Query 019640
Match_columns 338
No_of_seqs 222 out of 668
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:22:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019640.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019640hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3970 Predicted E3 ubiquitin 100.0 3.3E-64 7.2E-69 465.7 14.1 219 1-250 1-229 (299)
2 PF13639 zf-RING_2: Ring finge 99.3 1.7E-12 3.7E-17 91.2 2.1 43 53-105 2-44 (44)
3 KOG4628 Predicted E3 ubiquitin 99.2 2.3E-11 4.9E-16 119.9 5.9 52 52-112 230-281 (348)
4 COG5243 HRD1 HRD ubiquitin lig 98.9 7.3E-09 1.6E-13 103.2 10.4 50 52-109 288-345 (491)
5 COG5540 RING-finger-containing 98.8 1.6E-09 3.4E-14 105.6 3.7 51 52-111 324-374 (374)
6 PF12678 zf-rbx1: RING-H2 zinc 98.8 3.4E-09 7.4E-14 82.8 4.2 56 39-105 10-73 (73)
7 cd00162 RING RING-finger (Real 98.7 3E-08 6.4E-13 66.6 4.1 45 53-108 1-45 (45)
8 PHA02929 N1R/p28-like protein; 98.6 2.5E-08 5.4E-13 94.3 4.4 50 52-109 175-227 (238)
9 PF12861 zf-Apc11: Anaphase-pr 98.5 8.3E-08 1.8E-12 78.2 3.9 52 52-108 22-81 (85)
10 KOG0802 E3 ubiquitin ligase [P 98.5 3.9E-08 8.4E-13 101.5 2.4 54 52-113 292-345 (543)
11 PLN03208 E3 ubiquitin-protein 98.5 1.5E-07 3.2E-12 86.7 4.7 55 52-111 19-81 (193)
12 PF00097 zf-C3HC4: Zinc finger 98.4 2.5E-07 5.5E-12 63.5 2.8 41 54-104 1-41 (41)
13 smart00184 RING Ring finger. E 98.4 3.5E-07 7.7E-12 59.2 3.2 39 54-104 1-39 (39)
14 PF13923 zf-C3HC4_2: Zinc fing 98.3 3E-07 6.4E-12 63.3 2.5 39 54-104 1-39 (39)
15 PF15227 zf-C3HC4_4: zinc fing 98.3 5.7E-07 1.2E-11 63.7 3.2 42 54-104 1-42 (42)
16 KOG0317 Predicted E3 ubiquitin 98.3 4.1E-07 8.9E-12 88.0 2.8 49 51-112 239-287 (293)
17 PF13920 zf-C3HC4_3: Zinc fing 98.2 1.3E-06 2.8E-11 62.9 3.1 45 52-109 3-48 (50)
18 COG5194 APC11 Component of SCF 98.2 1.3E-06 2.9E-11 70.9 3.3 47 52-108 32-80 (88)
19 KOG0823 Predicted E3 ubiquitin 98.1 1.5E-06 3.3E-11 81.9 3.2 53 44-110 44-96 (230)
20 smart00504 Ubox Modified RING 98.1 5.3E-06 1.2E-10 61.1 5.2 45 53-110 3-47 (63)
21 PF13445 zf-RING_UBOX: RING-ty 98.0 3.9E-06 8.5E-11 60.2 2.8 43 54-102 1-43 (43)
22 PF14634 zf-RING_5: zinc-RING 98.0 5.3E-06 1.2E-10 58.6 3.4 44 53-106 1-44 (44)
23 PHA02926 zinc finger-like prot 97.9 6.1E-06 1.3E-10 77.9 3.0 55 52-109 171-230 (242)
24 smart00744 RINGv The RING-vari 97.9 1.2E-05 2.6E-10 58.9 3.2 44 53-105 1-49 (49)
25 KOG0827 Predicted E3 ubiquitin 97.8 7.5E-06 1.6E-10 82.4 1.8 47 52-105 5-52 (465)
26 PF11793 FANCL_C: FANCL C-term 97.8 3.1E-06 6.7E-11 65.9 -0.8 56 52-108 3-65 (70)
27 KOG1493 Anaphase-promoting com 97.8 4.9E-06 1.1E-10 67.1 0.1 51 52-108 21-80 (84)
28 KOG0828 Predicted E3 ubiquitin 97.8 9.9E-06 2.1E-10 83.5 1.6 53 51-110 571-635 (636)
29 TIGR00599 rad18 DNA repair pro 97.7 4.6E-05 1E-09 77.0 5.9 48 51-111 26-73 (397)
30 KOG1734 Predicted RING-contain 97.7 1.3E-05 2.8E-10 77.7 0.8 55 51-111 224-283 (328)
31 COG5574 PEX10 RING-finger-cont 97.6 2.6E-05 5.5E-10 75.1 2.5 48 53-112 217-265 (271)
32 KOG0320 Predicted E3 ubiquitin 97.6 2.8E-05 6E-10 71.3 2.4 47 52-109 132-178 (187)
33 KOG0804 Cytoplasmic Zn-finger 97.5 3.4E-05 7.3E-10 78.8 1.6 49 51-110 175-223 (493)
34 PF04564 U-box: U-box domain; 97.4 0.00012 2.7E-09 56.9 3.5 48 52-111 5-52 (73)
35 KOG2164 Predicted E3 ubiquitin 97.4 0.00011 2.4E-09 76.0 2.8 52 51-110 186-237 (513)
36 KOG0825 PHD Zn-finger protein 97.3 4.7E-05 1E-09 82.1 -0.3 86 31-136 113-199 (1134)
37 KOG1940 Zn-finger protein [Gen 97.2 0.00014 3E-09 70.5 2.0 46 52-106 159-204 (276)
38 KOG1952 Transcription factor N 97.2 0.00013 2.8E-09 79.1 1.1 57 42-106 186-244 (950)
39 KOG1941 Acetylcholine receptor 97.1 0.00015 3.2E-09 73.5 0.6 48 52-106 366-413 (518)
40 KOG2177 Predicted E3 ubiquitin 96.9 0.00036 7.9E-09 61.1 1.6 42 52-106 14-55 (386)
41 KOG4445 Uncharacterized conser 96.9 0.00017 3.6E-09 71.0 -0.6 67 40-109 105-186 (368)
42 COG5219 Uncharacterized conser 96.8 0.00047 1E-08 75.9 1.2 51 52-108 1470-1522(1525)
43 KOG2930 SCF ubiquitin ligase, 96.7 0.0011 2.5E-08 56.3 2.6 27 73-107 80-106 (114)
44 KOG0287 Postreplication repair 96.7 0.0012 2.6E-08 66.1 3.1 87 52-162 24-110 (442)
45 TIGR00570 cdk7 CDK-activating 96.6 0.002 4.2E-08 63.6 4.1 51 52-111 4-56 (309)
46 PF10367 Vps39_2: Vacuolar sor 96.5 0.001 2.2E-08 53.2 0.8 30 52-84 79-108 (109)
47 KOG0978 E3 ubiquitin ligase in 96.1 0.0021 4.4E-08 69.2 1.1 49 51-111 643-691 (698)
48 KOG1645 RING-finger-containing 96.0 0.0045 9.6E-08 63.2 2.9 49 52-107 5-54 (463)
49 KOG1428 Inhibitor of type V ad 95.7 0.0077 1.7E-07 69.1 3.5 56 52-110 3487-3545(3738)
50 PF11789 zf-Nse: Zinc-finger o 95.6 0.0079 1.7E-07 45.5 2.2 42 52-103 12-53 (57)
51 PF14835 zf-RING_6: zf-RING of 95.6 0.0025 5.4E-08 49.9 -0.6 46 52-112 8-54 (65)
52 COG5432 RAD18 RING-finger-cont 95.5 0.0078 1.7E-07 59.4 2.4 44 52-108 26-69 (391)
53 KOG4265 Predicted E3 ubiquitin 95.5 0.0098 2.1E-07 59.5 2.9 49 51-112 290-339 (349)
54 KOG0801 Predicted E3 ubiquitin 95.2 0.0078 1.7E-07 55.2 0.9 64 15-80 134-204 (205)
55 KOG3268 Predicted E3 ubiquitin 94.8 0.016 3.6E-07 53.8 2.1 67 39-109 155-228 (234)
56 PF05883 Baculo_RING: Baculovi 94.6 0.016 3.5E-07 51.2 1.4 39 52-92 27-74 (134)
57 PF12906 RINGv: RING-variant d 94.5 0.013 2.8E-07 42.5 0.6 42 54-104 1-47 (47)
58 KOG1039 Predicted E3 ubiquitin 94.5 0.021 4.6E-07 57.1 2.1 56 51-108 161-220 (344)
59 KOG1002 Nucleotide excision re 94.3 0.024 5.1E-07 59.9 2.0 72 29-110 515-587 (791)
60 KOG0824 Predicted E3 ubiquitin 93.8 0.03 6.5E-07 55.4 1.5 46 52-109 8-53 (324)
61 KOG0311 Predicted E3 ubiquitin 93.6 0.021 4.5E-07 57.5 0.2 48 52-110 44-91 (381)
62 KOG1785 Tyrosine kinase negati 93.3 0.032 7E-07 57.2 1.1 49 52-111 370-418 (563)
63 KOG1814 Predicted E3 ubiquitin 92.8 0.093 2E-06 53.8 3.4 72 53-136 186-257 (445)
64 KOG2034 Vacuolar sorting prote 92.7 0.053 1.1E-06 59.8 1.5 36 52-90 818-853 (911)
65 KOG2660 Locus-specific chromos 92.4 0.033 7.2E-07 55.4 -0.3 47 52-110 16-62 (331)
66 KOG4185 Predicted E3 ubiquitin 92.2 0.16 3.5E-06 48.3 4.0 50 52-108 4-54 (296)
67 PHA02825 LAP/PHD finger-like p 92.1 0.16 3.4E-06 46.3 3.6 50 51-110 8-60 (162)
68 KOG2114 Vacuolar assembly/sort 91.8 0.059 1.3E-06 59.3 0.7 40 52-106 841-880 (933)
69 PF04641 Rtf2: Rtf2 RING-finge 91.8 0.3 6.4E-06 46.5 5.3 49 52-111 114-163 (260)
70 PHA02862 5L protein; Provision 91.7 0.13 2.9E-06 46.3 2.7 47 52-110 3-54 (156)
71 KOG2879 Predicted E3 ubiquitin 90.9 0.21 4.6E-06 49.0 3.3 50 51-110 239-288 (298)
72 KOG0309 Conserved WD40 repeat- 90.5 0.16 3.6E-06 55.6 2.4 36 52-90 1029-1064(1081)
73 KOG4172 Predicted E3 ubiquitin 89.9 0.095 2.1E-06 40.4 0.0 47 50-108 6-53 (62)
74 KOG3039 Uncharacterized conser 89.8 0.29 6.4E-06 47.6 3.2 49 52-110 222-271 (303)
75 KOG4159 Predicted E3 ubiquitin 88.9 0.24 5.2E-06 50.6 2.1 46 52-110 85-130 (398)
76 KOG0297 TNF receptor-associate 87.4 0.43 9.4E-06 48.2 2.8 50 52-113 22-71 (391)
77 KOG2817 Predicted E3 ubiquitin 87.4 0.46 1E-05 48.5 3.0 52 51-109 334-385 (394)
78 KOG1571 Predicted E3 ubiquitin 86.9 0.37 8E-06 48.7 2.0 44 50-109 304-347 (355)
79 PF14447 Prok-RING_4: Prokaryo 86.7 0.3 6.6E-06 37.3 1.0 34 68-111 19-52 (55)
80 smart00249 PHD PHD zinc finger 86.5 0.29 6.4E-06 32.8 0.7 46 53-104 1-47 (47)
81 KOG1813 Predicted E3 ubiquitin 86.1 0.4 8.6E-06 47.5 1.7 63 50-128 240-302 (313)
82 PF14570 zf-RING_4: RING/Ubox 85.9 0.76 1.6E-05 34.1 2.7 45 54-108 1-47 (48)
83 PF08746 zf-RING-like: RING-li 84.9 0.49 1.1E-05 33.9 1.3 43 54-104 1-43 (43)
84 COG5152 Uncharacterized conser 84.7 0.47 1E-05 45.0 1.4 49 51-112 196-244 (259)
85 KOG0827 Predicted E3 ubiquitin 82.5 0.12 2.7E-06 52.8 -3.6 49 52-109 197-245 (465)
86 KOG3800 Predicted E3 ubiquitin 82.2 1.1 2.4E-05 44.3 2.9 48 53-110 2-52 (300)
87 PF14446 Prok-RING_1: Prokaryo 82.0 1.6 3.4E-05 33.3 3.0 32 52-85 6-38 (54)
88 PF07800 DUF1644: Protein of u 81.7 1.9 4.1E-05 39.4 4.0 53 52-109 3-91 (162)
89 COG5220 TFB3 Cdk activating ki 78.6 0.78 1.7E-05 44.7 0.5 46 52-106 11-61 (314)
90 KOG3053 Uncharacterized conser 76.5 1.4 2.9E-05 43.3 1.5 61 51-113 20-89 (293)
91 KOG1609 Protein involved in mR 71.4 1.9 4.2E-05 40.5 1.2 53 52-111 79-136 (323)
92 PF02891 zf-MIZ: MIZ/SP-RING z 70.9 4.9 0.00011 29.5 2.9 45 52-107 3-50 (50)
93 PF05605 zf-Di19: Drought indu 68.2 4.1 8.8E-05 29.9 2.0 36 53-106 4-39 (54)
94 COG5222 Uncharacterized conser 67.0 3.7 8E-05 41.3 2.1 44 51-106 274-318 (427)
95 KOG3161 Predicted E3 ubiquitin 66.7 2.4 5.3E-05 46.2 0.9 46 52-109 12-57 (861)
96 COG5236 Uncharacterized conser 66.5 5.1 0.00011 41.1 3.0 46 51-107 61-106 (493)
97 TIGR00373 conserved hypothetic 65.7 4.9 0.00011 35.9 2.4 29 98-131 128-156 (158)
98 COG5109 Uncharacterized conser 65.4 4.5 9.8E-05 40.9 2.4 46 52-104 337-382 (396)
99 PHA03096 p28-like protein; Pro 65.1 3.9 8.5E-05 40.1 1.9 50 52-106 179-231 (284)
100 PRK06266 transcription initiat 64.3 6.3 0.00014 36.0 2.9 31 98-133 136-166 (178)
101 KOG1815 Predicted E3 ubiquitin 62.6 2 4.4E-05 43.9 -0.6 68 22-90 189-268 (444)
102 PF06906 DUF1272: Protein of u 62.3 9.3 0.0002 29.5 3.0 48 52-112 6-55 (57)
103 PF00628 PHD: PHD-finger; Int 60.8 0.42 9E-06 34.0 -4.3 48 53-105 1-49 (51)
104 KOG2932 E3 ubiquitin ligase in 60.7 3.7 7.9E-05 41.4 0.8 69 52-136 91-165 (389)
105 KOG4739 Uncharacterized protei 59.3 3.5 7.5E-05 39.7 0.4 31 69-109 17-48 (233)
106 smart00132 LIM Zinc-binding do 58.8 8.9 0.00019 24.7 2.2 37 53-108 1-37 (39)
107 KOG2066 Vacuolar assembly/sort 54.8 4.4 9.5E-05 44.9 0.3 38 52-89 785-824 (846)
108 KOG1701 Focal adhesion adaptor 53.3 5.8 0.00013 41.4 0.8 89 9-113 313-409 (468)
109 PF13901 DUF4206: Domain of un 52.9 7.2 0.00016 36.1 1.3 39 52-106 153-197 (202)
110 PF00412 LIM: LIM domain; Int 51.0 9.1 0.0002 27.3 1.4 39 54-111 1-39 (58)
111 COG5183 SSM4 Protein involved 49.4 9.2 0.0002 43.0 1.6 48 52-108 13-65 (1175)
112 PRK10144 formate-dependent nit 48.7 18 0.00038 31.9 3.0 29 98-131 40-68 (126)
113 KOG0269 WD40 repeat-containing 48.4 16 0.00034 40.7 3.2 36 52-90 780-815 (839)
114 PF07172 GRP: Glycine rich pro 46.0 29 0.00063 28.9 3.8 26 301-328 3-28 (95)
115 PF01102 Glycophorin_A: Glycop 45.9 28 0.0006 30.5 3.7 28 299-326 63-91 (122)
116 KOG2068 MOT2 transcription fac 45.6 17 0.00036 36.7 2.6 52 51-111 249-300 (327)
117 KOG3002 Zn finger protein [Gen 45.5 17 0.00037 36.0 2.7 53 52-127 49-103 (299)
118 TIGR03147 cyt_nit_nrfF cytochr 44.8 20 0.00043 31.6 2.7 29 98-131 40-68 (126)
119 COG5175 MOT2 Transcriptional r 44.0 15 0.00032 37.7 2.0 53 52-113 15-67 (480)
120 KOG3005 GIY-YIG type nuclease 43.9 14 0.0003 36.5 1.7 54 52-108 183-242 (276)
121 KOG0826 Predicted E3 ubiquitin 43.8 20 0.00043 36.5 2.8 45 52-108 301-345 (357)
122 PF00643 zf-B_box: B-box zinc 41.3 6.9 0.00015 26.7 -0.5 26 9-35 13-38 (42)
123 KOG4275 Predicted E3 ubiquitin 39.7 5.6 0.00012 39.8 -1.6 41 52-109 301-342 (350)
124 PF06900 DUF1270: Protein of u 39.6 57 0.0012 24.9 4.0 19 307-326 15-33 (53)
125 PF04710 Pellino: Pellino; In 39.3 9.9 0.00022 39.3 0.0 75 36-110 312-402 (416)
126 KOG2071 mRNA cleavage and poly 39.2 15 0.00033 39.5 1.4 38 52-89 514-559 (579)
127 KOG4362 Transcriptional regula 39.0 13 0.00028 40.8 0.8 50 52-111 22-71 (684)
128 COG3813 Uncharacterized protei 38.9 25 0.00053 28.8 2.2 47 52-111 6-54 (84)
129 smart00531 TFIIE Transcription 38.5 12 0.00025 32.8 0.3 17 97-113 122-138 (147)
130 KOG1829 Uncharacterized conser 37.7 8 0.00017 41.6 -1.0 26 68-104 530-556 (580)
131 KOG1001 Helicase-like transcri 36.6 15 0.00033 40.1 0.9 46 52-109 455-500 (674)
132 COG2888 Predicted Zn-ribbon RN 35.3 41 0.00089 26.4 2.8 46 51-105 9-57 (61)
133 COG4847 Uncharacterized protei 35.0 37 0.0008 29.0 2.7 37 53-92 8-44 (103)
134 PF04710 Pellino: Pellino; In 34.0 14 0.00029 38.4 0.0 50 52-106 278-336 (416)
135 PF03918 CcmH: Cytochrome C bi 32.2 42 0.00091 30.0 2.8 29 98-131 40-68 (148)
136 COG1675 TFA1 Transcription ini 32.1 38 0.00082 31.4 2.6 30 98-132 132-161 (176)
137 PF09943 DUF2175: Uncharacteri 32.0 34 0.00073 29.2 2.0 35 53-90 4-38 (101)
138 KOG1812 Predicted E3 ubiquitin 32.0 25 0.00054 35.8 1.5 55 51-108 146-202 (384)
139 PRK14890 putative Zn-ribbon RN 31.6 37 0.00081 26.4 2.0 46 51-105 7-55 (59)
140 PF13717 zinc_ribbon_4: zinc-r 31.0 28 0.0006 24.0 1.2 13 53-65 4-16 (36)
141 PF13240 zinc_ribbon_2: zinc-r 30.9 26 0.00056 22.1 0.9 8 101-108 16-23 (23)
142 KOG1815 Predicted E3 ubiquitin 30.3 79 0.0017 32.5 4.8 86 52-145 71-159 (444)
143 PF10272 Tmpp129: Putative tra 29.8 42 0.00091 34.3 2.7 37 73-109 310-351 (358)
144 smart00064 FYVE Protein presen 29.6 23 0.00049 26.5 0.6 46 41-90 3-48 (68)
145 KOG4367 Predicted Zn-finger pr 29.5 35 0.00075 36.3 2.0 36 52-92 5-40 (699)
146 cd00350 rubredoxin_like Rubred 29.5 26 0.00056 23.5 0.8 9 99-107 18-26 (33)
147 PF01484 Col_cuticle_N: Nemato 28.8 91 0.002 22.1 3.6 23 303-325 8-30 (53)
148 KOG3113 Uncharacterized conser 28.0 98 0.0021 30.7 4.7 50 52-113 112-162 (293)
149 PF02566 OsmC: OsmC-like prote 26.9 78 0.0017 24.6 3.2 27 297-324 5-31 (100)
150 KOG0801 Predicted E3 ubiquitin 26.8 34 0.00074 31.9 1.3 16 97-112 137-152 (205)
151 KOG1701 Focal adhesion adaptor 25.8 39 0.00084 35.5 1.6 43 51-109 394-438 (468)
152 COG3088 CcmH Uncharacterized p 25.4 58 0.0013 29.7 2.5 27 98-129 44-70 (153)
153 KOG4718 Non-SMC (structural ma 25.2 38 0.00082 32.7 1.3 46 52-111 182-228 (235)
154 KOG0298 DEAD box-containing he 25.1 24 0.00053 41.4 0.1 62 33-108 1137-1198(1394)
155 cd00730 rubredoxin Rubredoxin; 24.6 45 0.00098 24.8 1.4 12 96-107 32-43 (50)
156 PF13248 zf-ribbon_3: zinc-rib 24.5 47 0.001 21.1 1.3 8 101-108 19-26 (26)
157 KOG0825 PHD Zn-finger protein 24.1 37 0.00079 38.4 1.1 56 52-110 97-155 (1134)
158 PRK00420 hypothetical protein; 23.9 47 0.001 28.7 1.5 13 51-63 23-35 (112)
159 PF15353 HECA: Headcase protei 23.6 55 0.0012 28.2 1.9 22 68-89 27-55 (107)
160 PF10003 DUF2244: Integral mem 23.2 1.5E+02 0.0032 25.8 4.6 29 294-322 3-31 (140)
161 PF13719 zinc_ribbon_5: zinc-r 22.9 43 0.00094 23.0 0.9 28 52-79 3-36 (37)
162 KOG3842 Adaptor protein Pellin 21.6 1.1E+02 0.0023 31.5 3.8 74 36-111 325-416 (429)
163 PF00301 Rubredoxin: Rubredoxi 21.5 47 0.001 24.4 0.9 12 96-107 32-43 (47)
164 KOG3579 Predicted E3 ubiquitin 21.4 72 0.0016 32.2 2.5 69 51-139 268-341 (352)
No 1
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.3e-64 Score=465.74 Aligned_cols=219 Identities=33% Similarity=0.648 Sum_probs=173.5
Q ss_pred Cccccc--cccccceeeeeecCccCcccccCCCcceeeeecccccccCCCCCCCcccccccccccccCCCeEEecCCCcc
Q 019640 1 MVVCKC--RKATKLYCFVHKVPVCGECICFPEHQICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVI 78 (338)
Q Consensus 1 MglCkC--rk~T~~fCf~HrvnVCe~Civ~~~H~~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvF 78 (338)
|||||| |||||+|||||||||||+||| .||++||||||+|||+|+||+ ++|.+|...|..|| ++||.|+|+|
T Consensus 1 MGLCKCPKRkVTNlFCfEHRVNVCEhClV-~nHpkCiVQSYLqWL~DsDY~--pNC~LC~t~La~gd---t~RLvCyhlf 74 (299)
T KOG3970|consen 1 MGLCKCPKRKVTNLFCFEHRVNVCEHCLV-ANHPKCIVQSYLQWLQDSDYN--PNCRLCNTPLASGD---TTRLVCYHLF 74 (299)
T ss_pred CCcccCchhhhhhhhhhhhhhhHHHHHHh-ccCchhhHHHHHHHHhhcCCC--CCCceeCCccccCc---ceeehhhhhH
Confidence 999999 889999999999999999998 999999999999999999999 99999999999996 9999999999
Q ss_pred CHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhhhhhhhhhcCCCCCchhhhccC-CCCCC
Q 019640 79 HTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLTGLEKNLFGNHPVSLAVAESR-GPPPA 157 (338)
Q Consensus 79 H~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q~~WAr~~lG~~l~~~~~~~~~-~~p~a 157 (338)
||+||++|..++|.||||+||+||.|..+|||+-|.+ |||+++|||+++|+||||++||++||++...... ..||.
