Query 019980
Match_columns 333
No_of_seqs 225 out of 1619
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 06:04:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2.5E-17 5.3E-22 160.9 5.3 79 248-332 203-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 2.8E-15 6.2E-20 104.9 2.2 42 283-324 3-44 (44)
3 COG5540 RING-finger-containing 99.4 4E-13 8.8E-18 128.4 3.7 51 280-330 323-374 (374)
4 PHA02929 N1R/p28-like protein; 99.3 1.3E-12 2.8E-17 122.6 4.4 77 249-329 147-228 (238)
5 PF12678 zf-rbx1: RING-H2 zinc 99.3 3.1E-12 6.7E-17 99.4 4.2 42 283-324 22-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 1.2E-11 2.6E-16 121.1 3.2 48 281-328 288-345 (491)
7 cd00162 RING RING-finger (Real 99.1 1.4E-10 3E-15 78.7 3.7 43 283-327 2-45 (45)
8 KOG0317 Predicted E3 ubiquitin 99.0 9.9E-11 2.1E-15 111.5 3.0 49 280-331 239-287 (293)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.5E-10 3.1E-15 83.2 3.1 45 281-328 3-48 (50)
10 PLN03208 E3 ubiquitin-protein 99.0 2.2E-10 4.9E-15 104.2 4.2 48 280-330 18-81 (193)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 3.8E-10 8.2E-15 77.2 3.2 39 283-323 1-39 (39)
12 KOG0823 Predicted E3 ubiquitin 99.0 3.1E-10 6.8E-15 105.2 3.2 48 280-330 47-97 (230)
13 PF12861 zf-Apc11: Anaphase-pr 98.9 1.2E-09 2.6E-14 87.5 3.6 47 282-328 23-82 (85)
14 smart00504 Ubox Modified RING 98.9 1.8E-09 3.9E-14 80.0 4.3 46 281-329 2-47 (63)
15 KOG0802 E3 ubiquitin ligase [P 98.9 6.9E-10 1.5E-14 115.1 2.5 49 280-328 291-341 (543)
16 KOG0320 Predicted E3 ubiquitin 98.9 1.5E-09 3.3E-14 97.3 3.6 47 281-329 132-179 (187)
17 PHA02926 zinc finger-like prot 98.8 1.7E-09 3.7E-14 100.2 3.7 48 281-328 171-230 (242)
18 PF14634 zf-RING_5: zinc-RING 98.8 3.4E-09 7.3E-14 74.4 3.3 43 283-325 2-44 (44)
19 PF15227 zf-C3HC4_4: zinc fing 98.8 3.5E-09 7.5E-14 74.1 2.9 38 283-323 1-42 (42)
20 smart00184 RING Ring finger. E 98.8 6.8E-09 1.5E-13 67.9 3.7 38 283-323 1-39 (39)
21 COG5194 APC11 Component of SCF 98.8 4.2E-09 9E-14 83.1 2.9 46 283-328 23-81 (88)
22 PF00097 zf-C3HC4: Zinc finger 98.8 4.9E-09 1.1E-13 71.8 2.6 39 283-323 1-41 (41)
23 TIGR00599 rad18 DNA repair pro 98.7 7.8E-09 1.7E-13 103.5 3.4 46 281-329 27-72 (397)
24 KOG2930 SCF ubiquitin ligase, 98.6 7E-09 1.5E-13 85.5 0.9 45 283-327 49-107 (114)
25 KOG0828 Predicted E3 ubiquitin 98.6 1.3E-08 2.7E-13 103.1 1.9 49 281-329 572-635 (636)
26 KOG0287 Postreplication repair 98.5 2.3E-08 4.9E-13 97.4 1.5 47 281-330 24-70 (442)
27 KOG1493 Anaphase-promoting com 98.5 3.8E-08 8.2E-13 77.2 0.9 47 282-328 22-81 (84)
28 COG5574 PEX10 RING-finger-cont 98.5 7.8E-08 1.7E-12 91.0 2.6 49 279-330 214-264 (271)
29 smart00744 RINGv The RING-vari 98.4 2.3E-07 5E-12 67.0 3.3 41 283-324 2-49 (49)
30 KOG2164 Predicted E3 ubiquitin 98.4 1.4E-07 3E-12 96.1 2.9 44 283-329 189-237 (513)
31 PF04564 U-box: U-box domain; 98.4 2E-07 4.4E-12 72.2 2.5 46 281-329 5-51 (73)
32 KOG1734 Predicted RING-contain 98.4 1E-07 2.2E-12 90.5 0.7 48 281-328 225-281 (328)
33 COG5219 Uncharacterized conser 98.3 1.3E-07 2.8E-12 101.5 1.0 49 280-328 1469-1523(1525)
34 COG5432 RAD18 RING-finger-cont 98.3 2.4E-07 5.2E-12 88.9 2.2 45 281-328 26-70 (391)
35 KOG2177 Predicted E3 ubiquitin 98.3 2.7E-07 5.7E-12 83.4 1.7 43 280-325 13-55 (386)
36 PF13445 zf-RING_UBOX: RING-ty 98.2 9.3E-07 2E-11 62.4 3.1 38 283-321 1-43 (43)
37 PF11793 FANCL_C: FANCL C-term 98.2 2E-07 4.3E-12 72.0 -0.4 49 282-330 4-68 (70)
38 KOG0804 Cytoplasmic Zn-finger 98.1 2.1E-06 4.6E-11 86.4 4.1 50 278-329 173-223 (493)
39 KOG4445 Uncharacterized conser 98.0 1.6E-06 3.4E-11 83.6 1.1 50 281-330 116-188 (368)
40 KOG1039 Predicted E3 ubiquitin 98.0 3.5E-06 7.5E-11 83.3 2.5 49 280-328 161-221 (344)
41 KOG4265 Predicted E3 ubiquitin 97.9 6.8E-06 1.5E-10 80.8 3.0 46 280-328 290-336 (349)
42 KOG0825 PHD Zn-finger protein 97.8 4.9E-06 1.1E-10 88.3 -0.4 49 280-328 123-171 (1134)
43 KOG0311 Predicted E3 ubiquitin 97.8 3.5E-06 7.5E-11 82.8 -1.5 45 283-330 46-92 (381)
44 PF14835 zf-RING_6: zf-RING of 97.7 9.7E-06 2.1E-10 61.8 -0.0 44 281-328 8-51 (65)
45 KOG0978 E3 ubiquitin ligase in 97.5 2.7E-05 5.8E-10 82.8 0.7 48 281-331 644-692 (698)
46 KOG4172 Predicted E3 ubiquitin 97.4 2.5E-05 5.4E-10 57.9 -0.4 44 282-328 9-54 (62)
47 KOG1428 Inhibitor of type V ad 97.4 0.00011 2.4E-09 82.2 3.5 72 253-329 3464-3545(3738)
48 KOG4159 Predicted E3 ubiquitin 97.4 9E-05 1.9E-09 74.7 2.3 46 280-328 84-129 (398)
49 PF11789 zf-Nse: Zinc-finger o 97.3 0.00011 2.3E-09 54.8 1.9 40 281-322 12-53 (57)
50 KOG1941 Acetylcholine receptor 97.3 6.8E-05 1.5E-09 74.8 0.9 49 280-328 365-416 (518)
51 KOG0297 TNF receptor-associate 97.2 0.00016 3.5E-09 72.7 1.7 48 281-330 22-69 (391)
52 COG5152 Uncharacterized conser 97.1 0.00017 3.7E-09 66.4 1.0 45 280-327 196-240 (259)
53 KOG2660 Locus-specific chromos 97.1 0.00013 2.8E-09 71.3 0.0 46 282-329 17-62 (331)
54 KOG4692 Predicted E3 ubiquitin 97.1 0.00023 5E-09 70.3 1.7 48 279-329 421-468 (489)
55 KOG1813 Predicted E3 ubiquitin 97.0 0.00024 5.2E-09 68.6 1.0 49 279-330 240-288 (313)
56 KOG1785 Tyrosine kinase negati 97.0 0.00031 6.7E-09 70.4 1.4 46 281-329 370-417 (563)
