 258 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQSKK-L---HYWSLESSELAAVKAETCGDC 258 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccccCC-c---cceeccchhhhHhhhhcCCcH
Confidence 455689999987764322 1 2232 2488999999998888988855321 1 1222222 2233444332222
Q ss_pred HHHHH-HHHHhcCCCCCC--Ccceec
Q 031282 134 NLKRL-FMYIDKLPFITP--NPTLVS 156 (162)
Q Consensus 134 ~~~~l-~~~~~~~p~~~p--~~~~~~ 156 (162)
+ ..| +.|.++=|...| |++.|+
T Consensus 259 ~-sYlKilyqekdp~veavADDlASl 283 (308)
T COG3058 259 N-SYLKILYQEKDPKVEAVADDLASL 283 (308)
T ss_pred H-HHHHHHHHhcCCccccchHHHHHH
Confidence 2 222 456666677766 555554
No 161
>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=50.34 E-value=6.1 Score=23.23 Aligned_cols=11 Identities=36% Similarity=1.044 Sum_probs=5.9
Q ss_pred CCCcccccccc
Q 031282 98 QSCPFCRDSLR 108 (162)
Q Consensus 98 ~~CP~Cr~~~~ 108 (162)
..||+|..++.
T Consensus 21 ~~CPlC~r~l~ 31 (54)
T PF04423_consen 21 GCCPLCGRPLD 31 (54)
T ss_dssp EE-TTT--EE-
T ss_pred CcCCCCCCCCC
Confidence 38999999885
No 162
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.38 E-value=15 Score=23.39 Aligned_cols=26 Identities=27% Similarity=0.613 Sum_probs=19.9
Q ss_pred CCcccHHhHHHHhhcCCCCccccccccc
Q 031282 82 NHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 82 gH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
-|.||..|...-+ ...||.|.-.+..
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhc
Confidence 3679999988643 4679999887753
No 163
>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=49.03 E-value=3.7 Score=23.00 Aligned_cols=28 Identities=21% Similarity=0.487 Sum_probs=15.0
Q ss_pred CCCCcccHHhHHHHhhcCCCCccccc-ccc
Q 031282 80 DCNHSMCMRCYRNWRARSQSCPFCRD-SLR 108 (162)
Q Consensus 80 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~-~~~ 108 (162)
.|||.|-...-. .-.....||.|.. .+.
T Consensus 10 ~Cg~~fe~~~~~-~~~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 10 ECGHEFEVLQSI-SEDDPVPCPECGSTEVR 38 (42)
T ss_pred CCCCEEEEEEEc-CCCCCCcCCCCCCCceE
Confidence 577766442100 0123567999988 443
No 164
>PLN02189 cellulose synthase
Probab=48.12 E-value=16 Score=34.58 Aligned_cols=48 Identities=27% Similarity=0.726 Sum_probs=35.1
Q ss_pred CCCeeecccccccc-----ce--ecCCCCcccHHhHHH-HhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCK-----IV--LPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~-----~~--~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
....|.||-+.+.. +. .-.|+--.|..|..- ..+.+..||.|+....+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 44589999998762 21 134777789999854 45578899999998863
No 165
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=47.15 E-value=15 Score=27.88 Aligned_cols=39 Identities=28% Similarity=0.661 Sum_probs=25.7
Q ss_pred CCCeeeccccc-cccc-----e--ecCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 62 REEECGICLEI-CCKI-----V--LPDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~-~~~~-----~--~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
..+.|.+|.+. +.-| + -..|+-.||..|.. . ..||-|-.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~----~-~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR----K-KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC----C-CCCCCcHh
Confidence 45788888753 1112 1 13789999999955 2 67999943
No 166
>PLN02436 cellulose synthase A
Probab=46.76 E-value=19 Score=34.18 Aligned_cols=48 Identities=27% Similarity=0.686 Sum_probs=34.8
Q ss_pred CCCeeecccccccc-----ce--ecCCCCcccHHhHHH-HhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCK-----IV--LPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~-----~~--~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
....|.||-+.... +. .-.|+--.|..|..- ..+.+..||.|+....+
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 44589999998752 21 134777789999854 45578889999998863
No 167
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=46.46 E-value=18 Score=29.75 Aligned_cols=44 Identities=18% Similarity=0.424 Sum_probs=31.0
Q ss_pred CCCeeeccccccccc---eecCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 62 REEECGICLEICCKI---VLPDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
....|-.|.+..... .--.|.+.||.+|-.=..+.-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 344588886655533 22478999999997666666778999963
No 168
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.04 E-value=10 Score=25.22 Aligned_cols=12 Identities=33% Similarity=1.082 Sum_probs=10.6
Q ss_pred cccHHhHHHHhh
Q 031282 84 SMCMRCYRNWRA 95 (162)
Q Consensus 84 ~fc~~Ci~~~~~ 95 (162)
.||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999976
No 169
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=45.84 E-value=9.3 Score=30.52 Aligned_cols=47 Identities=19% Similarity=0.624 Sum_probs=35.0
Q ss_pred CCCeeecccccccc---------ceecCCCCcccHHhHHH-Hhhc----------CCCCcccccccc
Q 031282 62 REEECGICLEICCK---------IVLPDCNHSMCMRCYRN-WRAR----------SQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~---------~~~~~CgH~fc~~Ci~~-~~~~----------~~~CP~Cr~~~~ 108 (162)
....|.+|-..+.. .-.++|...+|.+-..+ |+-+ -+.||.|++.|.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 45788888877762 23368888899888876 9862 458999999885
No 170
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.15 E-value=12 Score=35.24 Aligned_cols=45 Identities=20% Similarity=0.432 Sum_probs=32.4
Q ss_pred CCCeeeccccccccceecCCCC-----cccHHhHHHHhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNH-----SMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH-----~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
....|+-|-..........||. .||..| .+......||-|.....