T Consensus 75 HW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlv---sPva~aLre~L~qvNWaRagLGLpll~E~~sp~p~p~~p~ 151 (299)
T KOG3970|consen 75 HWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLV---SPVAEALREQLKQVNWARAGLGLPLLPELNSPVPSPAPPQ 151 (299)
T ss_pred HHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcccc---chhHHHHHHHHHhhhHHhhccCCccchhhcCCCCCCCChh
Confidence 9999999999999999999999999999999998875 9999999999999999999999999997433322 46788
Q ss_pred CCCCcceee--ecCCCCCCCCc--ccCCC-ccCCCCCcceeeecCCCCCCcccccCCCC--CCCcccccchhhhhhcccC
Q 019640 158 FASDPIVNV--NASSSPSKDGI--NITEG-YTAPSTVSEIMEIDGPSPAGNFIKSSSPV--PGATTRKSSSQVERQNSEI 230 (338)
Q Consensus 158 fas~pl~~~--~~~~~~~~~~~--n~~~~-~~~~~~~~~i~~~d~p~~~~~f~~s~s~~--~~a~~RK~~~~~er~~~e~ 230 (338)
..|+|...- ..+...++..+ -..++ .+..++-|+|.-|+ .-+|. ..|.||+--. -|
T Consensus 152 ~~s~~~~~n~~~vh~~~S~~~a~~~~~~~~~~~~sp~h~V~~m~----------~~Np~p~s~a~tR~~l~--~R----- 214 (299)
T KOG3970|consen 152 LKSAPVMHNEVPVHNNRSSTPATHLEMEDTASYSSPNHDVTFMR----------KKNPGPESSADTRPLLQ--LR----- 214 (299)
T ss_pred hccchhhhcCCCccccCCCCcccccccCCCCCCCCCCCceEeec----------cCCCCccccCCcCcccc--cc-----
Confidence 888875432 22222222222 11222 22233335655555 33332 5566665322 12
Q ss_pred CCCCCCcccccccccccCch
Q 019640 231 SYFADDEDGNHKKYSRRGPL 250 (338)
Q Consensus 231 ~~~~~d~d~~~kKy~~r~p~ 250 (338)
+-|-|+| ||.||.+.
T Consensus 215 ---~gD~ddn--KY~RRp~~ 229 (299)
T KOG3970|consen 215 ---DGDNDDN--KYKRRPTM 229 (299)
T ss_pred ---CCCcccc--hhhcCChH
Confidence 2345678 99999985
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.26 E-value=1.7e-12 Score=91.16 Aligned_cols=43 Identities=33% Similarity=0.773 Sum_probs=37.5
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
.|+||+++|..++ .++.|+|+|+||.+||.+|++.. .+||+||
T Consensus 2 ~C~IC~~~~~~~~--~~~~l~C~H~fh~~Ci~~~~~~~--------~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGE--KVVKLPCGHVFHRSCIKEWLKRN--------NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTS--CEEEETTSEEEEHHHHHHHHHHS--------SB-TTTH
T ss_pred CCcCCChhhcCCC--eEEEccCCCeeCHHHHHHHHHhC--------CcCCccC
Confidence 6999999998865 79999999999999999999874 2699996
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=2.3e-11 Score=119.94 Aligned_cols=52 Identities=23% Similarity=0.549 Sum_probs=45.2
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
..|+||+|+|..|| .++.|+|.|.||..|+|.||... +..||+|++.+..+.
T Consensus 230 ~~CaIClEdY~~Gd--klRiLPC~H~FH~~CIDpWL~~~-------r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGD--KLRILPCSHKFHVNCIDPWLTQT-------RTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCC--eeeEecCCCchhhccchhhHhhc-------CccCCCCCCcCCCCC
Confidence 48999999999998 66679999999999999999875 235999999988764
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=7.3e-09 Score=103.22 Aligned_cols=50 Identities=24% Similarity=0.640 Sum_probs=41.2
Q ss_pred Cccccccccccccc--------CCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEES--------GSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD--------~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|.||++++...+ ++...||+|||+||.+||..|++++ + +||+||.|+.
T Consensus 288 ~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--Q------TCPICr~p~i 345 (491)
T COG5243 288 RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--Q------TCPICRRPVI 345 (491)
T ss_pred CeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--c------CCCcccCccc
Confidence 67999999965433 1447899999999999999999986 3 4999999943
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.6e-09 Score=105.57 Aligned_cols=51 Identities=27% Similarity=0.665 Sum_probs=44.8
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
-.|+||++.|-.+| ..+.|||.|.||..|+++|+..+. .+||+|+++|-|+
T Consensus 324 veCaICms~fiK~d--~~~vlPC~H~FH~~Cv~kW~~~y~-------~~CPvCrt~iPPp 374 (374)
T COG5540 324 VECAICMSNFIKND--RLRVLPCDHRFHVGCVDKWLLGYS-------NKCPVCRTAIPPP 374 (374)
T ss_pred ceEEEEhhhhcccc--eEEEeccCceechhHHHHHHhhhc-------ccCCccCCCCCCC
Confidence 77999999999887 688899999999999999998653 3599999999764
No 6
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.83 E-value=3.4e-09 Score=82.81 Aligned_cols=56 Identities=27% Similarity=0.599 Sum_probs=38.2
Q ss_pred cccccccCCCCCCCccccccccccc--------ccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 39 YSEWVIDGEYDWPPKCCQCQAVLEE--------ESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 39 YlqWL~Dsdyd~~~~C~ICle~L~~--------gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
+..|-.|..- .+|+||+++|.+ ++.-.+....|+|.||..||.+||+... +||+||
T Consensus 10 v~~~~~~~~~---d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~--------~CP~CR 73 (73)
T PF12678_consen 10 VALWSWDIAD---DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN--------TCPLCR 73 (73)
T ss_dssp EEEEEESSCC---SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS--------B-TTSS
T ss_pred EEEEeecCcC---CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC--------cCCCCC
Confidence 4455444443 469999999942 1112234458999999999999997642 599997
No 7
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.66 E-value=3e-08 Score=66.62 Aligned_cols=45 Identities=38% Similarity=0.680 Sum_probs=34.9
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
.|+||++.+.+ ....++|+|.||..|++.|++.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~~----~~~~~~C~H~~c~~C~~~~~~~~-------~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE----PVVLLPCGHVFCRSCIDKWLKSG-------KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC----ceEecCCCChhcHHHHHHHHHhC-------cCCCCCCCCcC
Confidence 49999999822 24444699999999999999862 34699999764
No 8
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.64 E-value=2.5e-08 Score=94.26 Aligned_cols=50 Identities=22% Similarity=0.426 Sum_probs=38.2
Q ss_pred CcccccccccccccC--CCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESG--SETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~--~evvR-L~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|+||++++.+... ..... .+|+|+||..||..|++..+ +||+||.++.
T Consensus 175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~--------tCPlCR~~~~ 227 (238)
T PHA02929 175 KECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN--------TCPVCRTPFI 227 (238)
T ss_pred CCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC--------CCCCCCCEee
Confidence 689999999875420 01233 47999999999999998642 4999999874
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.52 E-value=8.3e-08 Score=78.17 Aligned_cols=52 Identities=17% Similarity=0.470 Sum_probs=36.6
Q ss_pred Ccccccccccc--------cccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLE--------EESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~--------~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|.||...|+ .||+-.++.-.|+|.||..||.+|+.+... .-.||+||++.
T Consensus 22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~-----~~~CPmCR~~w 81 (85)
T PF12861_consen 22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS-----KGQCPMCRQPW 81 (85)
T ss_pred CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC-----CCCCCCcCCee
Confidence 56777777765 243112344479999999999999987532 23799999864
No 10
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=3.9e-08 Score=101.46 Aligned_cols=54 Identities=30% Similarity=0.582 Sum_probs=46.3
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~ 113 (338)
..|.||.+.|..++...+.||+|+|+||.+||.+|+++. + +||+||..++....
T Consensus 292 ~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~--q------tCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 292 ELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ--Q------TCPTCRTVLYDYVL 345 (543)
T ss_pred CeeeeechhhccccccccceeecccchHHHHHHHHHHHh--C------cCCcchhhhhcccc
Confidence 789999999998764558899999999999999999985 3 49999997776543
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.47 E-value=1.5e-07 Score=86.70 Aligned_cols=55 Identities=15% Similarity=0.318 Sum_probs=40.9
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCC--------CCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPH--------TAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~n--------TaPagy~CP~Cr~~I~P~ 111 (338)
..|+||++.+.+ .+..+|||+|+|.||..|+...... ......+||+|+.+|...
T Consensus 19 ~~CpICld~~~d-----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 19 FDCNICLDQVRD-----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred cCCccCCCcCCC-----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 679999998743 5668999999999999998643110 011245799999999653
No 12
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.37 E-value=2.5e-07 Score=63.51 Aligned_cols=41 Identities=29% Similarity=0.664 Sum_probs=34.4
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|+||++.+.+. .+.++|+|.|+..||.+|++.. ..+.||.|
T Consensus 1 C~iC~~~~~~~----~~~~~C~H~fC~~C~~~~~~~~------~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP----VILLPCGHSFCRDCLRKWLENS------GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE----EEETTTSEEEEHHHHHHHHHHT------SSSBTTTT
T ss_pred CCcCCccccCC----CEEecCCCcchHHHHHHHHHhc------CCccCCcC
Confidence 89999998653 4578999999999999999962 36789998
No 13
>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=98.36 E-value=3.5e-07 Score=59.23 Aligned_cols=39 Identities=33% Similarity=0.715 Sum_probs=31.7
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|+||++.. ...+.++|+|+||..|++.|++.. ..+||.|
T Consensus 1 C~iC~~~~-----~~~~~~~C~H~~c~~C~~~~~~~~-------~~~CP~C 39 (39)
T smart00184 1 CPICLEEL-----KDPVVLPCGHTFCRSCIRKWLKSG-------NNTCPIC 39 (39)
T ss_pred CCcCccCC-----CCcEEecCCChHHHHHHHHHHHhC-------cCCCCCC
Confidence 78998882 258889999999999999999822 3469987
No 14
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.34 E-value=3e-07 Score=63.31 Aligned_cols=39 Identities=23% Similarity=0.572 Sum_probs=31.4
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|+||++.+.+ .++.++|||+|..+|+.+|++.. .+||+|
T Consensus 1 C~iC~~~~~~----~~~~~~CGH~fC~~C~~~~~~~~--------~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD----PVVVTPCGHSFCKECIEKYLEKN--------PKCPVC 39 (39)
T ss_dssp ETTTTSB-SS----EEEECTTSEEEEHHHHHHHHHCT--------SB-TTT
T ss_pred CCCCCCcccC----cCEECCCCCchhHHHHHHHHHCc--------CCCcCC
Confidence 8999998865 25778999999999999999873 369998
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.29 E-value=5.7e-07 Score=63.69 Aligned_cols=42 Identities=31% Similarity=0.695 Sum_probs=31.5
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|+||++.|.+ .+.|.|||+|=.+||.+|.+.... .++.||.|
T Consensus 1 CpiC~~~~~~-----Pv~l~CGH~FC~~Cl~~~~~~~~~----~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD-----PVSLPCGHSFCRSCLERLWKEPSG----SGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS-----EEE-SSSSEEEHHHHHHHHCCSSS----ST---SSS
T ss_pred CCccchhhCC-----ccccCCcCHHHHHHHHHHHHccCC----cCCCCcCC
Confidence 8999999954 899999999999999999987532 24889998
No 16
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=4.1e-07 Score=88.03 Aligned_cols=49 Identities=27% Similarity=0.591 Sum_probs=41.5
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
...|.+|++...+ ....+|||+|-|.||.+|....+. ||+||...-|.+
T Consensus 239 ~~kC~LCLe~~~~-----pSaTpCGHiFCWsCI~~w~~ek~e--------CPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLENRSN-----PSATPCGHIFCWSCILEWCSEKAE--------CPLCREKFQPSK 287 (293)
T ss_pred CCceEEEecCCCC-----CCcCcCcchHHHHHHHHHHccccC--------CCcccccCCCcc
Confidence 3789999999744 667899999999999999987643 999999887753
No 17
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.18 E-value=1.3e-06 Score=62.92 Aligned_cols=45 Identities=24% Similarity=0.502 Sum_probs=36.2
Q ss_pred CcccccccccccccCCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|.||++... .++.++|||+ |...|+.+|++.. .+||+||++|-
T Consensus 3 ~~C~iC~~~~~-----~~~~~pCgH~~~C~~C~~~~~~~~--------~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPR-----DVVLLPCGHLCFCEECAERLLKRK--------KKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBS-----SEEEETTCEEEEEHHHHHHHHHTT--------SBBTTTTBB-S
T ss_pred CCCccCCccCC-----ceEEeCCCChHHHHHHhHHhcccC--------CCCCcCChhhc
Confidence 57999999853 3888899999 9999999999843 46999999873
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.18 E-value=1.3e-06 Score=70.87 Aligned_cols=47 Identities=28% Similarity=0.523 Sum_probs=38.1
Q ss_pred CcccccccccccccCCCeEE-e-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTR-L-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvR-L-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|+-|+.....+| +... - .|.|.||..||.+||..+. .||++++..