57 KOG3970 Predicted E3 ubiquitin 96.9 0.00079 1.7E-08 63.1 3.1 49 283-332 53-109 (299)
58 KOG2879 Predicted E3 ubiquitin 96.8 0.00095 2.1E-08 64.0 3.5 47 280-328 239-287 (298)
59 PF12906 RINGv: RING-variant d 96.5 0.0015 3.3E-08 46.7 1.9 40 283-323 1-47 (47)
60 KOG0801 Predicted E3 ubiquitin 96.4 0.00096 2.1E-08 59.7 0.7 27 281-307 178-204 (205)
61 PF10367 Vps39_2: Vacuolar sor 96.4 0.0014 3E-08 52.9 1.1 28 283-311 81-108 (109)
62 PHA03096 p28-like protein; Pro 96.4 0.0017 3.6E-08 63.0 1.8 45 283-327 181-236 (284)
63 KOG0827 Predicted E3 ubiquitin 96.3 0.00017 3.7E-09 71.9 -5.2 50 281-330 197-247 (465)
64 KOG1814 Predicted E3 ubiquitin 96.3 0.0021 4.5E-08 64.7 2.3 45 281-325 185-237 (445)
65 PF05883 Baculo_RING: Baculovi 96.2 0.003 6.5E-08 54.8 2.2 39 283-321 29-73 (134)
66 KOG3039 Uncharacterized conser 96.1 0.0054 1.2E-07 58.3 3.7 51 279-329 220-271 (303)
67 PF14570 zf-RING_4: RING/Ubox 96.1 0.0038 8.3E-08 45.2 2.1 45 283-327 1-47 (48)
68 PF14447 Prok-RING_4: Prokaryo 96.1 0.0029 6.3E-08 47.0 1.4 44 283-331 10-53 (55)
69 KOG1002 Nucleotide excision re 96.0 0.0022 4.8E-08 66.4 0.7 48 279-329 535-587 (791)
70 COG5236 Uncharacterized conser 96.0 0.005 1.1E-07 61.0 3.0 44 281-327 62-107 (493)
71 KOG3268 Predicted E3 ubiquitin 95.9 0.005 1.1E-07 56.0 2.6 49 282-330 167-230 (234)
72 KOG1952 Transcription factor N 95.9 0.0045 9.8E-08 67.0 2.6 46 281-326 192-245 (950)
73 KOG1571 Predicted E3 ubiquitin 95.9 0.0039 8.6E-08 61.7 1.8 43 280-328 305-347 (355)
74 KOG4275 Predicted E3 ubiquitin 95.8 0.0021 4.6E-08 62.2 -0.3 41 281-328 301-342 (350)
75 PF04641 Rtf2: Rtf2 RING-finge 95.8 0.01 2.2E-07 56.5 4.0 50 279-329 112-162 (260)
76 PHA02825 LAP/PHD finger-like p 95.7 0.0083 1.8E-07 53.5 2.9 45 280-328 8-59 (162)
77 KOG2114 Vacuolar assembly/sort 95.7 0.0051 1.1E-07 66.6 1.8 43 281-328 841-883 (933)
78 PHA02862 5L protein; Provision 95.6 0.0096 2.1E-07 52.4 2.9 45 282-328 4-53 (156)
79 COG5222 Uncharacterized conser 95.5 0.011 2.5E-07 57.5 3.2 42 281-325 275-318 (427)
80 KOG1940 Zn-finger protein [Gen 95.2 0.0092 2E-07 57.6 1.8 43 283-325 161-204 (276)
81 PF08746 zf-RING-like: RING-li 95.1 0.011 2.4E-07 41.5 1.4 41 283-323 1-43 (43)
82 PF03854 zf-P11: P-11 zinc fin 95.0 0.0085 1.8E-07 43.3 0.7 43 283-330 5-48 (50)
83 KOG3002 Zn finger protein [Gen 95.0 0.014 3.1E-07 57.0 2.4 42 280-328 48-91 (299)
84 KOG2034 Vacuolar sorting prote 94.6 0.019 4E-07 62.7 2.1 31 283-314 820-850 (911)
85 KOG0826 Predicted E3 ubiquitin 93.9 0.041 8.8E-07 54.2 2.8 45 280-327 300-345 (357)
86 KOG2932 E3 ubiquitin ligase in 93.7 0.026 5.7E-07 55.3 1.1 42 282-327 92-133 (389)
87 KOG1001 Helicase-like transcri 93.7 0.028 6.1E-07 60.5 1.3 43 282-328 456-500 (674)
88 KOG0298 DEAD box-containing he 93.0 0.03 6.4E-07 63.2 0.2 44 280-326 1153-1197(1394)
89 PF10272 Tmpp129: Putative tra 92.9 0.15 3.2E-06 51.1 4.9 28 301-328 311-351 (358)
90 KOG1100 Predicted E3 ubiquitin 92.6 0.056 1.2E-06 50.2 1.5 41 283-330 161-202 (207)
91 KOG2817 Predicted E3 ubiquitin 92.6 0.13 2.7E-06 51.9 4.0 49 281-329 335-386 (394)
92 COG5175 MOT2 Transcriptional r 92.5 0.081 1.7E-06 52.6 2.4 47 283-329 17-65 (480)
93 COG5220 TFB3 Cdk activating ki 91.6 0.066 1.4E-06 50.9 0.7 49 280-328 10-64 (314)
94 PF14446 Prok-RING_1: Prokaryo 91.6 0.18 4E-06 37.4 2.9 41 282-326 7-50 (54)
95 KOG4362 Transcriptional regula 91.6 0.042 9.1E-07 58.8 -0.7 45 282-329 23-70 (684)
96 PF04931 DNA_pol_phi: DNA poly 91.2 0.48 1E-05 51.8 6.8 17 229-245 725-741 (784)
97 PF07800 DUF1644: Protein of u 91.1 0.25 5.3E-06 44.3 3.7 12 319-330 82-93 (162)
98 KOG1609 Protein involved in mR 90.9 0.11 2.3E-06 49.5 1.3 48 281-328 79-134 (323)
99 PF10446 DUF2457: Protein of u 90.8 0.2 4.3E-06 51.3 3.1 10 152-161 106-115 (458)
100 KOG0309 Conserved WD40 repeat- 90.4 0.15 3.2E-06 55.2 1.9 39 283-322 1031-1069(1081)
101 KOG0825 PHD Zn-finger protein 90.2 0.11 2.4E-06 56.3 0.8 52 280-331 96-157 (1134)
102 KOG3161 Predicted E3 ubiquitin 89.4 0.12 2.6E-06 55.0 0.3 43 282-327 13-56 (861)
103 KOG1829 Uncharacterized conser 89.3 0.12 2.6E-06 54.6 0.3 42 281-325 512-558 (580)
104 KOG3899 Uncharacterized conser 89.3 0.2 4.3E-06 49.0 1.7 28 301-328 325-365 (381)
105 COG5183 SSM4 Protein involved 89.1 0.26 5.7E-06 53.7 2.6 47 281-328 13-66 (1175)
106 PF05290 Baculo_IE-1: Baculovi 89.0 0.33 7.1E-06 42.4 2.6 47 282-331 82-135 (140)
107 KOG3053 Uncharacterized conser 88.8 0.24 5.3E-06 47.5 1.9 49 279-327 19-81 (293)
108 KOG1812 Predicted E3 ubiquitin 86.7 0.26 5.7E-06 49.7 0.8 37 281-317 147-184 (384)
109 PF04931 DNA_pol_phi: DNA poly 86.6 0.49 1.1E-05 51.7 2.9 20 226-245 727-748 (784)
110 KOG1832 HIV-1 Vpr-binding prot 86.2 0.66 1.4E-05 51.4 3.5 9 80-88 1380-1388(1516)
111 PF02891 zf-MIZ: MIZ/SP-RING z 84.8 1 2.2E-05 32.6 2.9 42 282-326 4-50 (50)
112 KOG0802 E3 ubiquitin ligase [P 84.7 0.45 9.8E-06 49.9 1.5 41 281-328 480-520 (543)
113 KOG0269 WD40 repeat-containing 83.8 0.88 1.9E-05 49.4 3.1 40 281-322 780-820 (839)
114 PF13901 DUF4206: Domain of un 83.7 0.71 1.5E-05 42.5 2.1 38 282-325 154-197 (202)
115 KOG4718 Non-SMC (structural ma 83.1 0.6 1.3E-05 43.7 1.4 41 282-324 183-223 (235)