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPT 674 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCC
Confidence 4568999988765545567884 599999 33344567999988875
No 171
>PF15616 TerY-C: TerY-C metal binding domain
Probab=44.65 E-value=8.9 Score=27.24 Aligned_cols=49 Identities=16% Similarity=0.434 Sum_probs=35.1
Q ss_pred CccccCCCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 55 LSEIDIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 55 ~~~~~~~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
.....+...-.||-|-..+.-.+- .||+.||..= ....+||-|......
T Consensus 69 vntseL~g~PgCP~CGn~~~fa~C-~CGkl~Ci~g-----~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 69 VNTSELIGAPGCPHCGNQYAFAVC-GCGKLFCIDG-----EGEVTCPWCGNEGSF 117 (131)
T ss_pred EehHHhcCCCCCCCCcChhcEEEe-cCCCEEEeCC-----CCCEECCCCCCeeee
Confidence 333444566899999988776555 8999998642 346789999887754
No 172
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.24 E-value=29 Score=33.04 Aligned_cols=47 Identities=28% Similarity=0.656 Sum_probs=34.9
Q ss_pred CCCeeecccccccc-----c--eecCCCCcccHHhHHH-HhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~-----~--~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~ 108 (162)
....|.||-+...- + ..-.||--.|..|..= ..+.+..||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45589999988662 2 1235777789999844 5567889999998885
No 173
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=41.91 E-value=12 Score=21.75 Aligned_cols=21 Identities=19% Similarity=0.414 Sum_probs=11.7
Q ss_pred CCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 80 DCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 80 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.-|..||..| ..|-.|+.++.
T Consensus 17 ~~~~~~H~~C--------f~C~~C~~~l~ 37 (58)
T PF00412_consen 17 AMGKFWHPEC--------FKCSKCGKPLN 37 (58)
T ss_dssp ETTEEEETTT--------SBETTTTCBTT
T ss_pred eCCcEEEccc--------cccCCCCCccC
Confidence 4455555555 55666666553
No 174
>PRK11595 DNA utilization protein GntX; Provisional
Probab=40.42 E-value=24 Score=27.08 Aligned_cols=38 Identities=24% Similarity=0.505 Sum_probs=20.9
Q ss_pred eeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccc
Q 031282 65 ECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 107 (162)
Q Consensus 65 ~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 107 (162)
.|.+|...+... ....|..|...|..-...||.|..++
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 577777654321 12367777766432234577776554
No 175
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=39.96 E-value=16 Score=28.92 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=33.7
Q ss_pred CCeeecccccccccee-cCCCCcccHHhHHHHhhc--CCCCcccccc
Q 031282 63 EEECGICLEICCKIVL-PDCNHSMCMRCYRNWRAR--SQSCPFCRDS 106 (162)
Q Consensus 63 ~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~ 106 (162)
...||+=...+.+|+. ..|||.|=.+-+...+.. ...||+=..+
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 4689988778888866 789999999999987765 4457764433
No 176
>PLN02400 cellulose synthase
Probab=39.39 E-value=29 Score=33.03 Aligned_cols=47 Identities=26% Similarity=0.698 Sum_probs=34.7
Q ss_pred CCCeeecccccccc-----c--eecCCCCcccHHhHHH-HhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~-----~--~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~ 108 (162)
....|.||-+.... + ..-.|+--.|..|..= ..+.+..||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 45589999998762 2 2236777789999843 4557888999998886
No 177
>PF14353 CpXC: CpXC protein
Probab=39.06 E-value=20 Score=24.87 Aligned_cols=45 Identities=20% Similarity=0.177 Sum_probs=23.1
Q ss_pred CeeeccccccccceecCCCCcccHHhHHHHhh---cCCCCcccccccc
Q 031282 64 EECGICLEICCKIVLPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLR 108 (162)
Q Consensus 64 ~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~---~~~~CP~Cr~~~~ 108 (162)
.+||-|...+...+-+.-.-..-..=....+. ...+||.|...+.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 46777777666433222111112222233332 3457999988774
No 178
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=37.12 E-value=3.2 Score=24.70 Aligned_cols=32 Identities=31% Similarity=0.747 Sum_probs=18.2
Q ss_pred Ceeec--ccccccc-----c--ee-cCCCCcccHHhHHHHhh
Q 031282 64 EECGI--CLEICCK-----I--VL-PDCNHSMCMRCYRNWRA 95 (162)
Q Consensus 64 ~~C~I--C~~~~~~-----~--~~-~~CgH~fc~~Ci~~~~~ 95 (162)
..|+- |...+.. . +. ..|++.||..|-.+|..