T Consensus 32 ~~C~eCq~~~~~~~--eC~v~wG~CnHaFH~HCI~rWL~Tk~--------~CPld~q~w 80 (88)
T COG5194 32 GTCPECQFGMTPGD--ECPVVWGVCNHAFHDHCIYRWLDTKG--------VCPLDRQTW 80 (88)
T ss_pred CcCcccccCCCCCC--cceEEEEecchHHHHHHHHHHHhhCC--------CCCCCCcee
Confidence 67999998887776 4433 3 7999999999999998752 499999864
No 19
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=1.5e-06 Score=81.85 Aligned_cols=53 Identities=23% Similarity=0.528 Sum_probs=43.0
Q ss_pred ccCCCCCCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 44 IDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 44 ~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
+++.|+ |-||++.- ++.|.-.|||+|-|-||-+||+..+ +...||+|+..|--
T Consensus 44 ~~~~Fd----CNICLd~a-----kdPVvTlCGHLFCWpClyqWl~~~~-----~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFD----CNICLDLA-----KDPVVTLCGHLFCWPCLYQWLQTRP-----NSKECPVCKAEVSI 96 (230)
T ss_pred CCCcee----eeeecccc-----CCCEEeecccceehHHHHHHHhhcC-----CCeeCCcccccccc
Confidence 345566 99999874 3488889999999999999998765 45579999998864
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.11 E-value=5.3e-06 Score=61.12 Aligned_cols=45 Identities=11% Similarity=0.100 Sum_probs=38.2
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
.|+||++.+.+ .+.++|||+|-.+||.+|++.. .+||.|++++-.
T Consensus 3 ~Cpi~~~~~~~-----Pv~~~~G~v~~~~~i~~~~~~~--------~~cP~~~~~~~~ 47 (63)
T smart00504 3 LCPISLEVMKD-----PVILPSGQTYERRAIEKWLLSH--------GTDPVTGQPLTH 47 (63)
T ss_pred CCcCCCCcCCC-----CEECCCCCEEeHHHHHHHHHHC--------CCCCCCcCCCCh
Confidence 59999999854 6778999999999999999862 359999998843
No 21
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.02 E-value=3.9e-06 Score=60.20 Aligned_cols=43 Identities=28% Similarity=0.566 Sum_probs=25.1
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCP 102 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP 102 (338)
|+||.+ +.+.+ ...+.|+|||+|=.+||++++..... ..++||
T Consensus 1 CpIc~e-~~~~~-n~P~~L~CGH~~c~~cl~~l~~~~~~----~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEE-NPPMVLPCGHVFCKDCLQKLSKKSDR----NRFKCP 43 (43)
T ss_dssp -TTT-----TTS-S-EEE-SSS-EEEHHHHHHHHHH-S-----S-B--T
T ss_pred CCcccc-ccCCC-CCCEEEeCccHHHHHHHHHHHhcCCC----CeeeCc
Confidence 899999 75544 46788999999999999999986431 367888
No 22
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.01 E-value=5.3e-06 Score=58.64 Aligned_cols=44 Identities=25% Similarity=0.582 Sum_probs=34.7
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
.|.+|.+.+.+. .....+.|||+|..+|+..+. . ....||+|++
T Consensus 1 ~C~~C~~~~~~~--~~~~l~~CgH~~C~~C~~~~~-~-------~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEE--RRPRLTSCGHIFCEKCLKKLK-G-------KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCC--CCeEEcccCCHHHHHHHHhhc-C-------CCCCCcCCCC
Confidence 489999999433 245667999999999999999 1 2457999985
No 23
>PHA02926 zinc finger-like protein; Provisional
Probab=97.92 E-value=6.1e-06 Score=77.92 Aligned_cols=55 Identities=22% Similarity=0.451 Sum_probs=39.1
Q ss_pred Ccccccccccccc----cCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEE----SGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~g----D~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|+||++...+. + ..-..| +|+|+|+..||..|.+....+ .....||+||..+.
T Consensus 171 ~eCgICmE~I~eK~~~~e-RrFGIL~~CnHsFCl~CIr~Wr~~r~~~--~~~rsCPiCR~~f~ 230 (242)
T PHA02926 171 KECGICYEVVYSKRLEND-RYFGLLDSCNHIFCITCINIWHRTRRET--GASDNCPICRTRFR 230 (242)
T ss_pred CCCccCcccccccccccc-ccccccCCCCchHHHHHHHHHHHhcccc--CcCCcCCCCcceee
Confidence 6799999987432 1 112234 799999999999999864321 13456999999764
No 24
>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=97.87 E-value=1.2e-05 Score=58.87 Aligned_cols=44 Identities=23% Similarity=0.533 Sum_probs=33.6
Q ss_pred cccccccccccccCCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
.|.||++...+ ++...+||. |.||..||.+|+...... +||+|+
T Consensus 1 ~CrIC~~~~~~---~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~------~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDE---GDPLVSPCRCKGSLKYVHQECLERWINESGNK------TCEICK 49 (49)
T ss_pred CccCCCCCCCC---CCeeEeccccCCchhHHHHHHHHHHHHHcCCC------cCCCCC
Confidence 48999983322 357778884 999999999999876433 599995
No 25
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=7.5e-06 Score=82.38 Aligned_cols=47 Identities=28% Similarity=0.668 Sum_probs=37.4
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
..|.|| .++...+ .++--. .|||+||..||..|++..|.| -.||+|+
T Consensus 5 A~C~Ic-~d~~p~~-~~l~~i~~cGhifh~~cl~qwfe~~Ps~-----R~cpic~ 52 (465)
T KOG0827|consen 5 AECHIC-IDGRPND-HELGPIGTCGHIFHTTCLTQWFEGDPSN-----RGCPICQ 52 (465)
T ss_pred ceeeEe-ccCCccc-cccccccchhhHHHHHHHHHHHccCCcc-----CCCCcee
Confidence 579999 7776655 345555 499999999999999987764 3599999
No 26
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.81 E-value=3.1e-06 Score=65.94 Aligned_cols=56 Identities=23% Similarity=0.437 Sum_probs=26.2
Q ss_pred CcccccccccccccCCCeEEe----cCCCccCHHHHHHHHhcCCCCC---CCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTRL----GCLHVIHTSCLVSHIKSFPPHT---APAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL----~C~HvFH~~CLd~WL~~~p~nT---aPagy~CP~Cr~~I 108 (338)
..|.||.+.+.+++ +..+.. .|++.||..||.+||+..+... .|-.-+||.|+++|
T Consensus 3 ~~C~IC~~~~~~~~-~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 3 LECGICYSYRLDDG-EIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp -S-SSS--SS-TT------B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCcCCcEecCCC-CcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 46999999876332 122221 5999999999999998754321 12333699999987
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=4.9e-06 Score=67.09 Aligned_cols=51 Identities=22% Similarity=0.559 Sum_probs=36.7
Q ss_pred Ccccccccccc--------cccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLE--------EESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~--------~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
.+|.||..+|+ .|| +-...+ .|.|.||..||.+|+.... +.-.||+||+..
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgD-dCPLv~G~C~h~fh~hCI~~wl~~~t-----sq~~CPmcRq~~ 80 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGD-DCPLVWGYCLHAFHAHCILKWLNTPT-----SQGQCPMCRQTW 80 (84)
T ss_pred CccceEecccCCcCCCCcCCCC-CCccHHHHHHHHHHHHHHHHHhcCcc-----ccccCCcchhee
Confidence 46777777776 244 123334 6999999999999997653 245799999853
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=9.9e-06 Score=83.54 Aligned_cols=53 Identities=26% Similarity=0.751 Sum_probs=38.0
Q ss_pred CCccccccccccc---ccCCC-----eEE---e-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 51 PPKCCQCQAVLEE---ESGSE-----TTR---L-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 51 ~~~C~ICle~L~~---gD~~e-----vvR---L-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
...|+||+.+.+- +.+.. +.| + ||.|+||..||..|+...+ ..||+||.++-|
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk-------l~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK-------LICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc-------ccCCccCCCCCC
Confidence 4789999998862 11001 111 2 8999999999999998543 249999998754
No 29
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.73 E-value=4.6e-05 Score=76.99 Aligned_cols=48 Identities=19% Similarity=0.499 Sum_probs=40.1
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
...|+||++.|.+ .+.++|+|.|...||..|+... ..||+|+.++...
T Consensus 26 ~l~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l~~~--------~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 26 SLRCHICKDFFDV-----PVLTSCSHTFCSLCIRRCLSNQ--------PKCPLCRAEDQES 73 (397)
T ss_pred ccCCCcCchhhhC-----ccCCCCCCchhHHHHHHHHhCC--------CCCCCCCCccccc
Confidence 3789999998854 5668999999999999999763 2599999998753
No 30
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=1.3e-05 Score=77.70 Aligned_cols=55 Identities=24% Similarity=0.496 Sum_probs=42.0
Q ss_pred CCcccccccccccccC-----CCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 51 PPKCCQCQAVLEEESG-----SETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~-----~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
+..|+||.+.+..+.+ +.+-+|.|+|+||.-||.-|.--.+.+| ||-|++.|.-.
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqt------CPYCKekVdl~ 283 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQT------CPYCKEKVDLK 283 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCC------CchHHHHhhHh
Confidence 3789999999975421 1366799999999999999954444444 99999887543
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=2.6e-05 Score=75.05 Aligned_cols=48 Identities=33% Similarity=0.659 Sum_probs=40.5
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHH-HHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVS-HIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~-WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
.|+||++.... ..+.+|||+|-|.||.. |-.+... .||+||+-+.|..
T Consensus 217 kC~lC~e~~~~-----ps~t~CgHlFC~~Cl~~~~t~~k~~-------~CplCRak~~pk~ 265 (271)
T COG5574 217 KCFLCLEEPEV-----PSCTPCGHLFCLSCLLISWTKKKYE-------FCPLCRAKVYPKK 265 (271)
T ss_pred ceeeeecccCC-----cccccccchhhHHHHHHHHHhhccc-------cCchhhhhccchh
Confidence 49999998643 78899999999999999 9877643 3999999998854
No 32
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.8e-05 Score=71.26 Aligned_cols=47 Identities=28% Similarity=0.562 Sum_probs=39.3
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
-.|+||++.+.+. ..+--.|||||-.+||..-++.. .+||+|++-|-
T Consensus 132 ~~CPiCl~~~sek---~~vsTkCGHvFC~~Cik~alk~~--------~~CP~C~kkIt 178 (187)
T KOG0320|consen 132 YKCPICLDSVSEK---VPVSTKCGHVFCSQCIKDALKNT--------NKCPTCRKKIT 178 (187)
T ss_pred cCCCceecchhhc---cccccccchhHHHHHHHHHHHhC--------CCCCCcccccc
Confidence 5699999998774 45667999999999999999853 46999998664
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.53 E-value=3.4e-05 Score=78.81 Aligned_cols=49 Identities=29% Similarity=0.649 Sum_probs=40.7
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
.|+|+||++.++.+. ..++-..|.|.||-.|+..|-.. +||+||...-|
T Consensus 175 LPTCpVCLERMD~s~-~gi~t~~c~Hsfh~~cl~~w~~~----------scpvcR~~q~p 223 (493)
T KOG0804|consen 175 LPTCPVCLERMDSST-TGILTILCNHSFHCSCLMKWWDS----------SCPVCRYCQSP 223 (493)
T ss_pred CCCcchhHhhcCccc-cceeeeecccccchHHHhhcccC----------cChhhhhhcCc
Confidence 389999999998764 34566689999999999999754 39999988774
No 34
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=97.45 E-value=0.00012 Score=56.85 Aligned_cols=48 Identities=13% Similarity=0.138 Sum_probs=36.3
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
-.|+|+.+-|.+ .|++++||+|-..||..|++.. +.+||.|+.++-..
T Consensus 5 f~CpIt~~lM~d-----PVi~~~G~tyer~~I~~~l~~~-------~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 5 FLCPITGELMRD-----PVILPSGHTYERSAIERWLEQN-------GGTDPFTRQPLSES 52 (73)
T ss_dssp GB-TTTSSB-SS-----EEEETTSEEEEHHHHHHHHCTT-------SSB-TTT-SB-SGG
T ss_pred cCCcCcCcHhhC-----ceeCCcCCEEcHHHHHHHHHcC-------CCCCCCCCCcCCcc
Confidence 359999999854 8999999999999999999873 45699999988753
No 35
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.00011 Score=76.00 Aligned_cols=52 Identities=21% Similarity=0.427 Sum_probs=40.6
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
+..|+||+++... .++..|||+|-+.||-.++....- -....||+|+..|.+
T Consensus 186 ~~~CPICL~~~~~-----p~~t~CGHiFC~~CiLqy~~~s~~---~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV-----PVRTNCGHIFCGPCILQYWNYSAI---KGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc-----ccccccCceeeHHHHHHHHhhhcc---cCCccCCchhhhccc
Confidence 3679999999643 667779999999999999876411 123469999999887
No 36
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.32 E-value=4.7e-05 Score=82.06 Aligned_cols=86 Identities=21% Similarity=0.305 Sum_probs=58.9
Q ss_pred CcceeeeecccccccCCCCCCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 31 HQICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 31 H~~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
-.+|+++ +|+ . ..|++|+..+.++. ...+-.|.|.||.+||+.|-+.- + +||+|+..+.-
T Consensus 113 ~~i~P~~---~~~-----~--~~CP~Ci~s~~DqL--~~~~k~c~H~FC~~Ci~sWsR~a--q------TCPiDR~EF~~ 172 (1134)
T KOG0825|consen 113 SNICPVQ---THV-----E--NQCPNCLKSCNDQL--EESEKHTAHYFCEECVGSWSRCA--Q------TCPVDRGEFGE 172 (1134)
T ss_pred cCcCchh---hhh-----h--hhhhHHHHHHHHHh--hccccccccccHHHHhhhhhhhc--c------cCchhhhhhhe
Confidence 6678866 232 2 57999999998875 67778999999999999998764 3 49999987543
Q ss_pred CCCCCCCcc-hhHHHHHHHhhhhhhhh
Q 019640 111 PKNVKDSGS-RLHSLLKEAIMLTGLEK 136 (338)
Q Consensus 111 ~~~i~d~~S-pl~~~Lre~l~q~~WAr 136 (338)
-.-..-.++ ++...|.....+.+.|.
T Consensus 173 v~V~eS~~~~~~vR~lP~EEs~~~~e~ 199 (1134)
T KOG0825|consen 173 VKVLESTGIEANVRCLPSEESENILEK 199 (1134)
T ss_pred eeeeccccccceeEecchhhhhhhhhh
Confidence 110111223 55555666666665554
No 37
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.24 E-value=0.00014 Score=70.55 Aligned_cols=46 Identities=33% Similarity=0.704 Sum_probs=40.7
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
.+|+||.+.+..+. ..+..|+|+|..|..|+...... +|+||+|.+
T Consensus 159 ~ncPic~e~l~~s~-~~~~~~~CgH~~h~~cf~e~~~~--------~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSF-EDAGVLKCGHYMHSRCFEEMICE--------GYTCPICSK 204 (276)
T ss_pred CCCchhHHHhcccc-ccCCccCcccchHHHHHHHHhcc--------CCCCCcccc
Confidence 77999999999876 56777899999999999999875 489999988
No 38
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.16 E-value=0.00013 Score=79.11 Aligned_cols=57 Identities=25% Similarity=0.684 Sum_probs=44.8
Q ss_pred ccccCCCCCCCcccccccccccccCCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 42 WVIDGEYDWPPKCCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 42 WL~Dsdyd~~~~C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
-|....|+ |.||.+.+...+ .+.- .||||||..||.+|.++ ...|.+.+.+||.|..
T Consensus 186 ~l~~~~ye----CmIC~e~I~~t~---~~WSC~sCYhVFHl~CI~~WArs-~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 186 QLSNRKYE----CMICTERIKRTA---PVWSCKSCYHVFHLNCIKKWARS-SEKTGQDGWRCPACQS 244 (950)
T ss_pred HHhcCceE----EEEeeeeccccC---CceecchhhhhhhHHHHHHHHHH-hhhccCccccCCcccc
Confidence 33444456 999999998765 4443 69999999999999988 4556678999999974
No 39
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.10 E-value=0.00015 Score=73.46 Aligned_cols=48 Identities=23% Similarity=0.531 Sum_probs=39.8
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
-.|..|.+.+-..+ +....|+|.|+||..|+.++|.+... -+||.|++
T Consensus 366 L~Cg~CGe~~Glk~-e~LqALpCsHIfH~rCl~e~L~~n~~------rsCP~Crk 413 (518)
T KOG1941|consen 366 LYCGLCGESIGLKN-ERLQALPCSHIFHLRCLQEILENNGT------RSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhcCCc-ccccccchhHHHHHHHHHHHHHhCCC------CCCccHHH
Confidence 78999999987655 45777999999999999999987543 45999983
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.00036 Score=61.09 Aligned_cols=42 Identities=26% Similarity=0.600 Sum_probs=36.4
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
..|+||++.|.. .+.|+|+|.|=..||..+.. ..+.||.|+.
T Consensus 14 ~~C~iC~~~~~~-----p~~l~C~H~~c~~C~~~~~~--------~~~~Cp~cr~ 55 (386)
T KOG2177|consen 14 LTCPICLEYFRE-----PVLLPCGHNFCRACLTRSWE--------GPLSCPVCRP 55 (386)
T ss_pred ccChhhHHHhhc-----CccccccchHhHHHHHHhcC--------CCcCCcccCC
Confidence 679999999965 47789999999999999997 2368999994
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.93 E-value=0.00017 Score=70.97 Aligned_cols=67 Identities=24% Similarity=0.481 Sum_probs=50.2
Q ss_pred ccccccCCCCCCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCC--------------CC-CCCCCCCCCCC
Q 019640 40 SEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFP--------------PH-TAPAGYVCPLC 104 (338)
Q Consensus 40 lqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p--------------~n-TaPagy~CP~C 104 (338)
.++|.++... -..|.|||--|.+++ +.++-.|.|.||..||..||...- .| +.+..-.||+|
T Consensus 105 ~e~LT~nn~p-~gqCvICLygfa~~~--~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVc 181 (368)
T KOG4445|consen 105 SEFLTENNHP-NGQCVICLYGFASSP--AFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVC 181 (368)
T ss_pred HHHcccCCCC-CCceEEEEEeecCCC--ceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHh
Confidence 3567776642 267999999999987 899999999999999999875431 01 12334469999
Q ss_pred CCCcc
Q 019640 105 STTIW 109 (338)
Q Consensus 105 r~~I~ 109 (338)
+..|-
T Consensus 182 re~i~ 186 (368)
T KOG4445|consen 182 RERIK 186 (368)
T ss_pred hhhcc
Confidence 99874
No 42
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.78 E-value=0.00047 Score=75.92 Aligned_cols=51 Identities=33% Similarity=0.649 Sum_probs=38.3
Q ss_pred CcccccccccccccCCC-eEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSE-TTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~e-vvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|+||-.-|..-|... -.|- .|.|-||.+||-+|+++...+ +||+||..|
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s------~CPlCRsei 1522 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARS------NCPLCRSEI 1522 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCC------CCCcccccc
Confidence 68999999887432111 2222 599999999999999987554 499999765
No 43
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0011 Score=56.29 Aligned_cols=27 Identities=33% Similarity=0.683 Sum_probs=23.7
Q ss_pred cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 019640 73 GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (338)
Q Consensus 73 ~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~ 107 (338)
.|.|.||..||.+||+.. -.||+|.++
T Consensus 80 ~CNHaFH~hCisrWlktr--------~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTR--------NVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhc--------CcCCCcCcc
Confidence 799999999999999875 359999775
No 44
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.69 E-value=0.0012 Score=66.12 Aligned_cols=87 Identities=23% Similarity=0.491 Sum_probs=60.0
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhh
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q 131 (338)
-.|.||.+.|.. .+..+|+|.|-.-||..+|..+|. ||.|..++--+ .+. +-.+ |.|.+..