116 KOG2066 Vacuolar assembly/sort 80.6 0.73 1.6E-05 50.2 1.1 44 282-326 786-833 (846)
117 KOG3005 GIY-YIG type nuclease 80.5 0.85 1.8E-05 44.0 1.4 47 281-327 183-242 (276)
118 KOG1812 Predicted E3 ubiquitin 80.0 0.99 2.2E-05 45.6 1.8 42 283-324 309-352 (384)
119 smart00132 LIM Zinc-binding do 79.8 1.5 3.3E-05 28.3 2.1 37 283-328 2-38 (39)
120 KOG3113 Uncharacterized conser 77.7 3.5 7.5E-05 39.8 4.5 49 279-329 110-159 (293)
121 KOG2068 MOT2 transcription fac 76.5 2.2 4.8E-05 42.3 3.0 50 281-330 250-300 (327)
122 KOG1815 Predicted E3 ubiquitin 75.9 1.4 3.1E-05 45.1 1.6 34 282-317 72-105 (444)
123 KOG1832 HIV-1 Vpr-binding prot 74.4 3.7 7.9E-05 45.9 4.2 9 61-69 1351-1359(1516)
124 KOG3579 Predicted E3 ubiquitin 73.5 1.9 4.2E-05 42.1 1.7 38 279-317 267-306 (352)
125 KOG3039 Uncharacterized conser 72.8 1.6 3.4E-05 41.9 0.9 31 283-316 46-76 (303)
126 smart00249 PHD PHD zinc finger 71.1 2.6 5.7E-05 28.0 1.5 30 283-312 2-31 (47)
127 PF00628 PHD: PHD-finger; Int 62.7 3.3 7E-05 29.1 0.6 43 283-325 2-50 (51)
128 COG5109 Uncharacterized conser 61.7 9.4 0.0002 38.0 3.8 45 281-325 337-384 (396)
129 PF00412 LIM: LIM domain; Int 60.9 4.5 9.9E-05 28.7 1.1 39 283-330 1-39 (58)
130 KOG2807 RNA polymerase II tran 58.8 9.3 0.0002 38.2 3.2 44 282-325 332-375 (378)
131 KOG2113 Predicted RNA binding 58.6 3.8 8.2E-05 40.7 0.5 43 283-328 139-183 (394)
132 PF04423 Rad50_zn_hook: Rad50 57.4 3.7 8E-05 29.7 0.2 10 319-328 22-31 (54)
133 KOG1245 Chromatin remodeling c 57.1 3.7 7.9E-05 48.0 0.1 47 281-327 1109-1159(1404)
134 KOG3842 Adaptor protein Pellin 56.1 10 0.00022 37.8 3.0 51 280-330 341-416 (429)
135 KOG4577 Transcription factor L 54.4 3.4 7.3E-05 40.6 -0.6 40 282-330 94-133 (383)
136 COG4847 Uncharacterized protei 54.1 12 0.00027 30.9 2.7 36 280-316 6-41 (103)
137 PF04147 Nop14: Nop14-like fam 53.7 14 0.00031 41.1 4.0 19 64-82 272-290 (840)
138 KOG2113 Predicted RNA binding 53.4 11 0.00024 37.5 2.7 44 280-328 343-387 (394)
139 PF04710 Pellino: Pellino; In 52.9 4.5 9.8E-05 41.2 0.0 32 298-329 362-402 (416)
140 PF07649 C1_3: C1-like domain; 52.1 10 0.00022 24.2 1.6 29 282-310 2-30 (30)
141 KOG2169 Zn-finger transcriptio 51.6 15 0.00032 39.7 3.6 43 279-328 305-356 (636)
142 PF07975 C1_4: TFIIH C1-like d 51.1 9.1 0.0002 28.1 1.3 42 283-324 2-50 (51)
143 PF04147 Nop14: Nop14-like fam 51.0 40 0.00088 37.6 6.9 10 180-189 427-436 (840)
144 PF10571 UPF0547: Uncharacteri 49.6 8 0.00017 24.4 0.7 13 318-330 1-13 (26)
145 PF04216 FdhE: Protein involve 48.9 1.7 3.6E-05 41.9 -3.7 44 283-326 175-220 (290)
146 COG3076 Uncharacterized protei 48.7 18 0.00039 30.9 2.9 43 59-108 73-115 (135)
147 KOG4185 Predicted E3 ubiquitin 48.4 3.2 6.8E-05 39.7 -1.9 46 281-326 208-265 (296)
148 PF04710 Pellino: Pellino; In 47.6 6.2 0.00013 40.2 0.0 28 296-326 304-337 (416)
149 PF10497 zf-4CXXC_R1: Zinc-fin 47.5 24 0.00051 29.4 3.5 24 302-325 37-69 (105)
150 PF06844 DUF1244: Protein of u 47.3 12 0.00025 29.1 1.4 11 305-315 12-22 (68)
151 KOG1815 Predicted E3 ubiquitin 47.1 12 0.00026 38.3 2.0 35 297-331 180-240 (444)
152 KOG0824 Predicted E3 ubiquitin 47.0 5.2 0.00011 39.4 -0.6 45 283-329 108-152 (324)
153 KOG1729 FYVE finger containing 46.5 3.6 7.8E-05 40.2 -1.8 36 282-317 216-251 (288)
154 KOG3130 Uncharacterized conser 46.1 13 0.00028 38.1 2.0 8 100-107 267-274 (514)
155 KOG4218 Nuclear hormone recept 45.7 6.8 0.00015 39.4 -0.0 45 281-326 16-76 (475)
156 PF13832 zf-HC5HC2H_2: PHD-zin 45.7 16 0.00035 29.7 2.2 28 283-312 58-87 (110)
157 PF13719 zinc_ribbon_5: zinc-r 44.6 11 0.00024 25.4 0.9 25 282-306 4-36 (37)
158 PRK04023 DNA polymerase II lar 42.7 12 0.00027 42.3 1.3 47 279-331 625-677 (1121)
159 KOG4430 Topoisomerase I-bindin 42.3 11 0.00023 40.0 0.8 51 280-330 260-311 (553)
160 smart00064 FYVE Protein presen 42.3 5.6 0.00012 29.6 -0.9 34 282-315 12-46 (68)
161 PF06750 DiS_P_DiS: Bacterial 42.0 16 0.00034 29.7 1.5 35 283-329 36-70 (92)
162 TIGR00622 ssl1 transcription f 38.4 42 0.0009 28.6 3.6 43 282-324 57-110 (112)
163 PF14169 YdjO: Cold-inducible 38.2 15 0.00033 27.8 0.8 14 318-331 40-53 (59)
164 PF14311 DUF4379: Domain of un 37.1 20 0.00043 25.9 1.3 22 301-323 34-55 (55)
165 PRK03564 formate dehydrogenase 36.9 15 0.00033 36.2 0.9 39 282-325 189-234 (309)
166 KOG3799 Rab3 effector RIM1 and 36.2 7.5 0.00016 34.3 -1.2 46 282-327 67-117 (169)
167 PF09943 DUF2175: Uncharacteri 36.2 28 0.00061 29.1 2.2 34 281-315 3-36 (101)
168 cd00350 rubredoxin_like Rubred 36.1 16 0.00035 23.9 0.7 10 317-326 17-26 (33)
169 PF10235 Cript: Microtubule-as 36.0 22 0.00048 29.1 1.5 35 283-329 47-81 (90)
170 PLN02189 cellulose synthase 35.8 32 0.00068 39.3 3.2 46 283-328 37-87 (1040)
171 PF15295 CCDC50_N: Coiled-coil 35.8 33 0.00072 30.0 2.6 17 66-82 23-39 (132)
172 KOG4443 Putative transcription 35.5 17 0.00036 39.4 0.9 28 300-327 40-72 (694)
173 PF06906 DUF1272: Protein of u 35.5 59 0.0013 24.5 3.5 44 283-328 8-52 (57)
174 PF11023 DUF2614: Protein of u 35.0 29 0.00063 29.6 2.1 19 312-330 80-98 (114)
175 PF01363 FYVE: FYVE zinc finge 34.6 16 0.00034 27.3 0.4 33 282-314 11-44 (69)
176 KOG3842 Adaptor protein Pellin 34.3 22 0.00047 35.6 1.5 41 281-326 291-350 (429)