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~ 60 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHE 60 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCT
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCC
Confidence 46766 7766652 1 33 34999999999887744
No 179
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=36.01 E-value=27 Score=31.34 Aligned_cols=66 Identities=15% Similarity=0.218 Sum_probs=38.6
Q ss_pred cccCCCCCeeecccccccccee-cCCCCcccHHhHHHHhh------cCCCCccccccccccCCCCccccCChhHHHHh
Q 031282 57 EIDIEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRA------RSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDL 127 (162)
Q Consensus 57 ~~~~~~~~~C~IC~~~~~~~~~-~~CgH~fc~~Ci~~~~~------~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~ 127 (162)
.....-.+.|+|+.-.+.-|.. ..|.|.-|.+-. |.. ....||+|.+..... .+.....+.+++..
T Consensus 300 tt~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~--~~lq~n~~~pTW~CPVC~~~~~~e---~l~iD~~~~~iL~~ 372 (636)
T KOG2169|consen 300 TTSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDAL--SYLQMNEQKPTWRCPVCQKAAPFE---GLIIDGYFLNILQS 372 (636)
T ss_pred eccceeEecCCcccceeecCCcccccccceecchh--hhHHhccCCCeeeCccCCcccccc---chhhhHHHHHHHhh
Confidence 3334456889998877765533 567776555432 332 245799998877532 24444444444433
No 180
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.85 E-value=25 Score=30.81 Aligned_cols=43 Identities=23% Similarity=0.749 Sum_probs=34.7
Q ss_pred CCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCcccccccc
Q 031282 62 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
....|.+|.... .....+|. +..|+..|......||+|+..+.
T Consensus 478 ~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred ccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhh
Confidence 356899998887 55556777 67889999999999999988775
No 181
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=34.05 E-value=70 Score=23.42 Aligned_cols=82 Identities=23% Similarity=0.274 Sum_probs=45.7
Q ss_pred hhHhHhhHHHhhhhhchhHHHHHhhc----CChHHHHHHHHhHHHHhhhcccccCCCccccCCCCCeeecccccccc---
Q 031282 3 TRERKASIKEFYGVIFPSLLQLQRGI----TDVEDKKQKEICDAKYKKKGRMDKGKLSEIDIEREEECGICLEICCK--- 75 (162)
Q Consensus 3 ~~~r~~ti~~~~~~i~~~l~ql~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~--- 75 (162)
.|-|+.++-+.-|.+-.+-.-|++|- .++.+...++.-....-+. .++..|||-.+.-.+
T Consensus 75 RYTRRiSLfEiTGIiaESyNLLqRGRlPLv~dlsdeT~k~n~L~vvi~E-------------IeEg~CPIVIeKNGElLS 141 (167)
T PF05320_consen 75 RYTRRISLFEITGIIAESYNLLQRGRLPLVSDLSDETLKDNILHVVIKE-------------IEEGTCPIVIEKNGELLS 141 (167)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHccccccccccchHHHHHhHHHHHHHH-------------HhcCCCcEEEeeCCeEcc
Confidence 47789999888888877766666653 3333333322222222222 345689986543221
Q ss_pred -ceecCCCCcccHHhHHH-HhhcC
Q 031282 76 -IVLPDCNHSMCMRCYRN-WRARS 97 (162)
Q Consensus 76 -~~~~~CgH~fc~~Ci~~-~~~~~ 97 (162)
.-+-+=|-.+|..-+.. |..++
T Consensus 142 ~~DFD~~gl~~HLdYi~~iWK~Q~ 165 (167)
T PF05320_consen 142 INDFDKKGLKYHLDYIISIWKQQG 165 (167)
T ss_pred ccccCHHHHHHHHHHHHHHHHHcc
Confidence 11223455678888877 76543
No 182
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.66 E-value=16 Score=31.09 Aligned_cols=35 Identities=23% Similarity=0.651 Sum_probs=25.8
Q ss_pred cceecCCCCcccHHhHHHHhh--------------------------cCCCCccccccccc
Q 031282 75 KIVLPDCNHSMCMRCYRNWRA--------------------------RSQSCPFCRDSLRR 109 (162)
Q Consensus 75 ~~~~~~CgH~fc~~Ci~~~~~--------------------------~~~~CP~Cr~~~~~ 109 (162)
.++.-.|||.||..|...|.. ....||.|..++..