T Consensus 24 LRC~IC~eyf~i-----p~itpCsHtfCSlCIR~~L~~~p~--------CP~C~~~~~Es-~Lr--~n~i---l~Eiv~S 84 (442)
T KOG0287|consen 24 LRCGICFEYFNI-----PMITPCSHTFCSLCIRKFLSYKPQ--------CPTCCVTVTES-DLR--NNRI---LDEIVKS 84 (442)
T ss_pred HHHhHHHHHhcC-----ceeccccchHHHHHHHHHhccCCC--------CCceecccchh-hhh--hhhH---HHHHHHH
Confidence 469999999954 666789999999999999998764 99997766432 121 1222 5566677
Q ss_pred hhhhhhhcCCCCCchhhhccCCCCCCCCCCc
Q 019640 132 TGLEKNLFGNHPVSLAVAESRGPPPAFASDP 162 (338)
Q Consensus 132 ~~WAr~~lG~~l~~~~~~~~~~~p~afas~p 162 (338)
.+.+|+-|-.-|.. +..+-||-.+.|
T Consensus 85 ~~~~R~~Ll~fl~~-----~~~p~P~~~~~p 110 (442)
T KOG0287|consen 85 LNFARNHLLQFLLE-----SPAPSPASSSSP 110 (442)
T ss_pred HHHHHHHHHHHHhc-----CCCCCcccccCC
Confidence 77777654333332 235667777777
No 45
>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=96.61 E-value=0.002 Score=63.56 Aligned_cols=51 Identities=20% Similarity=0.383 Sum_probs=36.3
Q ss_pred CcccccccccccccCCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
..|++|+..---+. ...-| .|||.|-.+|++..+...+ ..||.|+.++...
T Consensus 4 ~~CP~Ck~~~y~np--~~kl~i~~CGH~~C~sCv~~l~~~~~-------~~CP~C~~~lrk~ 56 (309)
T TIGR00570 4 QGCPRCKTTKYRNP--SLKLMVNVCGHTLCESCVDLLFVRGS-------GSCPECDTPLRKN 56 (309)
T ss_pred CCCCcCCCCCccCc--ccccccCCCCCcccHHHHHHHhcCCC-------CCCCCCCCccchh
Confidence 56999999532221 12222 6999999999999875532 3699999988764
No 46
>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=96.45 E-value=0.001 Score=53.24 Aligned_cols=30 Identities=33% Similarity=0.654 Sum_probs=27.0
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHH
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLV 84 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd 84 (338)
..|++|...|.++ ..++.||||+||..|++
T Consensus 79 ~~C~vC~k~l~~~---~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 79 TKCSVCGKPLGNS---VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCccCcCCcCCCc---eEEEeCCCeEEeccccc
Confidence 7899999999885 58889999999999975
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0021 Score=69.18 Aligned_cols=49 Identities=20% Similarity=0.477 Sum_probs=41.0
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
.-.|++|..... +++...|||+|-..|+...+... .-+||.|.+++-|.
T Consensus 643 ~LkCs~Cn~R~K-----d~vI~kC~H~FC~~Cvq~r~etR-------qRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 643 LLKCSVCNTRWK-----DAVITKCGHVFCEECVQTRYETR-------QRKCPKCNAAFGAN 691 (698)
T ss_pred ceeCCCccCchh-----hHHHHhcchHHHHHHHHHHHHHh-------cCCCCCCCCCCCcc
Confidence 368999997763 48889999999999999999875 34699999988764
No 48
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.02 E-value=0.0045 Score=63.17 Aligned_cols=49 Identities=24% Similarity=0.541 Sum_probs=38.9
Q ss_pred Cccccccccccc-ccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEE-ESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (338)
Q Consensus 52 ~~C~ICle~L~~-gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~ 107 (338)
.+|+||+..+.. |+ ..++.|.|+|.|-..|+..||-+. + -..||.|...
T Consensus 5 ~tcpiclds~~~~g~-hr~vsl~cghlFgs~cie~wl~k~---~---~~~cp~c~~k 54 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGN-HRIVSLQCGHLFGSQCIEKWLGKK---T---KMQCPLCSGK 54 (463)
T ss_pred ccCceeeeeeeecCc-eEEeeecccccccHHHHHHHHhhh---h---hhhCcccCCh
Confidence 689999999874 43 456778999999999999999532 1 3579999764
No 49
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.74 E-value=0.0077 Score=69.11 Aligned_cols=56 Identities=21% Similarity=0.395 Sum_probs=40.5
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCC---CCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFP---PHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p---~nTaPagy~CP~Cr~~I~P 110 (338)
..|.||..+--... ..++|.|+|+||..|...-|++.= .-| -.-..||+|..+|-.
T Consensus 3487 DmCmICFTE~L~AA--P~IqL~C~HiFHlqC~R~vLE~RW~GPRIt-F~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3487 DMCMICFTEALSAA--PAIQLDCSHIFHLQCCRRVLENRWLGPRIT-FGFISCPICKNKINH 3545 (3738)
T ss_pred ceEEEEehhhhCCC--cceecCCccchhHHHHHHHHHhcccCCeeE-Eeeeecccccchhhh
Confidence 78999987755443 689999999999999987776531 111 012359999988854
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.61 E-value=0.0079 Score=45.47 Aligned_cols=42 Identities=19% Similarity=0.363 Sum_probs=28.6
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPL 103 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~ 103 (338)
..|+|.+.+|.+- ++-..|+|+|-.+.|.+||+.. ....||+
T Consensus 12 ~~CPiT~~~~~~P----V~s~~C~H~fek~aI~~~i~~~------~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFEDP----VKSKKCGHTFEKEAILQYIQRN------GSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SSE----EEESSS--EEEHHHHHHHCTTT------S-EE-SC
T ss_pred cCCCCcCChhhCC----cCcCCCCCeecHHHHHHHHHhc------CCCCCCC
Confidence 7899999999652 4446999999999999999443 3567998
No 51
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=95.59 E-value=0.0025 Score=49.91 Aligned_cols=46 Identities=35% Similarity=0.846 Sum_probs=23.8
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
-.|++|.+-|.+ .+-| .|.|+|-+.|+..-+. ..||+|.+|.|-.+
T Consensus 8 LrCs~C~~~l~~-----pv~l~~CeH~fCs~Ci~~~~~----------~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKE-----PVCLGGCEHIFCSSCIRDCIG----------SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS------B---SSS--B-TTTGGGGTT----------TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcC-----CceeccCccHHHHHHhHHhcC----------CCCCCcCChHHHHH
Confidence 569999999854 6666 7999999999977543 35999999998653
No 52
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.55 E-value=0.0078 Score=59.43 Aligned_cols=44 Identities=23% Similarity=0.613 Sum_probs=37.0
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|-||.+.|.. .+.-+|||.|-.-||..+|..+|. ||+|+.+.
T Consensus 26 lrC~IC~~~i~i-----p~~TtCgHtFCslCIR~hL~~qp~--------CP~Cr~~~ 69 (391)
T COG5432 26 LRCRICDCRISI-----PCETTCGHTFCSLCIRRHLGTQPF--------CPVCREDP 69 (391)
T ss_pred HHhhhhhheeec-----ceecccccchhHHHHHHHhcCCCC--------CccccccH
Confidence 579999999843 455589999999999999998875 99997654
No 53
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.49 E-value=0.0098 Score=59.53 Aligned_cols=49 Identities=24% Similarity=0.499 Sum_probs=37.8
Q ss_pred CCcccccccccccccCCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
...|.||+.+- ++++.|||-|+ +-..|.+...-+ .| .||+||++|-..-
T Consensus 290 gkeCVIClse~-----rdt~vLPCRHLCLCs~Ca~~Lr~q--~n------~CPICRqpi~~ll 339 (349)
T KOG4265|consen 290 GKECVICLSES-----RDTVVLPCRHLCLCSGCAKSLRYQ--TN------NCPICRQPIEELL 339 (349)
T ss_pred CCeeEEEecCC-----cceEEecchhhehhHhHHHHHHHh--hc------CCCccccchHhhh
Confidence 36799999985 34999999998 678888887522 12 3999999997643
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.0078 Score=55.17 Aligned_cols=64 Identities=23% Similarity=0.396 Sum_probs=42.9
Q ss_pred eeeecCccCccc--ccCCCc-----ceeeeecccccccCCCCCCCcccccccccccccCCCeEEecCCCccCH
Q 019640 15 FVHKVPVCGECI--CFPEHQ-----ICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHT 80 (338)
Q Consensus 15 f~HrvnVCe~Ci--v~~~H~-----~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~ 80 (338)
..|.-..|-.|- |.++.- .|..+--+.|=.|---+..-.|.||+|+|+.|| .+.||+|.-+||+
T Consensus 134 ~~~~g~KCPvC~K~V~sDd~e~HlvMCLtkPrlsYNdDVL~ddkGECvICLEdL~~Gd--tIARLPCLCIYHK 204 (205)
T KOG0801|consen 134 MDHSGMKCPVCHKVVPSDDAEIHLVMCLTKPRLSYNDDVLKDDKGECVICLEDLEAGD--TIARLPCLCIYHK 204 (205)
T ss_pred eccCCccCCccccccCCCcceEEEEEEecccccccccchhcccCCcEEEEhhhccCCC--ceeccceEEEeec
Confidence 345556677774 323322 466665555544432232356999999999998 8999999999996
No 55
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.016 Score=53.82 Aligned_cols=67 Identities=19% Similarity=0.406 Sum_probs=46.7
Q ss_pred cccccccCCCCCCCcccccccccccccC--CCeEEecCCCccCHHHHHHHHhcCCCCCCCCCC-----CCCCCCCCcc
Q 019640 39 YSEWVIDGEYDWPPKCCQCQAVLEEESG--SETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGY-----VCPLCSTTIW 109 (338)
Q Consensus 39 YlqWL~Dsdyd~~~~C~ICle~L~~gD~--~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy-----~CP~Cr~~I~ 109 (338)
|.++|..+|+- ..|.||-..--+|.- ....-..|+.-||.-||-.||+..- |....| .||.|..||-
T Consensus 155 a~a~Lekdd~~--~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgil--TsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 155 AAAFLEKDDEL--GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGIL--TSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred HHHhcCcchhh--hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHh--hccceeeeeeccCCCCCCcce
Confidence 45667666666 779999766555431 1233357999999999999998763 332333 4999999885
No 56
>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=94.60 E-value=0.016 Score=51.16 Aligned_cols=39 Identities=10% Similarity=0.146 Sum_probs=32.3
Q ss_pred CcccccccccccccCCCeEEecCC------CccCHHHHHHH---HhcCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCL------HVIHTSCLVSH---IKSFPP 92 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~------HvFH~~CLd~W---L~~~p~ 92 (338)
..|.||++.+.+++ .+|.++|| |+||.+|+.+| ..+-|-
T Consensus 27 ~EC~IC~~~I~~~~--GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPf 74 (134)
T PF05883_consen 27 VECQICFDRIDNND--GVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPF 74 (134)
T ss_pred eeehhhhhhhhcCC--CEEEEecCCeehHHHHHHHHHHHHHHhhccCCCc
Confidence 67999999998843 69999988 99999999999 444443
No 57
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.53 E-value=0.013 Score=42.52 Aligned_cols=42 Identities=31% Similarity=0.593 Sum_probs=27.3
Q ss_pred ccccccccccccCCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|-||++.-.++ .....+|. -..|.+||..|+.... ..+|++|
T Consensus 1 CrIC~~~~~~~---~~li~pC~C~Gs~~~vH~~CL~~W~~~~~------~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEED---EPLISPCRCKGSMKYVHRSCLERWIRESG------NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSS---S-EE-SSS-SSCCGSEECCHHHHHHHHHT-------SB-TTT
T ss_pred CeEeCCcCCCC---CceecccccCCCcchhHHHHHHHHHHhcC------CCcCCCC
Confidence 67888886554 24555653 3889999999998743 3459988
No 58
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.47 E-value=0.021 Score=57.11 Aligned_cols=56 Identities=20% Similarity=0.514 Sum_probs=38.0
Q ss_pred CCcccccccccccccCCCeEE---e-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 51 PPKCCQCQAVLEEESGSETTR---L-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvR---L-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
+..|.||++...+-- ....| | +|.|.|-..|++.|-.....++ .-...||.||.+.
T Consensus 161 ~k~CGICme~i~ek~-~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~-~~sksCP~CRv~s 220 (344)
T KOG1039|consen 161 EKECGICMETINEKA-ASERRFGILPNCNHSFCLNCIRKWRQATQFES-KTSKSCPFCRVPS 220 (344)
T ss_pred cccceehhhhccccc-hhhhhcccCCCcchhhhhcHhHhhhhhhcccc-ccccCCCcccCcc
Confidence 378999999886531 11222 3 6999999999999974332111 1246799998765
No 59
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.27 E-value=0.024 Score=59.88 Aligned_cols=72 Identities=19% Similarity=0.397 Sum_probs=53.1
Q ss_pred CCCcceeeeecccccccCC-CCCCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 019640 29 PEHQICVVRTYSEWVIDGE-YDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (338)
Q Consensus 29 ~~H~~CvVqsYlqWL~Dsd-yd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~ 107 (338)
.+|+-=|+.|-..-|.|.+ -+ ..|.+|.++-+ +.+.-.|+|+|-+.|+.+|+.++..+ .+.+||+|..+
T Consensus 515 aDHP~LVl~S~~~n~~~enk~~--~~C~lc~d~ae-----d~i~s~ChH~FCrlCi~eyv~~f~~~---~nvtCP~C~i~ 584 (791)
T KOG1002|consen 515 ADHPDLVLYSANANLPDENKGE--VECGLCHDPAE-----DYIESSCHHKFCRLCIKEYVESFMEN---NNVTCPVCHIG 584 (791)
T ss_pred ccCcceeeehhhcCCCccccCc--eeecccCChhh-----hhHhhhhhHHHHHHHHHHHHHhhhcc---cCCCCcccccc
Confidence 4677777665443343333 34 78999998853 36667899999999999999988654 46899999877
Q ss_pred ccC
Q 019640 108 IWP 110 (338)
Q Consensus 108 I~P 110 (338)
+--
T Consensus 585 Lsi 587 (791)
T KOG1002|consen 585 LSI 587 (791)
T ss_pred ccc
Confidence 643
No 60
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.76 E-value=0.03 Score=55.38 Aligned_cols=46 Identities=22% Similarity=0.410 Sum_probs=37.1
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|+||+.... ..++|.|+|.|--.||.--..... ..|++||.+|-
T Consensus 8 ~eC~IC~nt~n-----~Pv~l~C~HkFCyiCiKGsy~ndk-------~~CavCR~pid 53 (324)
T KOG0824|consen 8 KECLICYNTGN-----CPVNLYCFHKFCYICIKGSYKNDK-------KTCAVCRFPID 53 (324)
T ss_pred CcceeeeccCC-----cCccccccchhhhhhhcchhhcCC-------CCCceecCCCC
Confidence 67999998753 479999999999999987665432 24999999985
No 61
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.62 E-value=0.021 Score=57.49 Aligned_cols=48 Identities=25% Similarity=0.546 Sum_probs=39.9
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
-.|+|||+-|... ....-|+|-|-.+||..-++.. +..||.||+.+.-
T Consensus 44 v~c~icl~llk~t----mttkeClhrfc~~ci~~a~r~g-------n~ecptcRk~l~S 91 (381)
T KOG0311|consen 44 VICPICLSLLKKT----MTTKECLHRFCFDCIWKALRSG-------NNECPTCRKKLVS 91 (381)
T ss_pred hccHHHHHHHHhh----cccHHHHHHHHHHHHHHHHHhc-------CCCCchHHhhccc
Confidence 6799999999663 5556899999999999999864 4569999998764
No 62
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=93.35 E-value=0.032 Score=57.19 Aligned_cols=49 Identities=29% Similarity=0.534 Sum_probs=38.6
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
+.|-||-+. | +++..=+|||++-..||-.|-.+.. |..||-||..|--.
T Consensus 370 eLCKICaen----d-KdvkIEPCGHLlCt~CLa~WQ~sd~------gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAEN----D-KDVKIEPCGHLLCTSCLAAWQDSDE------GQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhcc----C-CCcccccccchHHHHHHHhhcccCC------CCCCCceeeEeccc
Confidence 378888765 2 4577789999999999999987643 55699999988543
No 63
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.80 E-value=0.093 Score=53.84 Aligned_cols=72 Identities=21% Similarity=0.264 Sum_probs=48.0
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhhh
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLT 132 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q~ 132 (338)
.|.||.++....+ ..+-|+|.|||-..|+..|+...-.-.--...+||-|.-.=.-+. ..|++.+...
T Consensus 186 ~C~ICf~e~~G~~--c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~----------g~vKelvg~E 253 (445)
T KOG1814|consen 186 DCCICFEEQMGQH--CFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPP----------GQVKELVGDE 253 (445)
T ss_pred cceeeehhhcCcc--eeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCc----------hHHHHHHHHH
Confidence 4999999976644 577789999999999999987654322233455666644322221 2577777666
Q ss_pred hhhh
Q 019640 133 GLEK 136 (338)
Q Consensus 133 ~WAr 136 (338)
-.||
T Consensus 254 L~ar 257 (445)
T KOG1814|consen 254 LFAR 257 (445)
T ss_pred HHHH
Confidence 5555
No 64
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.67 E-value=0.053 Score=59.81 Aligned_cols=36 Identities=28% Similarity=0.561 Sum_probs=31.0
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (338)
..|.+|..+|... .-...+|||.||+.||.+.....