177 KOG1999 RNA polymerase II tran 34.1 72 0.0016 36.2 5.5 8 283-290 202-209 (1024)
178 KOG2041 WD40 repeat protein [G 33.7 25 0.00054 38.8 1.9 44 281-328 1132-1185(1189)
179 cd00065 FYVE FYVE domain; Zinc 33.3 29 0.00064 24.6 1.7 34 282-315 4-38 (57)
180 PF10083 DUF2321: Uncharacteri 33.2 24 0.00051 31.7 1.4 44 284-330 8-52 (158)
181 KOG0883 Cyclophilin type, U bo 32.8 35 0.00077 35.0 2.7 43 283-328 43-85 (518)
182 PRK11827 hypothetical protein; 32.5 15 0.00033 27.8 0.1 18 311-328 2-19 (60)
183 KOG2071 mRNA cleavage and poly 32.3 19 0.00042 38.4 0.8 33 281-313 514-556 (579)
184 KOG2038 CAATT-binding transcri 31.9 45 0.00097 37.1 3.4 13 176-188 964-976 (988)
185 KOG2979 Protein involved in DN 31.6 23 0.00051 34.2 1.2 44 281-326 177-222 (262)
186 PF13771 zf-HC5HC2H: PHD-like 31.0 29 0.00062 27.0 1.4 28 283-312 39-68 (90)
187 smart00531 TFIIE Transcription 31.0 41 0.00089 29.2 2.5 13 318-330 124-136 (147)
188 KOG1538 Uncharacterized conser 30.7 22 0.00047 39.0 0.8 28 301-328 1050-1077(1081)
189 PF13717 zinc_ribbon_4: zinc-r 30.4 29 0.00063 23.3 1.2 25 282-306 4-36 (36)
190 KOG0803 Predicted E3 ubiquitin 30.4 11 0.00023 44.0 -1.6 48 281-328 1062-1115(1312)
191 PLN02436 cellulose synthase A 30.1 44 0.00096 38.3 3.1 47 282-328 38-89 (1094)
192 TIGR01562 FdhE formate dehydro 30.0 19 0.00041 35.5 0.3 38 283-325 187-232 (305)
193 KOG0956 PHD finger protein AF1 29.7 12 0.00026 40.7 -1.2 46 283-328 120-182 (900)
194 KOG3726 Uncharacterized conser 29.5 27 0.00059 38.0 1.3 41 282-325 656-697 (717)
195 PF02724 CDC45: CDC45-like pro 29.3 41 0.00089 36.2 2.7 8 80-87 118-125 (622)
196 KOG4451 Uncharacterized conser 29.2 38 0.00083 32.4 2.1 31 300-330 246-276 (286)
197 smart00734 ZnF_Rad18 Rad18-lik 29.2 25 0.00055 22.0 0.7 10 319-328 3-12 (26)
198 PF10146 zf-C4H2: Zinc finger- 29.1 42 0.0009 31.8 2.4 26 304-329 195-220 (230)
199 PF02318 FYVE_2: FYVE-type zin 28.6 27 0.00059 29.2 1.0 43 283-326 57-103 (118)
200 COG5627 MMS21 DNA repair prote 28.6 25 0.00053 33.8 0.7 41 280-322 189-231 (275)
201 PF14569 zf-UDP: Zinc-binding 28.6 65 0.0014 25.8 3.0 47 282-328 11-62 (80)
202 PF06957 COPI_C: Coatomer (COP 28.5 30 0.00066 35.7 1.4 40 282-327 366-406 (422)
203 PLN02638 cellulose synthase A 28.4 54 0.0012 37.6 3.5 47 282-328 19-70 (1079)
204 PF06937 EURL: EURL protein; 28.1 52 0.0011 32.1 2.8 41 281-321 31-74 (285)
205 KOG1356 Putative transcription 27.7 23 0.0005 39.4 0.5 43 282-326 231-280 (889)
206 PRK01343 zinc-binding protein; 27.2 32 0.00069 25.9 1.0 13 316-328 8-20 (57)
207 PRK05978 hypothetical protein; 27.2 29 0.00064 30.8 1.0 18 312-329 47-64 (148)
208 PF04871 Uso1_p115_C: Uso1 / p 25.3 48 0.0011 28.7 1.9 8 78-85 85-92 (136)
209 KOG2462 C2H2-type Zn-finger pr 24.8 22 0.00049 34.6 -0.3 49 281-329 162-227 (279)
210 KOG4021 Mitochondrial ribosoma 23.9 36 0.00079 31.8 0.9 20 308-327 98-118 (239)
211 PF03344 Daxx: Daxx Family; I 23.3 27 0.00059 38.3 0.0 14 69-82 366-379 (713)
212 COG2816 NPY1 NTP pyrophosphohy 23.2 18 0.00039 35.3 -1.2 28 302-329 110-141 (279)
213 KOG4323 Polycomb-like PHD Zn-f 23.1 25 0.00053 36.7 -0.4 47 281-327 169-225 (464)
214 PHA00009 F capsid protein 22.4 46 0.00099 32.9 1.3 36 69-107 197-232 (427)
215 PF07191 zinc-ribbons_6: zinc- 22.4 7.1 0.00015 30.5 -3.4 39 282-328 3-41 (70)
216 COG3492 Uncharacterized protei 22.3 45 0.00098 27.5 1.1 11 305-315 43-53 (104)
217 COG1545 Predicted nucleic-acid 22.2 45 0.00097 29.0 1.1 20 300-327 34-53 (140)
218 PF09723 Zn-ribbon_8: Zinc rib 22.0 22 0.00048 24.5 -0.7 26 298-325 8-34 (42)
219 PF03107 C1_2: C1 domain; Int 21.8 51 0.0011 21.0 1.1 28 283-310 3-30 (30)
220 KOG1074 Transcriptional repres 21.7 33 0.00072 38.2 0.3 43 282-333 607-649 (958)
221 PF05285 SDA1: SDA1; InterPro 21.6 65 0.0014 31.8 2.3 13 180-192 191-203 (324)
222 COG5242 TFB4 RNA polymerase II 21.5 34 0.00074 32.8 0.3 14 280-293 260-273 (296)
223 PF04871 Uso1_p115_C: Uso1 / p 21.4 65 0.0014 27.9 2.0 10 76-85 96-105 (136)
224 PF15243 ANAPC15: Anaphase-pro 21.4 1.5E+02 0.0032 24.4 3.9 18 68-87 26-43 (92)
225 smart00647 IBR In Between Ring 21.1 21 0.00046 25.6 -1.0 21 293-313 37-58 (64)
226 PF13240 zinc_ribbon_2: zinc-r 20.9 15 0.00032 22.5 -1.5 7 319-325 15-21 (23)
227 COG1592 Rubrerythrin [Energy p 20.7 30 0.00065 31.3 -0.3 9 317-325 149-157 (166)
228 PF02146 SIR2: Sir2 family; I 20.3 82 0.0018 27.8 2.5 33 297-329 107-141 (178)
229 KOG0957 PHD finger protein [Ge 20.3 28 0.0006 36.8 -0.7 45 280-325 544-597 (707)
230 PF09237 GAGA: GAGA factor; I 20.2 33 0.00073 25.4 -0.1 11 319-329 26-36 (54)
231 PLN02248 cellulose synthase-li 20.2 65 0.0014 37.1 2.1 29 299-327 148-176 (1135)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.68 E-value=2.5e-17 Score=160.86 Aligned_cols=79 Identities=34% Similarity=0.854 Sum_probs=68.8
Q ss_pred CCCCCCHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC-CCCCcccc
Q 019980 248 ESRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK-VCPVCSAE 326 (333)
Q Consensus 248 ~s~GlS~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk-sCPvCR~~ 326 (333)
..+++.+..++++|..+|+........ +. |+|||+.|..|+++++|||+|.||..||.+||..++ .||+||+.