T Consensus 178 ~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek 238 (444)
T KOG1815|consen 178 VEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEK 238 (444)
T ss_pred cceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhc
Confidence 456678999999999876654 23459999888853
No 183
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=31.48 E-value=13 Score=32.85 Aligned_cols=33 Identities=24% Similarity=0.445 Sum_probs=25.0
Q ss_pred CCCCeeeccccccc-------------cceecCCCCcccHHhHHHH
Q 031282 61 EREEECGICLEICC-------------KIVLPDCNHSMCMRCYRNW 93 (162)
Q Consensus 61 ~~~~~C~IC~~~~~-------------~~~~~~CgH~fc~~Ci~~~ 93 (162)
+....|+||.+.|. +.+-+.=|-.||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 45689999999887 2455556888999998763
No 184
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=31.40 E-value=25 Score=27.50 Aligned_cols=12 Identities=17% Similarity=0.611 Sum_probs=7.6
Q ss_pred CCCCcccccccc
Q 031282 97 SQSCPFCRDSLR 108 (162)
Q Consensus 97 ~~~CP~Cr~~~~ 108 (162)
...||.|...+.
T Consensus 274 ~~~C~~C~skF~ 285 (296)
T COG5242 274 VPVCKKCKSKFS 285 (296)
T ss_pred cCcCcccccccc
Confidence 455777766663
No 185
>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=30.79 E-value=20 Score=20.30 Aligned_cols=41 Identities=22% Similarity=0.383 Sum_probs=25.0
Q ss_pred eeecccccccccee---cCCCCcccHHhHHHHhh------cCCCCccccc
Q 031282 65 ECGICLEICCKIVL---PDCNHSMCMRCYRNWRA------RSQSCPFCRD 105 (162)
Q Consensus 65 ~C~IC~~~~~~~~~---~~CgH~fc~~Ci~~~~~------~~~~CP~Cr~ 105 (162)
.|.||.....+..+ -.|+..||..|+..-.. ....||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 37778773333222 36788899999865221 2456887753
No 186
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=30.71 E-value=32 Score=20.08 Aligned_cols=9 Identities=44% Similarity=1.556 Sum_probs=6.0
Q ss_pred hcCCCCccc
Q 031282 95 ARSQSCPFC 103 (162)
Q Consensus 95 ~~~~~CP~C 103 (162)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 345678877
No 187
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=30.66 E-value=36 Score=32.29 Aligned_cols=48 Identities=23% Similarity=0.608 Sum_probs=35.2
Q ss_pred CCCeeecccccccc-----c--eecCCCCcccHHhHHH-HhhcCCCCccccccccc
Q 031282 62 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRR 109 (162)
Q Consensus 62 ~~~~C~IC~~~~~~-----~--~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~ 109 (162)
....|.||-+.... + ..-.|+--.|..|..- ..+.+..||.|+....+
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 45689999988662 2 1235777799999844 45578899999988863
No 188
>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 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=29.31 E-value=5.8 Score=20.69 Aligned_cols=23 Identities=30% Similarity=0.777 Sum_probs=9.7
Q ss_pred CcccHHhHHHHhh----cCCCCccccc
Q 031282 83 HSMCMRCYRNWRA----RSQSCPFCRD 105 (162)
Q Consensus 83 H~fc~~Ci~~~~~----~~~~CP~Cr~ 105 (162)
|.||..|-.+-.. ....||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 6677777555221 2345776654
No 190
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=29.20 E-value=44 Score=17.44 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=7.3
Q ss_pred cCCCCcccccc
Q 031282 96 RSQSCPFCRDS 106 (162)
Q Consensus 96 ~~~~CP~Cr~~ 106 (162)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 34578888653
No 191
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=28.82 E-value=48 Score=24.74 Aligned_cols=19 Identities=37% Similarity=0.690 Sum_probs=14.0
Q ss_pred HHHHHhcCCCCCCCcceecccC
Q 031282 138 LFMYIDKLPFITPNPTLVSYDP 159 (162)
Q Consensus 138 l~~~~~~~p~~~p~~~~~~~~~ 159 (162)
|...|++.|. |.|+||||-
T Consensus 43 lV~lIk~a~~---DPV~VMfDD 61 (180)