T Consensus 818 d~C~~C~~~ll~~---pF~vf~CgH~FH~~Cl~~~v~~~ 853 (911)
T KOG2034|consen 818 DSCDHCGRPLLIK---PFYVFPCGHCFHRDCLIRHVLSL 853 (911)
T ss_pred cchHHhcchhhcC---cceeeeccchHHHHHHHHHHHcc
Confidence 7899999999874 36667999999999999997765
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=92.43 E-value=0.033 Score=55.41 Aligned_cols=47 Identities=32% Similarity=0.649 Sum_probs=39.9
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
-.|.+|.+.|-+. +..--|.|.|-..||-++|... + .||.|...|--
T Consensus 16 itC~LC~GYliDA----TTI~eCLHTFCkSCivk~l~~~--~------~CP~C~i~ih~ 62 (331)
T KOG2660|consen 16 ITCRLCGGYLIDA----TTITECLHTFCKSCIVKYLEES--K------YCPTCDIVIHK 62 (331)
T ss_pred eehhhccceeecc----hhHHHHHHHHHHHHHHHHHHHh--c------cCCccceeccC
Confidence 6899999999774 6667899999999999999873 3 39999988854
No 66
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.19 E-value=0.16 Score=48.27 Aligned_cols=50 Identities=30% Similarity=0.681 Sum_probs=41.1
Q ss_pred CcccccccccccccCCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
+.|-||.++|..+|+..+-| |.|||.|=..|+.+.+... ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~-------~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS-------RILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCc-------eeeccCCCCcc
Confidence 57999999999876444545 6899999999999998764 45689999986
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=92.12 E-value=0.16 Score=46.28 Aligned_cols=50 Identities=20% Similarity=0.457 Sum_probs=34.1
Q ss_pred CCcccccccccccccCCCeEEecCCC---ccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLH---VIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~H---vFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
+..|-||.++-. + +..-=.|.. ..|.+||..|+..... ..|++|+++.--
T Consensus 8 ~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~------~~CeiC~~~Y~i 60 (162)
T PHA02825 8 DKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKN------KSCKICNGPYNI 60 (162)
T ss_pred CCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCC------CcccccCCeEEE
Confidence 488999987731 1 221113544 6799999999987532 469999988643
No 68
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.83 E-value=0.059 Score=59.28 Aligned_cols=40 Identities=30% Similarity=0.673 Sum_probs=33.3
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
..|..|...|+- -.|...|+|.||..|+. ++ ...||.|+.
T Consensus 841 skCs~C~~~Ldl----P~VhF~CgHsyHqhC~e---~~--------~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDL----PFVHFLCGHSYHQHCLE---DK--------EDKCPKCLP 880 (933)
T ss_pred eeecccCCcccc----ceeeeecccHHHHHhhc---cC--------cccCCccch
Confidence 689999999966 37889999999999999 22 346999965
No 69
>PF04641 Rtf2: Rtf2 RING-finger
Probab=91.78 E-value=0.3 Score=46.53 Aligned_cols=49 Identities=16% Similarity=0.236 Sum_probs=37.8
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
-.|+|...+|.... ..+.| +|||||=..+|.+-- .. -.||+|.+++-..
T Consensus 114 ~~CPvt~~~~~~~~--~fv~l~~cG~V~s~~alke~k---~~------~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 114 FICPVTGKEFNGKH--KFVYLRPCGCVFSEKALKELK---KS------KKCPVCGKPFTEE 163 (260)
T ss_pred eECCCCCcccCCce--eEEEEcCCCCEeeHHHHHhhc---cc------ccccccCCccccC
Confidence 56999999995443 45666 999999999999983 11 2499999997643
No 70
>PHA02862 5L protein; Provisional
Probab=91.73 E-value=0.13 Score=46.26 Aligned_cols=47 Identities=26% Similarity=0.465 Sum_probs=34.0
Q ss_pred CcccccccccccccCCCeEEecC-----CCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGC-----LHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C-----~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
+.|-||.++- ++ + + -+| .-..|.+||.+|+.... ...|++|+.+..-
T Consensus 3 diCWIC~~~~--~e--~-~-~PC~C~GS~K~VHq~CL~~WIn~S~------k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVC--DE--R-N-NFCGCNEEYKVVHIKCMQLWINYSK------KKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcC--CC--C-c-ccccccCcchhHHHHHHHHHHhcCC------CcCccCCCCeEEE
Confidence 6799999872 22 2 2 344 47899999999996543 3469999998754
No 71
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.88 E-value=0.21 Score=49.01 Aligned_cols=50 Identities=22% Similarity=0.440 Sum_probs=39.0
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
...|++|.+.=.. --+..+|+|+|---|+..-+... +.++||.|+.++-|
T Consensus 239 ~~~C~~Cg~~Pti----P~~~~~C~HiyCY~Ci~ts~~~~------asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 239 DTECPVCGEPPTI----PHVIGKCGHIYCYYCIATSRLWD------ASFTCPLCGENVEP 288 (298)
T ss_pred CceeeccCCCCCC----Ceeeccccceeehhhhhhhhcch------hhcccCccCCCCcc
Confidence 3789999987322 24445799999999999887643 57889999998865
No 72
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.47 E-value=0.16 Score=55.60 Aligned_cols=36 Identities=25% Similarity=0.462 Sum_probs=28.5
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (338)
..|++|--..... -.+-+.|+|+.|..|..+|++..
T Consensus 1029 ~~C~~C~l~V~gs---s~~Cg~C~Hv~H~sc~~eWf~~g 1064 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGS---SNFCGTCGHVGHTSCMMEWFRTG 1064 (1081)
T ss_pred eeeeeEeeEeecc---chhhccccccccHHHHHHHHhcC
Confidence 3488887766554 36667899999999999999864
No 73
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.86 E-value=0.095 Score=40.39 Aligned_cols=47 Identities=23% Similarity=0.619 Sum_probs=32.5
Q ss_pred CCCcccccccccccccCCCeEEecCCCc-cCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 50 WPPKCCQCQAVLEEESGSETTRLGCLHV-IHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~Hv-FH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
|...|.||.+.-.+ .|.-.|||. +--+|--+..+.. +-.||+||.+|
T Consensus 6 ~~dECTICye~pvd-----sVlYtCGHMCmCy~Cg~rl~~~~-------~g~CPiCRapi 53 (62)
T KOG4172|consen 6 WSDECTICYEHPVD-----SVLYTCGHMCMCYACGLRLKKAL-------HGCCPICRAPI 53 (62)
T ss_pred cccceeeeccCcch-----HHHHHcchHHhHHHHHHHHHHcc-------CCcCcchhhHH
Confidence 34789999886322 455589997 4567766666543 33699999887
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.81 E-value=0.29 Score=47.64 Aligned_cols=49 Identities=18% Similarity=0.253 Sum_probs=41.3
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
-.|+||...|.+.. ....| +|||||-.+|..+.++.. ..||+|.+++--
T Consensus 222 yiCpvtrd~LtNt~--~ca~Lr~sg~Vv~~ecvEklir~D--------~v~pv~d~plkd 271 (303)
T KOG3039|consen 222 YICPVTRDTLTNTT--PCAVLRPSGHVVTKECVEKLIRKD--------MVDPVTDKPLKD 271 (303)
T ss_pred eecccchhhhcCcc--ceEEeccCCcEeeHHHHHHhcccc--------ccccCCCCcCcc
Confidence 45999999998864 56667 899999999999999864 469999998754
No 75
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.90 E-value=0.24 Score=50.60 Aligned_cols=46 Identities=26% Similarity=0.586 Sum_probs=36.6
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
-.|.||..-|.. .+-++|||.|-..||+.-+...+ .||.|+.++.-
T Consensus 85 f~c~vc~~~l~~-----pv~tpcghs~c~~Cl~r~ld~~~--------~cp~Cr~~l~e 130 (398)
T KOG4159|consen 85 FECCVCSRALYP-----PVVTPCGHSFCLECLDRSLDQET--------ECPLCRDELVE 130 (398)
T ss_pred hhhhhhHhhcCC-----CccccccccccHHHHHHHhccCC--------CCccccccccc
Confidence 459999888754 56669999999999999665432 39999999874
No 76
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=87.38 E-value=0.43 Score=48.23 Aligned_cols=50 Identities=22% Similarity=0.561 Sum_probs=40.6
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~ 113 (338)
-.|++|...+.+- +....|+|.|-..|+++|+... ..||.|+..+.....
T Consensus 22 l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~~--------~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 22 LLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSNH--------QKCPVCRQELTQAEE 71 (391)
T ss_pred ccCccccccccCC----CCCCCCCCcccccccchhhccC--------cCCcccccccchhhc
Confidence 5699999999763 3337999999999999999873 249999998877544
No 77
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.37 E-value=0.46 Score=48.53 Aligned_cols=52 Identities=23% Similarity=0.329 Sum_probs=41.1
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
--.|||=.+.=.+.. -..+|.||||.-.+-|++..++... .|+||-|-....
T Consensus 334 vF~CPVlKeqtsdeN--PPm~L~CGHVISkdAlnrLS~ng~~-----sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 334 VFICPVLKEQTSDEN--PPMMLICGHVISKDALNRLSKNGSQ-----SFKCPYCPVEQL 385 (394)
T ss_pred eeecccchhhccCCC--CCeeeeccceecHHHHHHHhhCCCe-----eeeCCCCCcccC
Confidence 357998888766654 7999999999999999999887532 589999954443
No 78
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.93 E-value=0.37 Score=48.65 Aligned_cols=44 Identities=27% Similarity=0.633 Sum_probs=31.9
Q ss_pred CCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 50 WPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
.++.|.||+++..+ .+-++|||+-- |..-... .+ +||+||+.|-
T Consensus 304 ~p~lcVVcl~e~~~-----~~fvpcGh~cc--ct~cs~~-l~--------~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS-----AVFVPCGHVCC--CTLCSKH-LP--------QCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc-----eeeecCCcEEE--chHHHhh-CC--------CCchhHHHHH
Confidence 46899999998644 78899999944 5544432 11 3999998774
No 79
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=86.72 E-value=0.3 Score=37.27 Aligned_cols=34 Identities=29% Similarity=0.539 Sum_probs=26.3
Q ss_pred CeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 68 ETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 68 evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
.-+.|+|+|+.=..|.+-+=-+ .||.|.+++-+.
T Consensus 19 ~~~~~pCgH~I~~~~f~~~rYn----------gCPfC~~~~~~~ 52 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGERYN----------GCPFCGTPFEFD 52 (55)
T ss_pred ccccccccceeeccccChhhcc----------CCCCCCCcccCC
Confidence 3566899999999998766322 299999999765
No 80
>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 KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.05 E-value=0.4 Score=47.51 Aligned_cols=63 Identities=24% Similarity=0.353 Sum_probs=46.3
Q ss_pred CCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchhHHHHHHH
Q 019640 50 WPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKEA 128 (338)
Q Consensus 50 ~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~ 128 (338)
.|..|-||..+|.. .|+-.|+|.|-..|.-+-++..+ .|++|.+.+.-..++ ..-|.-.|+..
T Consensus 240 ~Pf~c~icr~~f~~-----pVvt~c~h~fc~~ca~~~~qk~~--------~c~vC~~~t~g~~~~---akeL~~~L~~k 302 (313)
T KOG1813|consen 240 LPFKCFICRKYFYR-----PVVTKCGHYFCEVCALKPYQKGE--------KCYVCSQQTHGSFNV---AKELLVSLKLK 302 (313)
T ss_pred CCcccccccccccc-----chhhcCCceeehhhhccccccCC--------cceecccccccccch---HHHHHHHHHhh
Confidence 35779999999954 78889999999999999887643 599999988644332 23444444443
No 82
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=85.89 E-value=0.76 Score=34.14 Aligned_cols=45 Identities=24% Similarity=0.504 Sum_probs=20.7
Q ss_pred ccccccccccccCCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 54 CCQCQAVLEEESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
|++|.++++..| ...+ .|++-+-+.|...-++. .+-.||.||++.
T Consensus 1 cp~C~e~~d~~d---~~~~PC~Cgf~IC~~C~~~i~~~-------~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD---KDFYPCECGFQICRFCYHDILEN-------EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC---TT--SSTTS----HHHHHHHTTS-------S-SB-TTT--B-
T ss_pred CCCcccccccCC---CccccCcCCCcHHHHHHHHHHhc-------cCCCCCCCCCCC
Confidence 789999996654 3444 58877767776666642 245799999863
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=84.93 E-value=0.49 Score=33.85 Aligned_cols=43 Identities=19% Similarity=0.566 Sum_probs=21.8
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
|.+|.+-...|. ....-.|.=-+|..|+..|++.... .+||.|
T Consensus 1 C~~C~~iv~~G~--~C~~~~C~~r~H~~C~~~y~r~~~~------~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQ--RCSNRDCNVRLHDDCFKKYFRHRSN------PKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSE--E-SS--S--EE-HHHHHHHTTT-SS-------B-TTT
T ss_pred CcccchhHeeec--cCCCCccCchHHHHHHHHHHhcCCC------CCCcCC
Confidence 556666655442 1122247778999999999988643 269988
No 84
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=84.68 E-value=0.47 Score=45.04 Aligned_cols=49 Identities=18% Similarity=0.388 Sum_probs=40.0
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
|-.|.||.+.++. .|.-.|||.|-..|...-.+.. -.|-+|.+...-.-
T Consensus 196 PF~C~iCKkdy~s-----pvvt~CGH~FC~~Cai~~y~kg--------~~C~~Cgk~t~G~f 244 (259)
T COG5152 196 PFLCGICKKDYES-----PVVTECGHSFCSLCAIRKYQKG--------DECGVCGKATYGRF 244 (259)
T ss_pred ceeehhchhhccc-----hhhhhcchhHHHHHHHHHhccC--------Ccceecchhhccce
Confidence 4689999999854 6777999999999999888764 35999998876543
No 85
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.50 E-value=0.12 Score=52.77 Aligned_cols=49 Identities=16% Similarity=0.290 Sum_probs=40.8
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|+||.+.|...- ..+..+.|||++|..||.+||.... +||.|+..+-
T Consensus 197 ~sl~I~~~slK~~y-~k~~~~~~g~~~~~~kL~k~L~~~~--------kl~~~~rel~ 245 (465)
T KOG0827|consen 197 GSLSICFESLKQNY-DKISAIVCGHIYHHGKLSKWLATKR--------KLPSCRRELP 245 (465)
T ss_pred hhhHhhHHHHHHHH-HHHHHHhhcccchhhHHHHHHHHHH--------HhHHHHhhhh
Confidence 57999999998751 2577789999999999999998742 5999998874
No 86
>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=82.23 E-value=1.1 Score=44.31 Aligned_cols=48 Identities=21% Similarity=0.429 Sum_probs=35.4
Q ss_pred cccccccccc-cccCCCeEEe--cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 53 KCCQCQAVLE-EESGSETTRL--GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 53 ~C~ICle~L~-~gD~~evvRL--~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
.|++|...-- +-+ ++.| +|+|-.-.+|.|.-+...+ +.||-|++.+--
T Consensus 2 ~Cp~CKt~~Y~np~---lk~~in~C~H~lCEsCvd~iF~~g~-------~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPD---LKLMINECGHRLCESCVDRIFSLGP-------AQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCcc---ceeeeccccchHHHHHHHHHHhcCC-------CCCCcccchhhh
Confidence 4888876532 332 3333 7999999999999997754 469999987654
No 87
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=81.96 E-value=1.6 Score=33.30 Aligned_cols=32 Identities=19% Similarity=0.396 Sum_probs=27.5
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHH
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVS 85 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~ 85 (338)
..|.+|.+.|.++| ++|.- .|+=.+|++|-+.
T Consensus 6 ~~C~~Cg~~~~~~d--DiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGD--DIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCC--CEEECCCCCCcccHHHHhh
Confidence 68999999999776 68876 5999999999654
No 88
>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=81.74 E-value=1.9 Score=39.38 Aligned_cols=53 Identities=23% Similarity=0.472 Sum_probs=35.5
Q ss_pred CcccccccccccccCCCeEEecC------------C-CccCHHHHHHHHhcCCCCCC-----------------------
Q 019640 52 PKCCQCQAVLEEESGSETTRLGC------------L-HVIHTSCLVSHIKSFPPHTA----------------------- 95 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C------------~-HvFH~~CLd~WL~~~p~nTa----------------------- 95 (338)
..|+||++-=.+ .|-|.| . -.=|..|||++-+.....+.
T Consensus 3 ~~CpICme~PHN-----AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 3 VTCPICMEHPHN-----AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred ccCceeccCCCc-----eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 579999987443 444443 2 34599999999766532211
Q ss_pred CCCCCCCCCCCCcc
Q 019640 96 PAGYVCPLCSTTIW 109 (338)
Q Consensus 96 Pagy~CP~Cr~~I~ 109 (338)
.....||+||..|.
T Consensus 78 ~~~L~CPLCRG~V~ 91 (162)
T PF07800_consen 78 QPELACPLCRGEVK 91 (162)
T ss_pred cccccCccccCcee
Confidence 12678999999987
No 89
>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=78.63 E-value=0.78 Score=44.71 Aligned_cols=46 Identities=24% Similarity=0.517 Sum_probs=35.6
Q ss_pred CcccccccccccccCCCeEEe--c-CCCccCHHHHHHHHhcCCCCCCCCCCCCC--CCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL--G-CLHVIHTSCLVSHIKSFPPHTAPAGYVCP--LCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL--~-C~HvFH~~CLd~WL~~~p~nTaPagy~CP--~Cr~ 106 (338)
..|+||+.+---+- ++..| | |+|-+-.+|.|.-+...|+ .|| -|.+
T Consensus 11 ~~CPvCksDrYLnP--dik~linPECyHrmCESCvdRIFs~GpA-------qCP~~gC~k 61 (314)
T COG5220 11 RRCPVCKSDRYLNP--DIKILINPECYHRMCESCVDRIFSRGPA-------QCPYKGCGK 61 (314)
T ss_pred ccCCccccccccCC--CeEEEECHHHHHHHHHHHHHHHhcCCCC-------CCCCccHHH
Confidence 68999987654332 36666 4 9999999999999988765 399 7865
No 90
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.52 E-value=1.4 Score=43.29 Aligned_cols=61 Identities=25% Similarity=0.425 Sum_probs=42.2
Q ss_pred CCcccccccccccccCCCe-EEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC---ccCCCC
Q 019640 51 PPKCCQCQAVLEEESGSET-TRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT---IWPPKN 113 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~ev-vRL~C~-----HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~---I~P~~~ 113 (338)
+-.|=||...=++.- .. -.=||. |-.|.+||..|+..+..+.+-+...||.|++. +||+.+
T Consensus 20 eR~CWiCF~TdeDn~--~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~ 89 (293)
T KOG3053|consen 20 ERCCWICFATDEDNR--LAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG 89 (293)
T ss_pred ceeEEEEeccCcccc--hhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC
Confidence 377999987633221 11 112553 88999999999988766555677889999997 466654
No 91
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=71.43 E-value=1.9 Score=40.49 Aligned_cols=53 Identities=23% Similarity=0.402 Sum_probs=37.7
Q ss_pred CcccccccccccccCCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
..|-||..+..... .+....+|. +..|..|++.|+.... ...|..|.....+.