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~-----CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~d 276 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDAT-DT-----CAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRD 276 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCC-ce-----EEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCc
Confidence 345789999999999999988776544 33 999999999999999999999999999999998775 59999999
Q ss_pred ccCCCC
Q 019980 327 VSTSGH 332 (333)
Q Consensus 327 V~~s~~ 332 (333)
+.+...
T Consensus 277 i~~~~~ 282 (348)
T KOG4628|consen 277 IRTDSG 282 (348)
T ss_pred CCCCCC
Confidence 987653
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=99.53 E-value=2.8e-15 Score=104.92 Aligned_cols=42 Identities=50% Similarity=1.198 Sum_probs=40.0
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR 324 (333)
|+||++.|..++.+++|+|+|+||..||..||+.+++||+||
T Consensus 3 C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 3 CPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp ETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 999999999999999999999999999999999999999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=4e-13 Score=128.41 Aligned_cols=51 Identities=33% Similarity=0.968 Sum_probs=47.3
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCC
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTS 330 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s 330 (333)
+-+|+|||+.|..++++++|||.|.||..||.+||. .+..||+||++|++.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 456999999999999999999999999999999998 788999999999863
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.31 E-value=1.3e-12 Score=122.60 Aligned_cols=77 Identities=27% Similarity=0.456 Sum_probs=56.7
Q ss_pred CCCCCHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCe-----eEEeCCCCcccHHHHHHHHhcCCCCCCc
Q 019980 249 SRGLSADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGET-----LTVLSCKHSYHSECINNWLKINKVCPVC 323 (333)
Q Consensus 249 s~GlS~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~-----l~~LPCgH~FH~~CI~~WL~~kksCPvC 323 (333)
.++.++..+..||.+.......... .....|+||++.+..+.. .+.++|+|.||..||.+|++.+.+||+|
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~----~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlC 222 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNR----SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVC 222 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcC----CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCC
Confidence 4667999999999876443222111 122349999999875431 2344699999999999999999999999
Q ss_pred cccccC
Q 019980 324 SAEVST 329 (333)
Q Consensus 324 R~~V~~ 329 (333)
|..+..
T Consensus 223 R~~~~~ 228 (238)
T PHA02929 223 RTPFIS 228 (238)
T ss_pred CCEeeE
Confidence 998763
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.27 E-value=3.1e-12 Score=99.44 Aligned_cols=42 Identities=43% Similarity=0.991 Sum_probs=34.9
Q ss_pred ccccccccCCC----------CeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980 283 CVICRLDYEDG----------ETLTVLSCKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 283 C~ICLe~f~~g----------d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR 324 (333)
|+||++.|... -.+...+|+|.||..||.+||+.+.+||+||
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 99999999422 3455568999999999999999999999998
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.2e-11 Score=121.09 Aligned_cols=48 Identities=33% Similarity=0.842 Sum_probs=41.0
Q ss_pred Ccccccccc-cCCCC---------eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLD-YEDGE---------TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~-f~~gd---------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|+||+++ |.++. +.++|||||+||..|++.|+.++.+||+||.+|.
T Consensus 288 ~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 288 RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 449999999 55441 4478999999999999999999999999999943
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=99.06 E-value=1.4e-10 Score=78.75 Aligned_cols=43 Identities=35% Similarity=1.041 Sum_probs=36.5
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEV 327 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V 327 (333)
|+||+..+. ..+..++|+|.||..||..|++. +..||+||+.+
T Consensus 2 C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 2 CPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 999999983 34555569999999999999997 77899999864
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=9.9e-11 Score=111.51 Aligned_cols=49 Identities=22% Similarity=0.611 Sum_probs=44.4
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~ 331 (333)
...|+|||+....+ ..+||||+||..||..|+..+..||+||..+.++.
T Consensus 239 ~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 46699999998777 78999999999999999999999999999987753
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.03 E-value=1.5e-10 Score=83.21 Aligned_cols=45 Identities=33% Similarity=0.770 Sum_probs=38.6
Q ss_pred CcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|+||++.... ++.+||+|. ||..|+..|++.++.||+||++|.