T PF14097_consen 43 LVELIKQAPH---DPVLVMFDD 61 (180)
T ss_pred HHHHHHhCCC---CCEEEEEeC
Confidence 3444666777 999999984
No 192
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=28.51 E-value=42 Score=20.61 Aligned_cols=11 Identities=27% Similarity=0.905 Sum_probs=8.0
Q ss_pred CCCcccccccc
Q 031282 98 QSCPFCRDSLR 108 (162)
Q Consensus 98 ~~CP~Cr~~~~ 108 (162)
..||.|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46888888764
No 193
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=26.81 E-value=40 Score=18.96 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=13.0
Q ss_pred eeccccccccceecCCCCcccHH
Q 031282 66 CGICLEICCKIVLPDCNHSMCMR 88 (162)
Q Consensus 66 C~IC~~~~~~~~~~~CgH~fc~~ 88 (162)
|..|...-..-+-+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55565433323446788887743
No 194
>PLN02195 cellulose synthase A
Probab=26.39 E-value=67 Score=30.36 Aligned_cols=47 Identities=17% Similarity=0.456 Sum_probs=33.8
Q ss_pred CCCeeeccccccc-----cc--eecCCCCcccHHhHHH-HhhcCCCCcccccccc
Q 031282 62 REEECGICLEICC-----KI--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLR 108 (162)
Q Consensus 62 ~~~~C~IC~~~~~-----~~--~~~~CgH~fc~~Ci~~-~~~~~~~CP~Cr~~~~ 108 (162)
....|.||-+... ++ ..-.|+--.|..|..= -.+.+..||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3457999998665 22 2246888899999843 3346788999988876
No 195
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.88 E-value=33 Score=30.75 Aligned_cols=45 Identities=22% Similarity=0.417 Sum_probs=31.8
Q ss_pred cCCCCCeeeccccccccc----eecCCCCcccHHhHHHHhh--------cCCCCccc
Q 031282 59 DIEREEECGICLEICCKI----VLPDCNHSMCMRCYRNWRA--------RSQSCPFC 103 (162)
Q Consensus 59 ~~~~~~~C~IC~~~~~~~----~~~~CgH~fc~~Ci~~~~~--------~~~~CP~C 103 (162)
++.+...|-.|...|... ....||-.||..|...-+. ..+.|-.|
T Consensus 161 dW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 161 DWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhh
Confidence 445568899998887732 3468999999999766332 24567777
No 196
>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=25.41 E-value=41 Score=24.63 Aligned_cols=24 Identities=29% Similarity=0.756 Sum_probs=16.9
Q ss_pred CCcccHHhHHHHhhcCCCCcccccccc
Q 031282 82 NHSMCMRCYRNWRARSQSCPFCRDSLR 108 (162)
Q Consensus 82 gH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 108 (162)
.+.||..|-.+-. ..||.|..++.
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCC
Confidence 3568999876632 45888888774
No 197
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=25.02 E-value=21 Score=32.87 Aligned_cols=45 Identities=29% Similarity=0.761 Sum_probs=31.9
Q ss_pred CCeeeccccccccc--eecCCCCcccHHhHHHHhh------cCCCCccccccc
Q 031282 63 EEECGICLEICCKI--VLPDCNHSMCMRCYRNWRA------RSQSCPFCRDSL 107 (162)
Q Consensus 63 ~~~C~IC~~~~~~~--~~~~CgH~fc~~Ci~~~~~------~~~~CP~Cr~~~ 107 (162)
...|-.|..-+.+. +...||+.+|..|+..|.- ....|++|+..-
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C 281 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKC 281 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhc
Confidence 46788898777653 4568999999999999941 233566665544
No 198
>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=24.96 E-value=35 Score=16.91 Aligned_cols=10 Identities=30% Similarity=0.929 Sum_probs=7.6
Q ss_pred CCCccccccc
Q 031282 98 QSCPFCRDSL 107 (162)
Q Consensus 98 ~~CP~Cr~~~ 107 (162)
..||+|...+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 3699997766
No 199
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=24.69 E-value=49 Score=25.93 Aligned_cols=10 Identities=30% Similarity=0.773 Sum_probs=4.9
Q ss_pred CcccHHhHHH
Q 031282 83 HSMCMRCYRN 92 (162)
Q Consensus 83 H~fc~~Ci~~ 92 (162)
+.+|..|+..