T Consensus 79 ~~cRIc~~~~~~~~-~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~------~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 79 PICRICHEEDEESN-GLLLISPCSCKGSLAYVHRSCLEKWFSIKG------NITCEICKSFFINV 136 (323)
T ss_pred CcEEEEeccccccc-ccccccCccccCcHHHHHHHHHHhhhcccc------Ceeeecccccceec
Confidence 56999999876543 123444553 7789999999998543 34699998876553
No 92
>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=70.92 E-value=4.9 Score=29.52 Aligned_cols=45 Identities=22% Similarity=0.539 Sum_probs=19.5
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHH--HHHHhcCCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCL--VSHIKSFPPHTAPAGYVCPLCSTT 107 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CL--d~WL~~~p~nTaPagy~CP~Cr~~ 107 (338)
-.|++....+.. .+|- .|.|+ +|. +.||.....+ ..+.||+|.++
T Consensus 3 L~CPls~~~i~~-----P~Rg~~C~H~---~CFDl~~fl~~~~~~---~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI-----PVRGKNCKHL---QCFDLESFLESNQRT---PKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS-----EEEETT--SS-----EEHHHHHHHHHHS------B-TTT---
T ss_pred eeCCCCCCEEEe-----CccCCcCccc---ceECHHHHHHHhhcc---CCeECcCCcCc
Confidence 357888777743 6664 79977 453 3455543322 24889999874
No 93
>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=68.20 E-value=4.1 Score=29.85 Aligned_cols=36 Identities=33% Similarity=0.645 Sum_probs=23.5
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
.|+.|.+.|.... |-..+....... ...+.||+|..
T Consensus 4 ~CP~C~~~~~~~~-----------------L~~H~~~~H~~~-~~~v~CPiC~~ 39 (54)
T PF05605_consen 4 TCPYCGKGFSESS-----------------LVEHCEDEHRSE-SKNVVCPICSS 39 (54)
T ss_pred CCCCCCCccCHHH-----------------HHHHHHhHCcCC-CCCccCCCchh
Confidence 4999999776544 555555443322 34688999975
No 94
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=67.03 E-value=3.7 Score=41.33 Aligned_cols=44 Identities=25% Similarity=0.662 Sum_probs=35.2
Q ss_pred CCcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
+-.|++|..-|.+ .++- -|+|.|-.+||..-|.. ..|.||.|.+
T Consensus 274 ~LkCplc~~Llrn-----p~kT~cC~~~fc~eci~~al~d-------sDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRN-----PMKTPCCGHTFCDECIGTALLD-------SDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhC-----cccCccccchHHHHHHhhhhhh-------ccccCCCccc
Confidence 3789999998866 3444 69999999999987765 3688999976
No 95
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.69 E-value=2.4 Score=46.17 Aligned_cols=46 Identities=22% Similarity=0.368 Sum_probs=37.3
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|.||+..|.... .+.+-|.|||+.-..|+..-..+ +|| |...=|
T Consensus 12 l~c~ic~n~f~~~~-~~Pvsl~cghtic~~c~~~lyn~----------scp-~~~De~ 57 (861)
T KOG3161|consen 12 LLCDICLNLFVVQR-LEPVSLQCGHTICGHCVQLLYNA----------SCP-TKRDED 57 (861)
T ss_pred hhchHHHHHHHHHh-cCcccccccchHHHHHHHhHhhc----------cCC-CCcccc
Confidence 57999999998765 67888999999999999887765 399 765544
No 96
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=66.48 E-value=5.1 Score=41.09 Aligned_cols=46 Identities=28% Similarity=0.519 Sum_probs=34.6
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTT 107 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~ 107 (338)
..+|.||.+.+. .+.++||+|-.--.|....-.-.. ...||.|++.
T Consensus 61 n~~C~ICA~~~T-----Ys~~~PC~H~~CH~Ca~RlRALY~------~K~C~~CrTE 106 (493)
T COG5236 61 NMNCQICAGSTT-----YSARYPCGHQICHACAVRLRALYM------QKGCPLCRTE 106 (493)
T ss_pred cceeEEecCCce-----EEEeccCCchHHHHHHHHHHHHHh------ccCCCccccc
Confidence 379999998874 367899999999999877632221 2359999986
No 97
>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=65.72 E-value=4.9 Score=35.89 Aligned_cols=29 Identities=28% Similarity=0.476 Sum_probs=24.3
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q 131 (338)
+|.||.|+..+..-.| |.+.++|+++|.+
T Consensus 128 ~F~Cp~Cg~~L~~~dn-----~~~i~~l~~~i~~ 156 (158)
T TIGR00373 128 NFTCPRCGAMLDYLDN-----SEAIEKLEEQIKF 156 (158)
T ss_pred CCcCCCCCCEeeeccC-----HHHHHHHHHHHHh
Confidence 7899999999987654 7889999988864
No 98
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=65.42 E-value=4.5 Score=40.90 Aligned_cols=46 Identities=24% Similarity=0.418 Sum_probs=37.1
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
-.|+|=.+.-.+.. -.+-|-||||.-.+-|+..-+... ..|+||-|
T Consensus 337 FiCPVlKe~~t~EN--pP~ml~CgHVIskeal~~LS~nG~-----~~FKCPYC 382 (396)
T COG5109 337 FICPVLKELCTDEN--PPVMLECGHVISKEALSVLSQNGV-----LSFKCPYC 382 (396)
T ss_pred eeccccHhhhcccC--CCeeeeccceeeHHHHHHHhhcCc-----EEeeCCCC
Confidence 67998877766554 688899999999999998876542 37999999
No 99
>PHA03096 p28-like protein; Provisional
Probab=65.14 E-value=3.9 Score=40.14 Aligned_cols=50 Identities=12% Similarity=0.047 Sum_probs=33.1
Q ss_pred CcccccccccccccC--CCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEESG--SETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~gD~--~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
-.|.||++...+... ..-..| .|-|.|-..|+..|...... .-.||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~-----~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY-----KETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh-----cccCccccc
Confidence 469999998765310 112224 69999999999999876432 234666644
No 100
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=64.25 E-value=6.3 Score=35.98 Aligned_cols=31 Identities=35% Similarity=0.513 Sum_probs=25.7
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLTG 133 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q~~ 133 (338)
+|.||.|+..+..-.| +.+.++|+++|.+-.
T Consensus 136 ~F~Cp~Cg~~L~~~dn-----~~~~~~l~~~I~~l~ 166 (178)
T PRK06266 136 GFRCPQCGEMLEEYDN-----SELIKELKEQIKELE 166 (178)
T ss_pred CCcCCCCCCCCeeccc-----HHHHHHHHHHHHHHH
Confidence 7899999999987654 788899999887753
No 101
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.62 E-value=2 Score=43.93 Aligned_cols=68 Identities=24% Similarity=0.470 Sum_probs=48.7
Q ss_pred cCcccccCCCcceeeeecccccccCCCC-----C----CCcccccccccccccCCC-eEE--ecCCCccCHHHHHHHHhc
Q 019640 22 CGECICFPEHQICVVRTYSEWVIDGEYD-----W----PPKCCQCQAVLEEESGSE-TTR--LGCLHVIHTSCLVSHIKS 89 (338)
Q Consensus 22 Ce~Civ~~~H~~CvVqsYlqWL~Dsdyd-----~----~~~C~ICle~L~~gD~~e-vvR--L~C~HvFH~~CLd~WL~~ 89 (338)
|..|.- +.|..+..+....|++....+ | ...|+.|..+.+...+-. ... ..|.|.|+|-|+..|-..
T Consensus 189 C~~C~~-~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 189 CFACGE-ESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred Hhhccc-cccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 667874 889999999999998744321 2 245999999997653211 122 259999999999999865
Q ss_pred C
Q 019640 90 F 90 (338)
Q Consensus 90 ~ 90 (338)
.
T Consensus 268 ~ 268 (444)
T KOG1815|consen 268 G 268 (444)
T ss_pred c
Confidence 4
No 102
>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=62.27 E-value=9.3 Score=29.52 Aligned_cols=48 Identities=23% Similarity=0.528 Sum_probs=37.6
Q ss_pred CcccccccccccccCCCeEEecCC--CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCL--HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPK 112 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~--HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~ 112 (338)
++|-.|..+|..+. .....|. -.|-.+|.+..|.. .||.|...+.+.+
T Consensus 6 pnCE~C~~dLp~~s---~~A~ICSfECTFC~~C~e~~l~~----------~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDS---PEAYICSFECTFCADCAETMLNG----------VCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCC---CcceEEeEeCcccHHHHHHHhcC----------cCcCCCCccccCC
Confidence 78999999998754 3445554 47999999999965 4999999887643
No 103
>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=60.82 E-value=0.42 Score=33.98 Aligned_cols=48 Identities=19% Similarity=0.420 Sum_probs=31.7
Q ss_pred cccccccccccccCCCeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 53 KCCQCQAVLEEESGSETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvR-L~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
.|.||.+...++ +.+. -.|...||..|+..-....... ...+.||.|+
T Consensus 1 ~C~vC~~~~~~~---~~i~C~~C~~~~H~~C~~~~~~~~~~~--~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDG---DMIQCDSCNRWYHQECVGPPEKAEEIP--SGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTS---SEEEBSTTSCEEETTTSTSSHSHHSHH--SSSBSSHHHH
T ss_pred eCcCCCCcCCCC---CeEEcCCCChhhCcccCCCChhhccCC--CCcEECcCCc
Confidence 388999843333 3444 3799999999998776533211 1378898884
No 104
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=60.65 E-value=3.7 Score=41.45 Aligned_cols=69 Identities=23% Similarity=0.460 Sum_probs=41.5
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcc-----hhHHHH
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGS-----RLHSLL 125 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~S-----pl~~~L 125 (338)
.-|--|-.++.. --|| +|.|||-.+|...-- .+.||.|...|.-=..+ ..++ .+.--+
T Consensus 91 HfCd~Cd~PI~I-----YGRmIPCkHvFCl~CAr~~~----------dK~Cp~C~d~VqrIeq~-~~g~iFmC~~~~GC~ 154 (389)
T KOG2932|consen 91 HFCDRCDFPIAI-----YGRMIPCKHVFCLECARSDS----------DKICPLCDDRVQRIEQI-MMGGIFMCAAPHGCL 154 (389)
T ss_pred EeecccCCccee-----eecccccchhhhhhhhhcCc----------cccCcCcccHHHHHHHh-cccceEEeecchhHH
Confidence 467778777643 4455 899999999975432 23599998877542221 1111 112235
Q ss_pred HHHhhhhhhhh
Q 019640 126 KEAIMLTGLEK 136 (338)
Q Consensus 126 re~l~q~~WAr 136 (338)
|-.|+|..+..
T Consensus 155 RTyLsqrDlqA 165 (389)
T KOG2932|consen 155 RTYLSQRDLQA 165 (389)
T ss_pred HHHhhHHHHHH
Confidence 66667666544
No 105
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=59.31 E-value=3.5 Score=39.66 Aligned_cols=31 Identities=39% Similarity=0.737 Sum_probs=22.9
Q ss_pred eEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 69 TTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 69 vvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
.-.| .|+|||-..|.-.=. .-.||+|+++|-
T Consensus 17 ~f~LTaC~HvfC~~C~k~~~----------~~~C~lCkk~ir 48 (233)
T KOG4739|consen 17 PFFLTACRHVFCEPCLKASS----------PDVCPLCKKSIR 48 (233)
T ss_pred ceeeeechhhhhhhhcccCC----------ccccccccceee
Confidence 5555 799999999974322 226999999963
No 106
>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=58.77 E-value=8.9 Score=24.70 Aligned_cols=37 Identities=22% Similarity=0.525 Sum_probs=24.0
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
.|..|.+.+..++ .....=+..||.+|+ +|..|+.++
T Consensus 1 ~C~~C~~~i~~~~---~~~~~~~~~~H~~Cf----------------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE---LVLRALGKVWHPECF----------------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc---EEEEeCCccccccCC----------------CCcccCCcC
Confidence 3888988887652 222233667887763 488887765
No 107
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.82 E-value=4.4 Score=44.95 Aligned_cols=38 Identities=18% Similarity=0.368 Sum_probs=28.5
Q ss_pred Cccccccccccccc--CCCeEEecCCCccCHHHHHHHHhc
Q 019640 52 PKCCQCQAVLEEES--GSETTRLGCLHVIHTSCLVSHIKS 89 (338)
Q Consensus 52 ~~C~ICle~L~~gD--~~evvRL~C~HvFH~~CLd~WL~~ 89 (338)
..|..|.++..... -..++++-|+|+||.+|+-....+
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred hhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 67888877765321 025888999999999999888665
No 108
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=53.26 E-value=5.8 Score=41.36 Aligned_cols=89 Identities=21% Similarity=0.423 Sum_probs=45.8
Q ss_pred cccceeeeeecCccCcccccCCCcceeeeecc--c-ccc--cCCCCCC-CcccccccccccccC--CCeEEecCCCccCH
Q 019640 9 ATKLYCFVHKVPVCGECICFPEHQICVVRTYS--E-WVI--DGEYDWP-PKCCQCQAVLEEESG--SETTRLGCLHVIHT 80 (338)
Q Consensus 9 ~T~~fCf~HrvnVCe~Civ~~~H~~CvVqsYl--q-WL~--Dsdyd~~-~~C~ICle~L~~gD~--~evvRL~C~HvFH~ 80 (338)
+-..|=++-.+..||.|+. +.-.+|.+..=+ + .|+ -..|..- -.|.+|...|+.-.= +.....-|---||
T Consensus 313 ~Gq~FY~v~~k~~CE~cyq-~tlekC~~Cg~~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh- 390 (468)
T KOG1701|consen 313 AGQSFYQVDGKPYCEGCYQ-DTLEKCNKCGEPIMDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFH- 390 (468)
T ss_pred ccccccccCCcccchHHHH-HHHHHHhhhhhHHHHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhh-
Confidence 6677888888899999984 333355433111 0 111 1124411 346677776643100 0011122333333
Q ss_pred HHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 019640 81 SCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 81 ~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~ 113 (338)
+++. | +|-+|..+|+|.+-
T Consensus 391 -------~kfA----P---rCs~C~~PI~P~~G 409 (468)
T KOG1701|consen 391 -------KKFA----P---RCSVCGNPILPRDG 409 (468)
T ss_pred -------hhcC----c---chhhccCCccCCCC
Confidence 3332 2 59999999999753
No 109
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=52.94 E-value=7.2 Score=36.07 Aligned_cols=39 Identities=31% Similarity=0.695 Sum_probs=25.6
Q ss_pred Ccccccccc-----cccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAV-----LEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~-----L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
..|.+|..+ |+.. .+++= .|+-+||.+|..+ . .||.|..
T Consensus 153 fiCe~C~~~~~IfPF~~~---~~~~C~~C~~v~H~~C~~~---~----------~CpkC~R 197 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQID---TTVRCPKCKSVFHKSCFRK---K----------SCPKCAR 197 (202)
T ss_pred CCCccCCCCCCCCCCCCC---CeeeCCcCccccchhhcCC---C----------CCCCcHh
Confidence 347777642 2222 46664 7999999999883 1 2999943
No 110
>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=51.01 E-value=9.1 Score=27.29 Aligned_cols=39 Identities=18% Similarity=0.459 Sum_probs=29.5
Q ss_pred ccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 54 CCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 54 C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
|..|.+.+..+ +.+...-+..||.+| ++|-.|+++|.+.
T Consensus 1 C~~C~~~I~~~---~~~~~~~~~~~H~~C----------------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGT---EIVIKAMGKFWHPEC----------------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSS---SEEEEETTEEEETTT----------------SBETTTTCBTTTS
T ss_pred CCCCCCCccCc---EEEEEeCCcEEEccc----------------cccCCCCCccCCC
Confidence 78899998765 355456778899776 4599999988764
No 111
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=49.39 E-value=9.2 Score=43.00 Aligned_cols=48 Identities=19% Similarity=0.428 Sum_probs=35.1
Q ss_pred CcccccccccccccCCCeEEecCC-----CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCL-----HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~-----HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|-||..+=..+| ..-=||. -..|.+||-+|+... +..+|-+|..++
T Consensus 13 ~~CRICr~e~~~d~---pLfhPCKC~GSIkYiH~eCL~eW~~~s------~~~kCdiChy~~ 65 (1175)
T COG5183 13 RSCRICRTEDIRDD---PLFHPCKCSGSIKYIHRECLMEWMECS------GTKKCDICHYEY 65 (1175)
T ss_pred hhceeecCCCCCCC---cCcccccccchhHHHHHHHHHHHHhcC------CCcceeeeccee
Confidence 68999998865554 3333553 468999999999843 345799999775
No 112
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=48.74 E-value=18 Score=31.90 Aligned_cols=29 Identities=17% Similarity=0.479 Sum_probs=22.3
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q 131 (338)
..+||+|.. .++.|++++++..||..+.+
T Consensus 40 ~LRC~vCqn-----qsiadSna~iA~dmR~~Vr~ 68 (126)
T PRK10144 40 QLRCPQCQN-----QNLLESNAPVAVSMRHQVYS 68 (126)
T ss_pred cCCCCCCCC-----CChhhcCCHHHHHHHHHHHH
Confidence 457999954 45677789999999887744
No 113
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=48.39 E-value=16 Score=40.69 Aligned_cols=36 Identities=28% Similarity=0.274 Sum_probs=26.9
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (338)
..|.+|--.+..-+ +---.|+|.-|.+|+.+|+...
T Consensus 780 ~~CtVC~~vi~G~~---~~c~~C~H~gH~sh~~sw~~~~ 815 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVD---VWCQVCGHGGHDSHLKSWFFKA 815 (839)
T ss_pred cCceeecceeeeeE---eecccccccccHHHHHHHHhcC
Confidence 46888877765421 3334799999999999999875
No 114
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=46.03 E-value=29 Score=28.88 Aligned_cols=26 Identities=23% Similarity=0.444 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 019640 301 RKILLLIAIMACMATMGILYYRLSQRAL 328 (338)
Q Consensus 301 rkill~~a~~sc~~Tm~llY~rla~~~~ 328 (338)
.|+||||++ ++|.++||-.-.|-+.+
T Consensus 3 SK~~llL~l--~LA~lLlisSevaa~~~ 28 (95)
T PF07172_consen 3 SKAFLLLGL--LLAALLLISSEVAAREL 28 (95)
T ss_pred hhHHHHHHH--HHHHHHHHHhhhhhHHh
Confidence 688888877 56777777776665544
No 115
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=45.93 E-value=28 Score=30.45 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=20.6
Q ss_pred ChhHHHHHHHHHH-HHHHHHHHHHHHhhc
Q 019640 299 DPRKILLLIAIMA-CMATMGILYYRLSQR 326 (338)
Q Consensus 299 dprkill~~a~~s-c~~Tm~llY~rla~~ 326 (338)
.|--++++|+.|+ -||+++||+|-|-|+
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~ 91 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCIRRL 91 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHHHHH
Confidence 3567899999999 566777888876543
No 116
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=45.55 E-value=17 Score=36.72 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=37.4
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
++.|++|-+++...| ...+=-+|+|..++.|+..-.... .+||.|+++.+-.