T Consensus 3 ~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 349999998654 588899999 999999999999999999999985
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.01 E-value=2.2e-10 Score=104.20 Aligned_cols=48 Identities=35% Similarity=0.782 Sum_probs=40.2
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc----------------CCCCCCccccccCC
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI----------------NKVCPVCSAEVSTS 330 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~----------------kksCPvCR~~V~~s 330 (333)
...|+||++.+..+ ++++|+|.||..||.+|+.. ...||+||..|...
T Consensus 18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 35599999999876 67889999999999999852 24799999999653
No 11
>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=98.97 E-value=3.8e-10 Score=77.15 Aligned_cols=39 Identities=44% Similarity=1.001 Sum_probs=33.9
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvC 323 (333)
|+||++.+.. .++.++|||+||..||.+|++.++.||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998876 46788999999999999999999999998
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=3.1e-10 Score=105.25 Aligned_cols=48 Identities=42% Similarity=0.786 Sum_probs=41.1
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC---CCCCCccccccCC
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVSTS 330 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k---ksCPvCR~~V~~s 330 (333)
.+.|-|||+.-+.+ +++.|||.||+.||.+||..+ +.|||||..|...
T Consensus 47 ~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 47 FFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred ceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 45599999998877 677799999999999999754 6799999998754
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.89 E-value=1.2e-09 Score=87.48 Aligned_cols=47 Identities=34% Similarity=0.919 Sum_probs=37.0
Q ss_pred cccccccccC--------CCC--eeEEeCCCCcccHHHHHHHHhc---CCCCCCcccccc
Q 019980 282 SCVICRLDYE--------DGE--TLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~--------~gd--~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~~V~ 328 (333)
.|.||+..|. +|+ .++.-.|+|.||..||.+||.. +..||+||+...
T Consensus 23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 3999999997 222 3344469999999999999975 478999998754
No 14
>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=98.89 E-value=1.8e-09 Score=80.00 Aligned_cols=46 Identities=24% Similarity=0.458 Sum_probs=41.4
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
..|+||+..+..+ ++++|||+|+..||.+|++.+++||+|+..+..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 3499999999987 678999999999999999999999999998853
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=6.9e-10 Score=115.05 Aligned_cols=49 Identities=27% Similarity=0.807 Sum_probs=43.4
Q ss_pred CCcccccccccCCCCe--eEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGET--LTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~--l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
...|+||++.+..+.+ .++|||+|+||..||..||++..+||+||..+.
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3459999999998655 688999999999999999999999999999554
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.5e-09 Score=97.30 Aligned_cols=47 Identities=28% Similarity=0.727 Sum_probs=40.3
Q ss_pred CcccccccccCCCCee-EEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
..|+|||..|... + ..+.|||+||..||+.-|+....||+|++.|..
T Consensus 132 ~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 132 YKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 3499999998743 4 336799999999999999999999999998864
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.85 E-value=1.7e-09 Score=100.16 Aligned_cols=48 Identities=29% Similarity=0.683 Sum_probs=36.6
Q ss_pred CcccccccccCCC-----CeeEEe-CCCCcccHHHHHHHHhcC------CCCCCcccccc
Q 019980 281 FSCVICRLDYEDG-----ETLTVL-SCKHSYHSECINNWLKIN------KVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~g-----d~l~~L-PCgH~FH~~CI~~WL~~k------ksCPvCR~~V~ 328 (333)
.+|+|||+..... ....+| +|+|.||..||..|.+.+ ++||+||..+.
T Consensus 171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4499999986322 123345 699999999999999753 46999999875
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.81 E-value=3.4e-09 Score=74.42 Aligned_cols=43 Identities=26% Similarity=0.697 Sum_probs=38.3
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
|.||+..|.......+++|+|+||..||..+......||+||+
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 9999999965566788899999999999999867789999985
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.79 E-value=3.5e-09 Score=74.09 Aligned_cols=38 Identities=34% Similarity=0.774 Sum_probs=30.4
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----CCCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----KVCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----ksCPvC 323 (333)
|+||+..|..+ +.|+|||.|+..||..|.+.. ..||+|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999988 889999999999999999754 369998
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.77 E-value=6.8e-09 Score=67.91 Aligned_cols=38 Identities=42% Similarity=1.079 Sum_probs=32.8
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvC 323 (333)
|+||+... ...+.++|+|.||..||..|++ .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88998884 3458889999999999999998 66789998
No 21
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.77 E-value=4.2e-09 Score=83.14 Aligned_cols=46 Identities=33% Similarity=0.794 Sum_probs=36.1
Q ss_pred ccccccccC-----------CCC--eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 283 CVICRLDYE-----------DGE--TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~-----------~gd--~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
|+||+..|. +++ ++..-.|.|.||..||.+||..++.||+||++..
T Consensus 23 CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 23 CAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred hhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 888887775 222 2222349999999999999999999999998754
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.75 E-value=4.9e-09 Score=71.80 Aligned_cols=39 Identities=38% Similarity=1.057 Sum_probs=34.3
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHh--cCCCCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK--INKVCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~--~kksCPvC 323 (333)
|+||++.+..+ +++++|+|.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998866 35889999999999999998 55689998
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=7.8e-09 Score=103.53 Aligned_cols=46 Identities=33% Similarity=0.721 Sum_probs=41.1
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
..|+||+..|..+ ++++|+|.||..||..||.....||+||..+..
T Consensus 27 l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 27 LRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 3499999999876 578999999999999999988899999998864
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=7e-09 Score=85.50 Aligned_cols=45 Identities=38% Similarity=0.857 Sum_probs=35.9
Q ss_pred ccccccccC-------------CCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 283 CVICRLDYE-------------DGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 283 C~ICLe~f~-------------~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
|+||+..+. ..+.++.. -|.|.||..||.+||+++..||+|.++-
T Consensus 49 CAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 49 CAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred hHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 999987663 22333333 4999999999999999999999998864
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.3e-08 Score=103.05 Aligned_cols=49 Identities=27% Similarity=0.802 Sum_probs=39.7
Q ss_pred CcccccccccCCC--------------CeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 019980 281 FSCVICRLDYEDG--------------ETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~g--------------d~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~ 329 (333)
..|+|||..+... .....+||.|+||..|+.+|+. .+..||+||..+++
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4599999988621 1234569999999999999998 55699999999875
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.55 E-value=2.3e-08 Score=97.44 Aligned_cols=47 Identities=30% Similarity=0.718 Sum_probs=43.0
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
+.|.||.+.|..+ .++||+|.||.-||...|..+..||.|+.++..+
T Consensus 24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchh
Confidence 4599999999988 7889999999999999999999999999988643
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=3.8e-08 Score=77.18 Aligned_cols=47 Identities=34% Similarity=0.958 Sum_probs=35.3
Q ss_pred cccccccccCC--------CCeeE-Ee-CCCCcccHHHHHHHHhcC---CCCCCcccccc
Q 019980 282 SCVICRLDYED--------GETLT-VL-SCKHSYHSECINNWLKIN---KVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~--------gd~l~-~L-PCgH~FH~~CI~~WL~~k---ksCPvCR~~V~ 328 (333)
.|.||+..|.. |+... ++ -|.|.||..||.+||..+ ..||+||+...
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 39999999973 22111 12 389999999999999644 57999998753
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=7.8e-08 Score=90.96 Aligned_cols=49 Identities=27% Similarity=0.662 Sum_probs=41.5
Q ss_pred CCCcccccccccCCCCeeEEeCCCCcccHHHHHH-HHhcCCC-CCCccccccCC
Q 019980 279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINN-WLKINKV-CPVCSAEVSTS 330 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~-WL~~kks-CPvCR~~V~~s 330 (333)
....|+||++....+ ..+||||+||..||.. |=+++.- ||+||+.+.+.