T Consensus 11 ~~~C~~C~~~ 20 (302)
T PF10186_consen 11 RFYCANCVNN 20 (302)
T ss_pred CeECHHHHHH
Confidence 3455555544
No 200
>PRK01343 zinc-binding protein; Provisional
Probab=24.44 E-value=42 Score=20.27 Aligned_cols=13 Identities=23% Similarity=0.687 Sum_probs=10.1
Q ss_pred cCCCCcccccccc
Q 031282 96 RSQSCPFCRDSLR 108 (162)
Q Consensus 96 ~~~~CP~Cr~~~~ 108 (162)
....||+|++++.
T Consensus 8 p~~~CP~C~k~~~ 20 (57)
T PRK01343 8 PTRPCPECGKPST 20 (57)
T ss_pred CCCcCCCCCCcCc
Confidence 3567999999874
No 201
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=24.42 E-value=88 Score=31.50 Aligned_cols=32 Identities=28% Similarity=0.764 Sum_probs=23.3
Q ss_pred eecCCCCcccHHhHHHHhh--------------------cCCCCcccccccc
Q 031282 77 VLPDCNHSMCMRCYRNWRA--------------------RSQSCPFCRDSLR 108 (162)
Q Consensus 77 ~~~~CgH~fc~~Ci~~~~~--------------------~~~~CP~Cr~~~~ 108 (162)
+...|||..|..|...... ....||.|+....
T Consensus 1147 ~~s~c~h~mh~~c~~~~~~a~r~~~n~~~~~l~~~~se~~l~lCp~c~slsn 1198 (1738)
T KOG1140|consen 1147 VLSSCGHHMHYGCFKRYVQAKRFRENARTAPLCQHYSENGLFLCPLCKSLSN 1198 (1738)
T ss_pred eeeccCCcchHHHHHHHHHHHHHHHHhhhcCcccccccCCcccCCchHhhhh
Confidence 3346999999999988654 1236999977664
No 202
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=24.16 E-value=41 Score=30.67 Aligned_cols=47 Identities=23% Similarity=0.624 Sum_probs=33.8
Q ss_pred CCCeeeccccccccc----------eecCCCCcc--------------------cHHhHHHHhh--------cCCCCccc
Q 031282 62 REEECGICLEICCKI----------VLPDCNHSM--------------------CMRCYRNWRA--------RSQSCPFC 103 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~----------~~~~CgH~f--------------------c~~Ci~~~~~--------~~~~CP~C 103 (162)
+-..|.-|+..+.+| ..+.||-.| |..|..++.. ....||.|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~C 146 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPRC 146 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCCC
Confidence 556888898887764 124677666 9999998754 23579999
Q ss_pred ccccc
Q 031282 104 RDSLR 108 (162)
Q Consensus 104 r~~~~ 108 (162)
--.+.
T Consensus 147 gp~l~ 151 (711)
T TIGR00143 147 GPQLN 151 (711)
T ss_pred CcEEE
Confidence 77774
No 203
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=23.79 E-value=38 Score=20.44 Aligned_cols=11 Identities=27% Similarity=0.975 Sum_probs=4.6
Q ss_pred CCccccccccc
Q 031282 99 SCPFCRDSLRR 109 (162)
Q Consensus 99 ~CP~Cr~~~~~ 109 (162)
.||.|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 47777776653
No 204
>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=23.51 E-value=21 Score=24.64 Aligned_cols=16 Identities=25% Similarity=0.690 Sum_probs=12.4
Q ss_pred HhhcCCCCcccccccc
Q 031282 93 WRARSQSCPFCRDSLR 108 (162)
Q Consensus 93 ~~~~~~~CP~Cr~~~~ 108 (162)
.+.+...|+.|+.+++
T Consensus 81 mLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLT 96 (114)
T ss_pred hhchhhccCcCCCcCc
Confidence 3445678999999996
No 205
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=23.36 E-value=8.8 Score=32.55 Aligned_cols=9 Identities=22% Similarity=1.025 Sum_probs=4.8
Q ss_pred CCccccccc
Q 031282 99 SCPFCRDSL 107 (162)
Q Consensus 99 ~CP~Cr~~~ 107 (162)
.|-+|..+|
T Consensus 396 rCs~C~~PI 404 (468)
T KOG1701|consen 396 RCSVCGNPI 404 (468)
T ss_pred chhhccCCc
Confidence 455555555
No 206
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=23.30 E-value=63 Score=26.56 Aligned_cols=44 Identities=18% Similarity=0.353 Sum_probs=29.6
Q ss_pred CCCeeecccccccccee--------------cCCCCcccHHhHHHHhhcCCCCccccc
Q 031282 62 REEECGICLEICCKIVL--------------PDCNHSMCMRCYRNWRARSQSCPFCRD 105 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~--------------~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 105 (162)
....|-.|+..|..|.. -.|...||.+|-.=..+.-..|+.|..