T Consensus 249 ~~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~~~--------~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISDGD--------GRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccc-cccccccccccchhhhhhcccccC--------CCCCccCCccccC
Confidence 488999999997665 223333688888888877766543 4699999887643
No 117
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=45.54 E-value=17 Score=36.01 Aligned_cols=53 Identities=26% Similarity=0.457 Sum_probs=33.6
Q ss_pred CcccccccccccccCCCeEEecC--CCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCCCCCCcchhHHHHHH
Q 019640 52 PKCCQCQAVLEEESGSETTRLGC--LHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKNVKDSGSRLHSLLKE 127 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C--~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre 127 (338)
..|+||-+.|.. -.+.| ||+.-..|--+-. .+||.|+.+|- ++ .++..+++-|
T Consensus 49 leCPvC~~~l~~------Pi~QC~nGHlaCssC~~~~~-----------~~CP~Cr~~~g---~~---R~~amEkV~e 103 (299)
T KOG3002|consen 49 LDCPVCFNPLSP------PIFQCDNGHLACSSCRTKVS-----------NKCPTCRLPIG---NI---RCRAMEKVAE 103 (299)
T ss_pred ccCchhhccCcc------cceecCCCcEehhhhhhhhc-----------ccCCccccccc---cH---HHHHHHHHHH
Confidence 579999999854 34666 4555555544222 24999999886 33 3565655544
No 118
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=44.76 E-value=20 Score=31.59 Aligned_cols=29 Identities=24% Similarity=0.508 Sum_probs=22.0
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q 131 (338)
..+||+|.. .++.|++++++..||..+.+
T Consensus 40 ~LRC~vCqn-----qsiadS~a~iA~dmR~~Vr~ 68 (126)
T TIGR03147 40 SLRCPQCQN-----QNLVESNSPIAYDLRHEVYS 68 (126)
T ss_pred hCCCCCCCC-----CChhhcCCHHHHHHHHHHHH
Confidence 457999954 45677789999999887644
No 119
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=44.05 E-value=15 Score=37.73 Aligned_cols=53 Identities=17% Similarity=0.276 Sum_probs=35.1
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~ 113 (338)
..|++|.++++-.| +.----+||--.-.-|.+.--+.. | -+||.||+-.. ++|
T Consensus 15 d~cplcie~mditd-knf~pc~cgy~ic~fc~~~irq~l--n-----grcpacrr~y~-den 67 (480)
T COG5175 15 DYCPLCIEPMDITD-KNFFPCPCGYQICQFCYNNIRQNL--N-----GRCPACRRKYD-DEN 67 (480)
T ss_pred ccCccccccccccc-CCcccCCcccHHHHHHHHHHHhhc--c-----CCChHhhhhcc-ccc
Confidence 66999999998876 444445788666566655544433 2 26999998543 344
No 120
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=43.87 E-value=14 Score=36.52 Aligned_cols=54 Identities=24% Similarity=0.532 Sum_probs=40.8
Q ss_pred CcccccccccccccCCCeEEe-----cCCCccCHHHHHH-HHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTRL-----GCLHVIHTSCLVS-HIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-----~C~HvFH~~CLd~-WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|-+|-+++.+.+ -.|+ .|.-++|..||-. -+...+.|--|-+-.||.|++-+
T Consensus 183 ~~celc~~ei~e~~---~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETD---WSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhcccc---ceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 58999999996554 4444 3788999999999 45555656557778899998843
No 121
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=43.82 E-value=20 Score=36.46 Aligned_cols=45 Identities=18% Similarity=0.284 Sum_probs=35.2
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
..|+||+..-.+. ++--.-|-||-+.|+.+++..+. .||+=..|+
T Consensus 301 ~~CpvClk~r~Np----tvl~vSGyVfCY~Ci~~Yv~~~~--------~CPVT~~p~ 345 (357)
T KOG0826|consen 301 EVCPVCLKKRQNP----TVLEVSGYVFCYPCIFSYVVNYG--------HCPVTGYPA 345 (357)
T ss_pred ccChhHHhccCCC----ceEEecceEEeHHHHHHHHHhcC--------CCCccCCcc
Confidence 7899999997663 55556788999999999998652 499875554
No 122
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=41.27 E-value=6.9 Score=26.71 Aligned_cols=26 Identities=27% Similarity=0.589 Sum_probs=21.2
Q ss_pred cccceeeeeecCccCcccccCCCccee
Q 019640 9 ATKLYCFVHKVPVCGECICFPEHQICV 35 (338)
Q Consensus 9 ~T~~fCf~HrvnVCe~Civ~~~H~~Cv 35 (338)
..++||...++.+|..|.. ..|..-.
T Consensus 13 ~~~~~C~~C~~~~C~~C~~-~~H~~H~ 38 (42)
T PF00643_consen 13 PLSLFCEDCNEPLCSECTV-SGHKGHK 38 (42)
T ss_dssp BEEEEETTTTEEEEHHHHH-TSTTTSE
T ss_pred ceEEEecCCCCccCccCCC-CCCCCCE
Confidence 4899999999999999996 4476533
No 123
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.71 E-value=5.6 Score=39.85 Aligned_cols=41 Identities=27% Similarity=0.554 Sum_probs=28.5
Q ss_pred CcccccccccccccCCCeEEecCCCcc-CHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVI-HTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvF-H~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|.||..-- .+.+-|.|||.. -.+|-...- .||+||+-|.
T Consensus 301 ~LC~ICmDaP-----~DCvfLeCGHmVtCt~CGkrm~------------eCPICRqyi~ 342 (350)
T KOG4275|consen 301 RLCAICMDAP-----RDCVFLECGHMVTCTKCGKRMN------------ECPICRQYIV 342 (350)
T ss_pred HHHHHHhcCC-----cceEEeecCcEEeehhhccccc------------cCchHHHHHH
Confidence 6799998763 358999999975 345533322 3999988764
No 124
>PF06900 DUF1270: Protein of unknown function (DUF1270); InterPro: IPR009682 This entry is represented by Bacteriophage 92, Orf86. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Staphylococcus aureus and phage proteins of 53 residues in length. The function of this family is unknown.
Probab=39.58 E-value=57 Score=24.91 Aligned_cols=19 Identities=21% Similarity=0.487 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 019640 307 IAIMACMATMGILYYRLSQR 326 (338)
Q Consensus 307 ~a~~sc~~Tm~llY~rla~~ 326 (338)
|.+| +++-|.++||+.|..
T Consensus 15 ftvl-si~L~~~lYFTTA~~ 33 (53)
T PF06900_consen 15 FTVL-SIALMPFLYFTTAWG 33 (53)
T ss_pred HHHH-HHHHHHHHHHHHHHH
Confidence 3344 456678899999974
No 125
>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=39.29 E-value=9.9 Score=39.33 Aligned_cols=75 Identities=24% Similarity=0.358 Sum_probs=0.0
Q ss_pred eeecccccccCCCC-CCCccccccccc-----ccc-------cCC-CeEEe-cCCCccCHHHHHHHHhcC-CCCCCCCCC
Q 019640 36 VRTYSEWVIDGEYD-WPPKCCQCQAVL-----EEE-------SGS-ETTRL-GCLHVIHTSCLVSHIKSF-PPHTAPAGY 99 (338)
Q Consensus 36 VqsYlqWL~Dsdyd-~~~~C~ICle~L-----~~g-------D~~-evvRL-~C~HvFH~~CLd~WL~~~-p~nTaPagy 99 (338)
|+-|-.|-.+.+-+ ..-.|++|+..= .-| |.+ -+... ||||+--.+...-|-+-. |..|.--.-
T Consensus 312 VhG~h~Wg~~~~~~~~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a 391 (416)
T PF04710_consen 312 VHGYHNWGQDSDRDPRSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHA 391 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred eeeecccccccccccccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccc
Confidence 67788998766531 137899998641 111 100 12223 899999999999996543 323322334
Q ss_pred CCCCCCCCccC
Q 019640 100 VCPLCSTTIWP 110 (338)
Q Consensus 100 ~CP~Cr~~I~P 110 (338)
.||-|..++-.
T Consensus 392 ~CPFCa~~L~g 402 (416)
T PF04710_consen 392 ACPFCATPLDG 402 (416)
T ss_dssp -----------
T ss_pred cCCcccCcccC
Confidence 69999888864
No 126
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=39.24 E-value=15 Score=39.54 Aligned_cols=38 Identities=24% Similarity=0.454 Sum_probs=28.9
Q ss_pred Cccccccccccc----ccC----CCeEEecCCCccCHHHHHHHHhc
Q 019640 52 PKCCQCQAVLEE----ESG----SETTRLGCLHVIHTSCLVSHIKS 89 (338)
Q Consensus 52 ~~C~ICle~L~~----gD~----~evvRL~C~HvFH~~CLd~WL~~ 89 (338)
..|+||.+.|++ .++ ++.|.|.=|-+||..|+..-..+
T Consensus 514 ~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~~~ 559 (579)
T KOG2071|consen 514 ASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKRAQ 559 (579)
T ss_pred cCCcccccccceeecchhhheeecceeeeccCceeeccccchHHHh
Confidence 789999999974 110 34777778899999999887543
No 127
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=38.95 E-value=13 Score=40.83 Aligned_cols=50 Identities=26% Similarity=0.465 Sum_probs=40.6
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
..|+||.+...+ .+.+.|.|.|-..|++.-|...+ +...||+|+..+--.
T Consensus 22 lEc~ic~~~~~~-----p~~~kc~~~~l~~~~n~~f~~~~-----~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 22 LECPICLEHVKE-----PSLLKCDHIFLKFCLNKLFESKK-----GPKQCALCKSDIEKR 71 (684)
T ss_pred ccCCceeEEeec-----cchhhhhHHHHhhhhhceeeccC-----ccccchhhhhhhhhh
Confidence 789999999855 47889999999999999887753 256799999877543
No 128
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.95 E-value=25 Score=28.78 Aligned_cols=47 Identities=23% Similarity=0.545 Sum_probs=37.0
Q ss_pred CcccccccccccccCCCeEEecC--CCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGC--LHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C--~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
++|--|-.+|-.+. ...+.| -|.|-..|...-|... ||.|...+.-.
T Consensus 6 PnCECCDrDLpp~s---~dA~ICtfEcTFCadCae~~l~g~----------CPnCGGelv~R 54 (84)
T COG3813 6 PNCECCDRDLPPDS---TDARICTFECTFCADCAENRLHGL----------CPNCGGELVAR 54 (84)
T ss_pred CCCcccCCCCCCCC---CceeEEEEeeehhHhHHHHhhcCc----------CCCCCchhhcC
Confidence 78999999987653 445555 4899999999988764 99999887754
No 129
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=38.47 E-value=12 Score=32.82 Aligned_cols=17 Identities=24% Similarity=0.681 Sum_probs=14.1
Q ss_pred CCCCCCCCCCCccCCCC
Q 019640 97 AGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 97 agy~CP~Cr~~I~P~~~ 113 (338)
+.|.||.|+..+....|
T Consensus 122 ~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 122 GTFTCPRCGEELEEDDN 138 (147)
T ss_pred CcEECCCCCCEEEEcCc
Confidence 35999999999987655
No 130
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=37.65 E-value=8 Score=41.63 Aligned_cols=26 Identities=42% Similarity=0.896 Sum_probs=19.3
Q ss_pred CeEE-ecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCC
Q 019640 68 ETTR-LGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLC 104 (338)
Q Consensus 68 evvR-L~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~C 104 (338)
.+.| ..|+++||..|+..--. .||.|
T Consensus 530 ~~~rC~~C~avfH~~C~~r~s~-----------~CPrC 556 (580)
T KOG1829|consen 530 NTRRCSTCLAVFHKKCLRRKSP-----------CCPRC 556 (580)
T ss_pred cceeHHHHHHHHHHHHHhccCC-----------CCCch
Confidence 3555 58999999999865322 29999
No 131
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=36.59 E-value=15 Score=40.14 Aligned_cols=46 Identities=26% Similarity=0.478 Sum_probs=35.8
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
..|.+|++ . . ..+.-.|+|.|-.+|+...++.... ..||.|+..+-
T Consensus 455 ~~c~ic~~-~--~---~~~it~c~h~~c~~c~~~~i~~~~~------~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-L--D---SFFITRCGHDFCVECLKKSIQQSEN------APCPLCRNVLK 500 (674)
T ss_pred cccccccc-c--c---cceeecccchHHHHHHHhccccccC------CCCcHHHHHHH
Confidence 46999999 2 1 4778899999999999999876522 16999987664
No 132
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=35.27 E-value=41 Score=26.37 Aligned_cols=46 Identities=24% Similarity=0.596 Sum_probs=34.3
Q ss_pred CCcccccccccccccCCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
++.|.-|...|..+. .-+.. +||-+.=+.|..---.. +-|+||.|.
T Consensus 9 ~~~CtSCg~~i~p~e--~~v~F~CPnCGe~~I~Rc~~CRk~g-------~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPGE--TAVKFPCPNCGEVEIYRCAKCRKLG-------NPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccCC--ceeEeeCCCCCceeeehhhhHHHcC-------CceECCCcC
Confidence 578999999997664 44444 58988888887665544 359999996
No 133
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.97 E-value=37 Score=28.99 Aligned_cols=37 Identities=22% Similarity=0.402 Sum_probs=28.3
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPP 92 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~ 92 (338)
.|.||.++..+|. .-...=.--.|++|+.+-.++++.
T Consensus 8 kC~VCg~~iieGq---kFTF~~kGsVH~eCl~~s~~~k~~ 44 (103)
T COG4847 8 KCYVCGGTIIEGQ---KFTFTKKGSVHYECLAESKRKKPG 44 (103)
T ss_pred eEeeeCCEeeecc---EEEEeeCCcchHHHHHHHHhcCcC
Confidence 4999999999985 433333667899999999887643
No 134
>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=33.98 E-value=14 Score=38.38 Aligned_cols=50 Identities=24% Similarity=0.337 Sum_probs=0.0
Q ss_pred Ccccccccccccc---------cCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 019640 52 PKCCQCQAVLEEE---------SGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCST 106 (338)
Q Consensus 52 ~~C~ICle~L~~g---------D~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~ 106 (338)
+.|+|=+..|.-- +.+--|-|.||||+-+ ..|-.... +.+....||+|++
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~--~~~~~r~CPlCr~ 336 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSD--RDPRSRTCPLCRQ 336 (416)
T ss_dssp ----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeee---cccccccc--cccccccCCCccc
Confidence 5677776666410 0012344789999865 46754332 1123667999976
No 135
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=32.16 E-value=42 Score=29.95 Aligned_cols=29 Identities=21% Similarity=0.531 Sum_probs=18.9
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIML 131 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q 131 (338)
...||.|.. .++.|++++++..||..+.+
T Consensus 40 ~LrCp~Cq~-----qsi~~s~a~~A~dmR~~I~~ 68 (148)
T PF03918_consen 40 ELRCPVCQN-----QSIADSNAPIARDMRREIRE 68 (148)
T ss_dssp CCE-TTTTS------CTTT--SHHHHHHHHHHHH
T ss_pred cccCCCCCC-----CchhhcCcHHHHHHHHHHHH
Confidence 357999954 35666779999999887744
No 136
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.11 E-value=38 Score=31.35 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=22.9
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHhhhh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAIMLT 132 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l~q~ 132 (338)
+|+||.|+..+---. +|+..+.|.+++.+.
T Consensus 132 ~F~Cp~Cg~~L~~~d-----~s~~i~~l~~~i~~l 161 (176)
T COG1675 132 GFTCPKCGEDLEEYD-----SSEEIEELESELDEL 161 (176)
T ss_pred CCCCCCCCchhhhcc-----chHHHHHHHHHHHHH
Confidence 578999999886543 378888888877654
No 137
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=32.01 E-value=34 Score=29.21 Aligned_cols=35 Identities=17% Similarity=0.274 Sum_probs=26.4
Q ss_pred cccccccccccccCCCeEEecCCCccCHHHHHHHHhcC
Q 019640 53 KCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSF 90 (338)
Q Consensus 53 ~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~ 90 (338)
.|.||.+++..|. .--..=.=..||+|+..-+...
T Consensus 4 kC~iCg~~I~~gq---lFTF~~kG~VH~~C~~~~~~~k 38 (101)
T PF09943_consen 4 KCYICGKPIYEGQ---LFTFTKKGPVHYECFREKASKK 38 (101)
T ss_pred EEEecCCeeeecc---eEEEecCCcEeHHHHHHHHhhh
Confidence 5999999998874 3333333688999999988654
No 138
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.97 E-value=25 Score=35.81 Aligned_cols=55 Identities=22% Similarity=0.388 Sum_probs=35.9
Q ss_pred CCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCC--CCCCCc
Q 019640 51 PPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCP--LCSTTI 108 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP--~Cr~~I 108 (338)
...|.||..+....+ ..-..+.|+|-|-.+|..++++..- ..-...+|| .|...+
T Consensus 146 ~~~C~iC~~e~~~~~-~~f~~~~C~H~fC~~C~k~~iev~~--~~~~~~~C~~~~C~~~l 202 (384)
T KOG1812|consen 146 KEECGICFVEDPEAE-DMFSVLKCGHRFCKDCVKQHIEVKL--LSGTVIRCPHDGCESRL 202 (384)
T ss_pred cccCccCccccccHh-hhHHHhcccchhhhHHhHHHhhhhh--ccCCCccCCCCCCCccC
Confidence 368999996655543 1233568999999999999998652 222344564 354444
No 139
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=31.56 E-value=37 Score=26.43 Aligned_cols=46 Identities=30% Similarity=0.738 Sum_probs=29.8
Q ss_pred CCcccccccccccccCCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 019640 51 PPKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCS 105 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr 105 (338)
++.|..|...|...+ ..++. +||.+.=+.|-.=--++ +.|+||.|.
T Consensus 7 ~~~CtSCg~~i~~~~--~~~~F~CPnCG~~~I~RC~~CRk~~-------~~Y~CP~CG 55 (59)
T PRK14890 7 PPKCTSCGIEIAPRE--KAVKFLCPNCGEVIIYRCEKCRKQS-------NPYTCPKCG 55 (59)
T ss_pred CccccCCCCcccCCC--ccCEeeCCCCCCeeEeechhHHhcC-------CceECCCCC
Confidence 367899988887653 34554 57877555565433322 368999996
No 140
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.04 E-value=28 Score=23.96 Aligned_cols=13 Identities=38% Similarity=0.723 Sum_probs=9.7
Q ss_pred ccccccccccccc
Q 019640 53 KCCQCQAVLEEES 65 (338)
Q Consensus 53 ~C~ICle~L~~gD 65 (338)
.|+-|...|.-.|
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5888888887654
No 141
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=30.88 E-value=26 Score=22.06 Aligned_cols=8 Identities=50% Similarity=1.389 Sum_probs=5.6
Q ss_pred CCCCCCCc
Q 019640 101 CPLCSTTI 108 (338)
Q Consensus 101 CP~Cr~~I 108 (338)
||.|.++|
T Consensus 16 C~~CG~~l 23 (23)
T PF13240_consen 16 CPNCGTPL 23 (23)
T ss_pred hhhhCCcC
Confidence 77777654
No 142
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.26 E-value=79 Score=32.49 Aligned_cols=86 Identities=21% Similarity=0.283 Sum_probs=55.9
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCC-CCCCC--CCCCccCCCCCCCCcchhHHHHHHH
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAG-YVCPL--CSTTIWPPKNVKDSGSRLHSLLKEA 128 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPag-y~CP~--Cr~~I~P~~~i~d~~Spl~~~Lre~ 128 (338)
..|.||.+.+.. +++++.|+|.|=..|...++..+-... +.. .+||. |...+-+. .+....++. ...++
T Consensus 71 ~~c~ic~~~~~~----~~~~~~c~H~~c~~cw~~yl~~kI~~~-~~~~i~cp~~~C~a~v~~~-~i~~~~s~~--~~~~k 142 (444)
T KOG1815|consen 71 VQCGICVESYDG----EIIGLGCGHPFCPPCWTGYLGTKIHEG-EEAKIKCPAHGCPALVGED-TVEKLVSDK--EDKEK 142 (444)
T ss_pred ccCCcccCCCcc----hhhhcCCCcHHHHHHHHHHhhheeecc-ccccccCCCCCccccCCCc-eeeeecCCH--HHHHH
Confidence 679999999755 388999999999999999997753221 222 45664 54444332 232233332 36666
Q ss_pred hhhhhhhhhhcCCCCCc
Q 019640 129 IMLTGLEKNLFGNHPVS 145 (338)
Q Consensus 129 l~q~~WAr~~lG~~l~~ 145 (338)
+...-+..++=++..+.