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 356799999987766 7889999999999999 9877765 99999988654
No 29
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.40 E-value=2.3e-07 Score=67.01 Aligned_cols=41 Identities=32% Similarity=0.841 Sum_probs=32.2
Q ss_pred ccccccccCCCCeeEEeCCC-----CcccHHHHHHHHhcC--CCCCCcc
Q 019980 283 CVICRLDYEDGETLTVLSCK-----HSYHSECINNWLKIN--KVCPVCS 324 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCg-----H~FH~~CI~~WL~~k--ksCPvCR 324 (333)
|.||+... .+....++||. |.||..||.+||..+ .+||+|+
T Consensus 2 CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 2 CRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred ccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 99999933 33444578975 889999999999655 4899995
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.4e-07 Score=96.08 Aligned_cols=44 Identities=23% Similarity=0.603 Sum_probs=36.7
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-----CCCCCccccccC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAEVST 329 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-----ksCPvCR~~V~~ 329 (333)
|+|||+....+ ..+.|||+||..||.+++... +.||+||..|..
T Consensus 189 CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 189 CPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 99999997766 455599999999998887543 589999998865
No 31
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.37 E-value=2e-07 Score=72.21 Aligned_cols=46 Identities=26% Similarity=0.474 Sum_probs=37.5
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-CCCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-NKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-kksCPvCR~~V~~ 329 (333)
+.|+||.+-+..+ +++||||+|...||.+||+. ..+||+|+..+..
T Consensus 5 f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 5 FLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 5699999999988 78999999999999999998 8899999998864
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1e-07 Score=90.52 Aligned_cols=48 Identities=29% Similarity=0.740 Sum_probs=41.4
Q ss_pred CcccccccccCCCC-------eeEEeCCCCcccHHHHHHHHh--cCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGE-------TLTVLSCKHSYHSECINNWLK--INKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd-------~l~~LPCgH~FH~~CI~~WL~--~kksCPvCR~~V~ 328 (333)
..|+||-..+.... ++.+|.|+|+||..||+-|-. ++.+||.||..|.
T Consensus 225 ~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 225 SVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred chhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 45999999887655 778899999999999999974 6679999999875
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.33 E-value=1.3e-07 Score=101.53 Aligned_cols=49 Identities=24% Similarity=0.736 Sum_probs=36.6
Q ss_pred CCcccccccccC-CCC--eeEEeC-CCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980 280 GFSCVICRLDYE-DGE--TLTVLS-CKHSYHSECINNWLKIN--KVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~-~gd--~l~~LP-CgH~FH~~CI~~WL~~k--ksCPvCR~~V~ 328 (333)
..+|+||+.-+. ... +-.++| |+|+||..||.+|++.+ .+||+||.+++
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345999998766 111 112333 99999999999999865 58999998875
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.32 E-value=2.4e-07 Score=88.91 Aligned_cols=45 Identities=29% Similarity=0.669 Sum_probs=40.5
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|.||-+.|..+ ..++|||.||.-||...|..+..||+||.+..
T Consensus 26 lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 26 LRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 3499999999887 67789999999999999999999999998754
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.7e-07 Score=83.42 Aligned_cols=43 Identities=26% Similarity=0.711 Sum_probs=38.4
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
...|+||++.|..+ ++|||+|.||..||..|+.....||.||.
T Consensus 13 ~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 13 ELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34599999999988 88999999999999999886678999994
No 36
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.23 E-value=9.3e-07 Score=62.36 Aligned_cols=38 Identities=32% Similarity=0.783 Sum_probs=22.5
Q ss_pred ccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcC----CCCC
Q 019980 283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKIN----KVCP 321 (333)
Q Consensus 283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~k----ksCP 321 (333)
|+||++ |...+ .-++|+|||+|+..||.+|++.+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76533 45779999999999999999854 3677
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.22 E-value=2e-07 Score=72.04 Aligned_cols=49 Identities=33% Similarity=0.703 Sum_probs=24.5
Q ss_pred cccccccccCCCCee--EEe---CCCCcccHHHHHHHHhc---C--------CCCCCccccccCC
Q 019980 282 SCVICRLDYEDGETL--TVL---SCKHSYHSECINNWLKI---N--------KVCPVCSAEVSTS 330 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l--~~L---PCgH~FH~~CI~~WL~~---k--------ksCPvCR~~V~~s 330 (333)
.|.||+..+.....+ .+. .|+++||..||..||.. . ..||.|+++|..+
T Consensus 4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 499999987633222 222 39999999999999963 1 2599999998643
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.11 E-value=2.1e-06 Score=86.35 Aligned_cols=50 Identities=26% Similarity=0.676 Sum_probs=40.5
Q ss_pred CCCCcccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 278 CLGFSCVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 278 ~~~~~C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
.+...|+|||+-+...- .++...|.|.||..|+.+| ...+||+||....+
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~p 223 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQSP 223 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcCc
Confidence 45677999999987543 2445569999999999999 67899999987763
No 39
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.02 E-value=1.6e-06 Score=83.63 Aligned_cols=50 Identities=32% Similarity=0.779 Sum_probs=42.6
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc-----------------------CCCCCCccccccCC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI-----------------------NKVCPVCSAEVSTS 330 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~-----------------------kksCPvCR~~V~~s 330 (333)
..|+|||-.|..+..+++++|-|.||..|+.++|.. .-.|||||..|...
T Consensus 116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 349999999999999999999999999999988721 23799999988654
No 40
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.5e-06 Score=83.26 Aligned_cols=49 Identities=31% Similarity=0.746 Sum_probs=37.7
Q ss_pred CCcccccccccCCCC----eeEEeC-CCCcccHHHHHHHH--hc-----CCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGE----TLTVLS-CKHSYHSECINNWL--KI-----NKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd----~l~~LP-CgH~FH~~CI~~WL--~~-----kksCPvCR~~V~ 328 (333)
...|.||++.+...- ...+|| |.|.||..||..|- .+ .+.||.||....
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 445999999876442 123445 99999999999998 33 578999998765
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=6.8e-06 Score=80.81 Aligned_cols=46 Identities=33% Similarity=0.733 Sum_probs=39.2
Q ss_pred CCcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..+|+|||.+...- .+|||.|. .|..|.+.-.-..+.||+||+.|.
T Consensus 290 gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 56799999997664 89999994 899999886657889999999885
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=4.9e-06 Score=88.34 Aligned_cols=49 Identities=22% Similarity=0.490 Sum_probs=43.2
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
...|+||+..|..+......+|+|+||..||..|-+.-.+||+||.++.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 4559999999988766667789999999999999999999999998764
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=3.5e-06 Score=82.77 Aligned_cols=45 Identities=27% Similarity=0.629 Sum_probs=36.8
Q ss_pred ccccccccCCCCeeEEeC-CCCcccHHHHHHHHhc-CCCCCCccccccCC
Q 019980 283 CVICRLDYEDGETLTVLS-CKHSYHSECINNWLKI-NKVCPVCSAEVSTS 330 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~-kksCPvCR~~V~~s 330 (333)
|+|||.-++.. +..+ |.|.||..||..-|+. .+.||.||+.+.+.