T Consensus 361 ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 361 KSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred CCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 34568899887774422 147788888886655555667888843
No 207
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.88 E-value=46 Score=26.07 Aligned_cols=22 Identities=18% Similarity=0.292 Sum_probs=14.5
Q ss_pred Ceeecccccccc-c--eecCCCCcc
Q 031282 64 EECGICLEICCK-I--VLPDCNHSM 85 (162)
Q Consensus 64 ~~C~IC~~~~~~-~--~~~~CgH~f 85 (162)
+.||+|...+.. . ..-+.||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 579999998862 2 223446776
No 208
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=22.75 E-value=54 Score=17.95 Aligned_cols=7 Identities=29% Similarity=0.980 Sum_probs=3.8
Q ss_pred CCCcccH
Q 031282 81 CNHSMCM 87 (162)
Q Consensus 81 CgH~fc~ 87 (162)
|+..||.
T Consensus 18 C~~~FC~ 24 (39)
T smart00154 18 CGNLFCG 24 (39)
T ss_pred cCCcccc
Confidence 5555554
No 209
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=22.68 E-value=86 Score=20.82 Aligned_cols=31 Identities=23% Similarity=0.514 Sum_probs=22.0
Q ss_pred CCCeeecccccccccee---cCCCCcccHHhHHH
Q 031282 62 REEECGICLEICCKIVL---PDCNHSMCMRCYRN 92 (162)
Q Consensus 62 ~~~~C~IC~~~~~~~~~---~~CgH~fc~~Ci~~ 92 (162)
....|.||.......+. ..|...||..|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 46789999987332222 34777899999876
No 210
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=22.56 E-value=45 Score=20.31 Aligned_cols=13 Identities=23% Similarity=0.933 Sum_probs=10.4
Q ss_pred cCCCCcccccccc
Q 031282 96 RSQSCPFCRDSLR 108 (162)
Q Consensus 96 ~~~~CP~Cr~~~~ 108 (162)
....||+|..+..
T Consensus 38 ~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 38 EEPVCPLCKSPMV 50 (59)
T ss_pred CCccCCCcCCccc
Confidence 4578999998874
No 211
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=22.12 E-value=91 Score=22.63 Aligned_cols=34 Identities=15% Similarity=0.047 Sum_probs=21.5
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
.....|+.|...+.. . .-....+.||.|..++..
T Consensus 107 ~~~Y~Cp~c~~r~tf------------~---eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTF------------N---EAMELNFTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeH------------H---HHHHcCCcCCCCCCEeee
Confidence 456788877655441 1 112247999999998753
No 212
>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=22.03 E-value=45 Score=23.00 Aligned_cols=12 Identities=42% Similarity=0.949 Sum_probs=9.4
Q ss_pred ceecCCCCcccH
Q 031282 76 IVLPDCNHSMCM 87 (162)
Q Consensus 76 ~~~~~CgH~fc~ 87 (162)
.+.-.|||.||.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 455689999986
No 213
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=21.80 E-value=71 Score=21.50 Aligned_cols=13 Identities=31% Similarity=1.045 Sum_probs=10.5
Q ss_pred CCCCccccccccc
Q 031282 97 SQSCPFCRDSLRR 109 (162)
Q Consensus 97 ~~~CP~Cr~~~~~ 109 (162)
...||.|+.+++.
T Consensus 80 ~~~Cp~C~spFNp 92 (105)
T COG4357 80 CGSCPYCQSPFNP 92 (105)
T ss_pred cCCCCCcCCCCCc
Confidence 5679999999963
No 214
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=21.59 E-value=1e+02 Score=22.95 Aligned_cols=34 Identities=18% Similarity=0.151 Sum_probs=21.8
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccc
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 109 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 109 (162)
.....|+.|...+..- .-....+.||.|...+..