T Consensus 143 y~~~i~~syve~~~~lk 159 (444)
T KOG1815|consen 143 YQRYILRSYVEDNVPLK 159 (444)
T ss_pred HHHHHHHHHHhcCCccc
Confidence 66667777777776655
No 143
>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=29.76 E-value=42 Score=34.26 Aligned_cols=37 Identities=19% Similarity=0.411 Sum_probs=26.1
Q ss_pred cCCCccCHHHHHHHHhcCCCCCCC-----CCCCCCCCCCCcc
Q 019640 73 GCLHVIHTSCLVSHIKSFPPHTAP-----AGYVCPLCSTTIW 109 (338)
Q Consensus 73 ~C~HvFH~~CLd~WL~~~p~nTaP-----agy~CP~Cr~~I~ 109 (338)
.|.-..-.+|+-+|+.+...+..| +.-.||+||+..-
T Consensus 310 ~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 310 YCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred cccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 356677889999998776543332 3446999998753
No 144
>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 KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=29.53 E-value=35 Score=36.27 Aligned_cols=36 Identities=25% Similarity=0.482 Sum_probs=29.8
Q ss_pred CcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPP 92 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~ 92 (338)
-.|+||..-|+ +.+.|+|+|-.-..|...-+-+-|.
T Consensus 5 lkc~vc~~f~~-----epiil~c~h~lc~~ca~~~~~~tp~ 40 (699)
T KOG4367|consen 5 LKCPVCGSFYR-----EPIILPCSHNLCQACARNILVQTPE 40 (699)
T ss_pred ccCceehhhcc-----CceEeecccHHHHHHHHhhcccCCC
Confidence 67999998874 4899999999999999877766543
No 146
>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=29.46 E-value=26 Score=23.48 Aligned_cols=9 Identities=44% Similarity=1.516 Sum_probs=6.9
Q ss_pred CCCCCCCCC
Q 019640 99 YVCPLCSTT 107 (338)
Q Consensus 99 y~CP~Cr~~ 107 (338)
..||+|+.+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 569999763
No 147
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=28.85 E-value=91 Score=22.06 Aligned_cols=23 Identities=22% Similarity=0.605 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 019640 303 ILLLIAIMACMATMGILYYRLSQ 325 (338)
Q Consensus 303 ill~~a~~sc~~Tm~llY~rla~ 325 (338)
.+-++|+++|+.++.+||..+.+
T Consensus 8 ~~s~~ai~~~l~~~p~i~~~i~~ 30 (53)
T PF01484_consen 8 VVSTVAILSCLITVPSIYNDIQN 30 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35578888999999999998764
No 148
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.03 E-value=98 Score=30.74 Aligned_cols=50 Identities=18% Similarity=0.204 Sum_probs=34.9
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPPKN 113 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~~~ 113 (338)
-.|+|=.-+|..-- .-..| .|||||-..-|.+.=.+ .|++|..+.--.+-
T Consensus 112 fiCPvtgleMng~~--~F~~l~~CGcV~SerAlKeikas----------~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 112 FICPVTGLEMNGKY--RFCALRCCGCVFSERALKEIKAS----------VCHVCGAAYQEDDV 162 (293)
T ss_pred eecccccceecceE--EEEEEeccceeccHHHHHHhhhc----------cccccCCcccccCe
Confidence 56888777764431 23333 89999999998876543 49999998765443
No 149
>PF02566 OsmC: OsmC-like protein; InterPro: IPR003718 Osmotically inducible protein C (OsmC) is a stress-induced protein found in Escherichia coli. The transcription of the osmC gene of E. coli is regulated as a function of the phase of growth and is induced during the late exponential phase when the growth rate slows before entry into stationary phase. The transcription is initiated by two overlapping promoters, osmCp1 and osmCp2 []. An organic hydroperoxide detoxification protein (OHR) from Xanthomonas campestris pv. phaseoli is highly induced by organic hydroperoxides, weakly induced by H2O2, and not induced at all by a superoxide generator. Ohr may be a new type of organic hydroperoxide detoxification protein [, ].; GO: 0006950 response to stress; PDB: 2D7V_A 2BJO_A 1USP_A 2PN2_A 2QL8_A 1N2F_A 1UKK_A 1VLA_D 3CJE_A 2ONF_B ....
Probab=26.94 E-value=78 Score=24.64 Aligned_cols=27 Identities=26% Similarity=0.401 Sum_probs=18.9
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHh
Q 019640 297 RTDPRKILLLIAIMACMATMGILYYRLS 324 (338)
Q Consensus 297 ~~dprkill~~a~~sc~~Tm~llY~rla 324 (338)
.++|-- ||+.|+-+|+++.+..|..-.
T Consensus 5 ~~~P~e-lllaala~C~~~~~~~~a~~~ 31 (100)
T PF02566_consen 5 GPNPEE-LLLAALASCFAMTLRMVAEKR 31 (100)
T ss_dssp SB-HHH-HHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCHHH-HHHHHHHHHHHHHHHHHHHHc
Confidence 355655 567899999998888776543
No 150
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.84 E-value=34 Score=31.90 Aligned_cols=16 Identities=25% Similarity=0.758 Sum_probs=13.6
Q ss_pred CCCCCCCCCCCccCCC
Q 019640 97 AGYVCPLCSTTIWPPK 112 (338)
Q Consensus 97 agy~CP~Cr~~I~P~~ 112 (338)
+|++||+|.+.+.+++
T Consensus 137 ~g~KCPvC~K~V~sDd 152 (205)
T KOG0801|consen 137 SGMKCPVCHKVVPSDD 152 (205)
T ss_pred CCccCCccccccCCCc
Confidence 5899999999887764
No 151
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=25.83 E-value=39 Score=35.54 Aligned_cols=43 Identities=28% Similarity=0.684 Sum_probs=31.8
Q ss_pred CCcccccccccccccC-CCeEEecCC-CccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc
Q 019640 51 PPKCCQCQAVLEEESG-SETTRLGCL-HVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIW 109 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~-~evvRL~C~-HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~ 109 (338)
.+.|++|.+++...|+ +++||..|. --||.+| |+|=-|+..+-
T Consensus 394 APrCs~C~~PI~P~~G~~etvRvvamdr~fHv~C----------------Y~CEDCg~~LS 438 (468)
T KOG1701|consen 394 APRCSVCGNPILPRDGKDETVRVVAMDRDFHVNC----------------YKCEDCGLLLS 438 (468)
T ss_pred CcchhhccCCccCCCCCcceEEEEEccccccccc----------------eehhhcCcccc
Confidence 4999999999986555 458998775 5688777 44777776554
No 152
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=25.43 E-value=58 Score=29.71 Aligned_cols=27 Identities=22% Similarity=0.567 Sum_probs=21.0
Q ss_pred CCCCCCCCCCccCCCCCCCCcchhHHHHHHHh
Q 019640 98 GYVCPLCSTTIWPPKNVKDSGSRLHSLLKEAI 129 (338)
Q Consensus 98 gy~CP~Cr~~I~P~~~i~d~~Spl~~~Lre~l 129 (338)
...||.|. ..+|.|++++++--||..+
T Consensus 44 ~LRCp~CQ-----NqsIadSnA~IA~DlR~~V 70 (153)
T COG3088 44 ELRCPQCQ-----NQSIADSNAPIARDLRHQV 70 (153)
T ss_pred hcCCCcCC-----CCChhhhccHHHHHHHHHH
Confidence 45799994 4568888899998887755
No 153
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=25.21 E-value=38 Score=32.67 Aligned_cols=46 Identities=22% Similarity=0.702 Sum_probs=34.7
Q ss_pred CcccccccccccccCCCeEEe-cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC
Q 019640 52 PKCCQCQAVLEEESGSETTRL-GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWPP 111 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL-~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P~ 111 (338)
-+|.+|..-+-. .+|- .|+=-+|..|+..++++.+ .||.|.. .||.
T Consensus 182 k~Cn~Ch~LvIq-----g~rCg~c~i~~h~~c~qty~q~~~--------~cphc~d-~w~h 228 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ-----GIRCGSCNIQYHRGCIQTYLQRRD--------ICPHCGD-LWTH 228 (235)
T ss_pred HHHhHhHHHhhe-----eeccCcccchhhhHHHHHHhcccC--------cCCchhc-ccCc
Confidence 579999877644 2343 6888899999999999864 4999964 5654
No 154
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=25.06 E-value=24 Score=41.36 Aligned_cols=62 Identities=18% Similarity=0.338 Sum_probs=44.8
Q ss_pred ceeeeecccccccCCCCCCCcccccccccccccCCCeEEecCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCc
Q 019640 33 ICVVRTYSEWVIDGEYDWPPKCCQCQAVLEEESGSETTRLGCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTI 108 (338)
Q Consensus 33 ~CvVqsYlqWL~Dsdyd~~~~C~ICle~L~~gD~~evvRL~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I 108 (338)
.|-.++=+-++.+-.-. ..|.+|++.+.+- -.+-.|||-+--.|+..|+... -.||+|....
T Consensus 1137 i~~~es~~~y~~~~~~~--~~c~ic~dil~~~----~~I~~cgh~~c~~c~~~~l~~~--------s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1137 IAQTESDVRYLMNLSGH--FVCEICLDILRNQ----GGIAGCGHEPCCRCDELWLYAS--------SRCPICKSIK 1198 (1394)
T ss_pred cCCccchHHHHHHhhcc--cchHHHHHHHHhc----CCeeeechhHhhhHHHHHHHHh--------ccCcchhhhh
Confidence 44444444455444333 6899999999752 4566899999999999999875 3599998544
No 155
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=24.63 E-value=45 Score=24.79 Aligned_cols=12 Identities=42% Similarity=1.309 Sum_probs=9.6
Q ss_pred CCCCCCCCCCCC
Q 019640 96 PAGYVCPLCSTT 107 (338)
Q Consensus 96 Pagy~CP~Cr~~ 107 (338)
|..++||+|+.+
T Consensus 32 p~~w~CP~C~a~ 43 (50)
T cd00730 32 PDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCCc
Confidence 567899999753
No 156
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=24.49 E-value=47 Score=21.14 Aligned_cols=8 Identities=38% Similarity=1.310 Sum_probs=5.4
Q ss_pred CCCCCCCc
Q 019640 101 CPLCSTTI 108 (338)
Q Consensus 101 CP~Cr~~I 108 (338)
||.|.++|
T Consensus 19 C~~CG~~L 26 (26)
T PF13248_consen 19 CPNCGAKL 26 (26)
T ss_pred ChhhCCCC
Confidence 77776654
No 157
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=24.06 E-value=37 Score=38.41 Aligned_cols=56 Identities=9% Similarity=0.111 Sum_probs=39.6
Q ss_pred CcccccccccccccCCCeEEe---cCCCccCHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC
Q 019640 52 PKCCQCQAVLEEESGSETTRL---GCLHVIHTSCLVSHIKSFPPHTAPAGYVCPLCSTTIWP 110 (338)
Q Consensus 52 ~~C~ICle~L~~gD~~evvRL---~C~HvFH~~CLd~WL~~~p~nTaPagy~CP~Cr~~I~P 110 (338)
..|.+|..++...+ ...-.+ .|+|-|-..||..|+.+.-. ++..-.|+.|...|.-
T Consensus 97 ~Ss~~C~~E~S~~~-ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~--~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDV-DSSNICPVQTHVENQCPNCLKSCNDQLEE--SEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccchhheecCCcc-cccCcCchhhhhhhhhhHHHHHHHHHhhc--cccccccccHHHHhhh
Confidence 67889988887733 122233 49999999999999877632 3344468888877753
No 158
>PRK00420 hypothetical protein; Validated
Probab=23.87 E-value=47 Score=28.70 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=10.8
Q ss_pred CCccccccccccc
Q 019640 51 PPKCCQCQAVLEE 63 (338)
Q Consensus 51 ~~~C~ICle~L~~ 63 (338)
...|++|..+|..
T Consensus 23 ~~~CP~Cg~pLf~ 35 (112)
T PRK00420 23 SKHCPVCGLPLFE 35 (112)
T ss_pred cCCCCCCCCccee
Confidence 3789999999875
No 159
>PF15353 HECA: Headcase protein family homologue
Probab=23.55 E-value=55 Score=28.25 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=17.0
Q ss_pred CeEEecC-------CCccCHHHHHHHHhc
Q 019640 68 ETTRLGC-------LHVIHTSCLVSHIKS 89 (338)
Q Consensus 68 evvRL~C-------~HvFH~~CLd~WL~~ 89 (338)
+.|++.| ++.+|.+|.+.|=.+
T Consensus 27 d~vkv~Cnne~Cp~~~~MH~~CF~~wE~~ 55 (107)
T PF15353_consen 27 DGVKVICNNESCPFGQYMHRECFEKWEDS 55 (107)
T ss_pred ccEEEEeCCCCCCCCCchHHHHHHHHHHH
Confidence 5777643 689999999999543
No 160
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=23.23 E-value=1.5e+02 Score=25.79 Aligned_cols=29 Identities=24% Similarity=0.417 Sum_probs=21.3
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 019640 294 RPSRTDPRKILLLIAIMACMATMGILYYR 322 (338)
Q Consensus 294 r~~~~dprkill~~a~~sc~~Tm~llY~r 322 (338)
+..++.||-.+++|++++.+..++.+.|.
T Consensus 3 PnrSLs~~g~~~~~~~~~~~~~~~a~~f~ 31 (140)
T PF10003_consen 3 PNRSLSPRGFLIFIAILAAVSLIIAIAFL 31 (140)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44568999999999998877665555443
No 161
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=22.91 E-value=43 Score=23.01 Aligned_cols=28 Identities=25% Similarity=0.490 Sum_probs=16.7
Q ss_pred CcccccccccccccC-----CCeEEe-cCCCccC
Q 019640 52 PKCCQCQAVLEEESG-----SETTRL-GCLHVIH 79 (338)
Q Consensus 52 ~~C~ICle~L~~gD~-----~evvRL-~C~HvFH 79 (338)
-.|+-|...|.-.|. +..+|= .|+|+|+
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 358999988876541 112332 4777775
No 162
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=21.59 E-value=1.1e+02 Score=31.45 Aligned_cols=74 Identities=22% Similarity=0.391 Sum_probs=48.3
Q ss_pred eeecccccccCCC-CCCCccccccccc---------------ccccCCCeEEe-cCCCccCHHHHHHHHhcC-CCCCCCC
Q 019640 36 VRTYSEWVIDGEY-DWPPKCCQCQAVL---------------EEESGSETTRL-GCLHVIHTSCLVSHIKSF-PPHTAPA 97 (338)
Q Consensus 36 VqsYlqWL~Dsdy-d~~~~C~ICle~L---------------~~gD~~evvRL-~C~HvFH~~CLd~WL~~~-p~nTaPa 97 (338)
|+-|-+|=.+.+- ...-.|++|+..= +.|- ..-.. +|||+--..=..-|-+-- |.-|.-.
T Consensus 325 V~G~H~WG~~e~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~--pthaF~PCGHv~sekt~~YWs~iplPhGT~~f 402 (429)
T KOG3842|consen 325 VHGYHNWGVRENTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGP--PTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAF 402 (429)
T ss_pred cccccccccccccCcccCcCCeeeeecceeeeeccccceeEecCCC--cccccCCcccccchhhhhHhhcCcCCCccccc
Confidence 6778888765543 2347899998641 1121 12233 799999999999997543 3334445
Q ss_pred CCCCCCCCCCccCC
Q 019640 98 GYVCPLCSTTIWPP 111 (338)
Q Consensus 98 gy~CP~Cr~~I~P~ 111 (338)
+-.||.|.+.+.-.
T Consensus 403 ~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 403 HAACPFCATQLAGE 416 (429)
T ss_pred cccCcchhhhhccC
Confidence 66799998877543
No 163
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=21.50 E-value=47 Score=24.45 Aligned_cols=12 Identities=42% Similarity=1.342 Sum_probs=7.2
Q ss_pred CCCCCCCCCCCC
Q 019640 96 PAGYVCPLCSTT 107 (338)
Q Consensus 96 Pagy~CP~Cr~~ 107 (338)
|..++||.|..+
T Consensus 32 p~~w~CP~C~a~ 43 (47)
T PF00301_consen 32 PDDWVCPVCGAP 43 (47)
T ss_dssp -TT-B-TTTSSB
T ss_pred CCCCcCcCCCCc
Confidence 567899999764
No 164
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.42 E-value=72 Score=32.18 Aligned_cols=69 Identities=28% Similarity=0.370 Sum_probs=44.6
Q ss_pred CCcccccccccccccCCCeEEec--CCCccCHHHHHHHHhcCCCCC---CCCCCCCCCCCCCccCCCCCCCCcchhHHHH
Q 019640 51 PPKCCQCQAVLEEESGSETTRLG--CLHVIHTSCLVSHIKSFPPHT---APAGYVCPLCSTTIWPPKNVKDSGSRLHSLL 125 (338)
Q Consensus 51 ~~~C~ICle~L~~gD~~evvRL~--C~HvFH~~CLd~WL~~~p~nT---aPagy~CP~Cr~~I~P~~~i~d~~Spl~~~L 125 (338)
+-.|.+|.|.|++.. -|.-+ =.|-|-.-|-.+.++.+-... .|.|-+||+= -+++ |
T Consensus 268 pLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLv------gS~v-----P----- 328 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLV------GSNV-----P----- 328 (352)
T ss_pred ceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCccc------CCcc-----c-----
Confidence 467999999997743 44432 479999999999998874321 1444455443 2222 2
Q ss_pred HHHhhhhhhhhhhc
Q 019640 126 KEAIMLTGLEKNLF 139 (338)
Q Consensus 126 re~l~q~~WAr~~l 139 (338)
++|+|-+.|--+-
T Consensus 329 -WAFMQGEIatILa 341 (352)
T KOG3579|consen 329 -WAFMQGEIATILA 341 (352)
T ss_pred -HHHhhhhHHHHhc
Confidence 6777777765433
Done!