T Consensus 115 ~~~Y~Cp~C~~rytf~---------------eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFD---------------EAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHH---------------HHhhcCCcCCCCCCCCee
Confidence 4567888776554411 112357999999998854
No 215
>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=20.91 E-value=50 Score=16.69 Aligned_cols=11 Identities=45% Similarity=1.165 Sum_probs=5.7
Q ss_pred CCccccccccc
Q 031282 99 SCPFCRDSLRR 109 (162)
Q Consensus 99 ~CP~Cr~~~~~ 109 (162)
.||.|...+.+
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48889888753
No 216
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=20.90 E-value=20 Score=28.75 Aligned_cols=27 Identities=26% Similarity=0.580 Sum_probs=16.9
Q ss_pred CCCcccHHhHHHHhh----cCCCCccccccc
Q 031282 81 CNHSMCMRCYRNWRA----RSQSCPFCRDSL 107 (162)
Q Consensus 81 CgH~fc~~Ci~~~~~----~~~~CP~Cr~~~ 107 (162)
=.|.||..|-.+-.. ....||.|+...
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 467788887766322 234588886655
No 217
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=20.81 E-value=59 Score=19.74 Aligned_cols=13 Identities=23% Similarity=0.838 Sum_probs=10.7
Q ss_pred cCCCCcccccccc
Q 031282 96 RSQSCPFCRDSLR 108 (162)
Q Consensus 96 ~~~~CP~Cr~~~~ 108 (162)
.++.||.|..+++
T Consensus 2 ~HkHC~~CG~~Ip 14 (59)
T PF09889_consen 2 PHKHCPVCGKPIP 14 (59)
T ss_pred CCCcCCcCCCcCC
Confidence 4678999999885
No 218
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=20.38 E-value=35 Score=21.01 Aligned_cols=21 Identities=29% Similarity=0.792 Sum_probs=12.9
Q ss_pred cHHhHHHHhhcCCCCcccccc
Q 031282 86 CMRCYRNWRARSQSCPFCRDS 106 (162)
Q Consensus 86 c~~Ci~~~~~~~~~CP~Cr~~ 106 (162)
|..|..-.-.....||.|..+
T Consensus 7 C~~Ck~l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 7 CKNCKRLTPEDTEICPVCGST 27 (64)
T ss_pred HhhccccCCCCCccCCCCCCc
Confidence 555643333345569999876
No 219
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.29 E-value=85 Score=23.44 Aligned_cols=36 Identities=17% Similarity=0.363 Sum_probs=23.0
Q ss_pred CCCCeeeccccccccceecCCCCcccHHhHHHHhhcCCCCccccccccccC
Q 031282 61 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVN 111 (162)
Q Consensus 61 ~~~~~C~IC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~ 111 (162)
...+.|+.|...+. ...-....++||.|...+....
T Consensus 111 ~~~y~C~~~~~r~s---------------fdeA~~~~F~Cp~Cg~~L~~~d 146 (176)
T COG1675 111 NNYYVCPNCHVKYS---------------FDEAMELGFTCPKCGEDLEEYD 146 (176)
T ss_pred CCceeCCCCCCccc---------------HHHHHHhCCCCCCCCchhhhcc
Confidence 45678887776555 1122234589999999886433
No 220
>KOG3475 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=20.27 E-value=58 Score=21.31 Aligned_cols=30 Identities=23% Similarity=0.690 Sum_probs=23.7
Q ss_pred CCcccHHhHHH-HhhcCCCCccccccccccC
Q 031282 82 NHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 111 (162)
Q Consensus 82 gH~fc~~Ci~~-~~~~~~~CP~Cr~~~~~~~ 111 (162)
.|..|..|-.. +..+..+|..|-.+-....
T Consensus 15 shtlC~RCG~~syH~QKstC~~CGYpaak~R 45 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQKSTCSSCGYPAAKKR 45 (92)
T ss_pred chHHHHHhCchhhhhhcccccccCCcchhcc
Confidence 58889999887 6678889999988776444
No 221
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.18 E-value=55 Score=17.58 Aligned_cols=10 Identities=20% Similarity=0.381 Sum_probs=6.5
Q ss_pred eeeccccccc
Q 031282 65 ECGICLEICC 74 (162)
Q Consensus 65 ~C~IC~~~~~ 74 (162)
.||-|...|.
T Consensus 4 ~CP~C~~~f~ 13 (37)
T PF13719_consen 4 TCPNCQTRFR 13 (37)
T ss_pred ECCCCCceEE
Confidence 5677766665
No 222
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=20.14 E-value=79 Score=16.96 Aligned_cols=22 Identities=23% Similarity=0.622 Sum_probs=11.0
Q ss_pred cHHhHHHHhh--------cCCCCccccccc
Q 031282 86 CMRCYRNWRA--------RSQSCPFCRDSL 107 (162)
Q Consensus 86 c~~Ci~~~~~--------~~~~CP~Cr~~~ 107 (162)
|..|+.++.. ...+|+.|.-.+
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CGPr~ 31 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCGPRY 31 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC-SC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCCCCE
Confidence 6667766543 245688885544
Done!