T Consensus 46 c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 46 CPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred cHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 99999998754 4444 9999999999888864 57899999988643
No 44
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.66 E-value=9.7e-06 Score=61.84 Aligned_cols=44 Identities=27% Similarity=0.674 Sum_probs=23.0
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|+||...++.+ +....|.|+||+.||..-+. ..||+|+.+.-
T Consensus 8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw 51 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW 51 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence 4599999998866 44456999999999988655 35999998764
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=2.7e-05 Score=82.79 Aligned_cols=48 Identities=23% Similarity=0.766 Sum_probs=38.8
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-cCCCCCCccccccCCC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-INKVCPVCSAEVSTSG 331 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~s~ 331 (333)
..|++|-.-++.. +++.|+|.||..||..-+. +.+.||.|.+.+.+..
T Consensus 644 LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 3499998776654 5566999999999999996 5589999999887653
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=2.5e-05 Score=57.90 Aligned_cols=44 Identities=25% Similarity=0.645 Sum_probs=33.5
Q ss_pred cccccccccCCCCeeEEeCCCCc-ccHHH-HHHHHhcCCCCCCcccccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHS-YHSEC-INNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~-FH~~C-I~~WL~~kksCPvCR~~V~ 328 (333)
+|.||++.-... ++..|||. .|..| |..|-..+..||+||++|.
T Consensus 9 ECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 9 ECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 399998875433 34569995 78889 5666668889999999874
No 47
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.39 E-value=0.00011 Score=82.22 Aligned_cols=72 Identities=21% Similarity=0.547 Sum_probs=52.0
Q ss_pred CHHHHhcCCceeecCCCCCCCCCCCCCCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC----------CCCCC
Q 019980 253 SADTLATLPTVNYKGGTSQNGSNDSCLGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN----------KVCPV 322 (333)
Q Consensus 253 S~~~I~sLp~~~~~~~~~~~~~~d~~~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k----------ksCPv 322 (333)
-+..-..||..............+ .|.||+.+-......+.|.|+|+||..|...-|.++ -+||+
T Consensus 3464 vkNEE~CLPCl~Cdks~tkQD~DD-----mCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPi 3538 (3738)
T KOG1428|consen 3464 VKNEEHCLPCLHCDKSATKQDADD-----MCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPI 3538 (3738)
T ss_pred ccchhhcccccccChhhhhcccCc-----eEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeeccc
Confidence 344445777766554444333333 499999988877788999999999999997766543 27999
Q ss_pred ccccccC
Q 019980 323 CSAEVST 329 (333)
Q Consensus 323 CR~~V~~ 329 (333)
|+.+|..
T Consensus 3539 C~n~InH 3545 (3738)
T KOG1428|consen 3539 CKNKINH 3545 (3738)
T ss_pred ccchhhh
Confidence 9998753
No 48
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=9e-05 Score=74.67 Aligned_cols=46 Identities=30% Similarity=0.744 Sum_probs=41.4
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
.+.|.||+..+..+ +++||||.||..||.+-|.....||.||..+.
T Consensus 84 ef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 84 EFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred hhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence 45599999999888 77799999999999998888899999999886
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.33 E-value=0.00011 Score=54.83 Aligned_cols=40 Identities=30% Similarity=0.679 Sum_probs=28.6
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPV 322 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPv 322 (333)
..|+|.+..|..+ ++...|+|+|-...|.+||+. ...||+
T Consensus 12 ~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4599999999865 666789999999999999944 457999
No 50
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.32 E-value=6.8e-05 Score=74.77 Aligned_cols=49 Identities=31% Similarity=0.665 Sum_probs=40.1
Q ss_pred CCcccccccccCC-CCeeEEeCCCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980 280 GFSCVICRLDYED-GETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~-gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~ 328 (333)
..-|..|-+-+-. ++.+-.|||.|+||..|+...|.++ .+||.||+-++
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 4569999988864 3467789999999999999999765 58999995444
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.16 E-value=0.00016 Score=72.66 Aligned_cols=48 Identities=27% Similarity=0.674 Sum_probs=41.1
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
..|+||...+..+ +..+.|+|.||..||..|+..+..||.|+..+..+
T Consensus 22 l~C~~C~~vl~~p--~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 22 LLCPICMSVLRDP--VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred ccCccccccccCC--CCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence 4499999999877 22258999999999999999999999999887644
No 52
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.10 E-value=0.00017 Score=66.35 Aligned_cols=45 Identities=36% Similarity=0.701 Sum_probs=39.8
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
.+.|.||-.+|..+ +++.|||.||..|...-++....|-+|.+..
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 45699999999988 7788999999999888888889999998764
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.08 E-value=0.00013 Score=71.28 Aligned_cols=46 Identities=28% Similarity=0.717 Sum_probs=38.8
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
.|.+|--.|... .++.-|-|.||..||.+.|..++.||.|...|..
T Consensus 17 tC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 17 TCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred ehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 399998888765 3444599999999999999999999999887754
No 54
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00023 Score=70.34 Aligned_cols=48 Identities=25% Similarity=0.396 Sum_probs=40.3
Q ss_pred CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
++..|+||... +-..+..||+|.-|+.||.+-|..++.|-.|++.+.+
T Consensus 421 Ed~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred ccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 45569999665 3344678999999999999999999999999998863
No 55
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00024 Score=68.62 Aligned_cols=49 Identities=31% Similarity=0.588 Sum_probs=43.0
Q ss_pred CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
.++.|-||...|..+ ++..|+|.||..|...-+++...|++|.+.+..+
T Consensus 240 ~Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred CCccccccccccccc---hhhcCCceeehhhhccccccCCcceecccccccc
Confidence 456699999999988 7888999999999988899999999999877543
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.96 E-value=0.00031 Score=70.38 Aligned_cols=46 Identities=24% Similarity=0.706 Sum_probs=36.8
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPvCR~~V~~ 329 (333)
..|-||-+.=+ -+++-||||..|..|+..|-.. ..+||.||.+|..
T Consensus 370 eLCKICaendK---dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDK---DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCC---CcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 34999987633 3567799999999999999743 4689999999864
No 57
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00079 Score=63.09 Aligned_cols=49 Identities=31% Similarity=0.657 Sum_probs=41.3
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--------CCCCCccccccCCCC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--------KVCPVCSAEVSTSGH 332 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--------ksCPvCR~~V~~s~~ 332 (333)
|..|-..+..|+.+ +|-|-|.||..|+..|-..- -.||.|..+|++..+
T Consensus 53 C~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 53 CRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred CceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 99999999988766 56699999999999998432 379999999997643
No 58
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00095 Score=64.02 Aligned_cols=47 Identities=23% Similarity=0.454 Sum_probs=38.0
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPvCR~~V~ 328 (333)
..+|++|-+.-..+ .+..+|+|+||.-||..-+.. ..+||.|..++.
T Consensus 239 ~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 239 DTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 45699998875544 566789999999999987763 479999998887
No 59
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.50 E-value=0.0015 Score=46.70 Aligned_cols=40 Identities=30% Similarity=0.850 Sum_probs=27.3
Q ss_pred ccccccccCCCCeeEEeCCC--C---cccHHHHHHHHh--cCCCCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCK--H---SYHSECINNWLK--INKVCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCg--H---~FH~~CI~~WL~--~kksCPvC 323 (333)
|-||++.-.... ..+.||. = ..|..||.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 3456763 3 689999999997 44679998
No 60
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.00096 Score=59.71 Aligned_cols=27 Identities=44% Similarity=0.817 Sum_probs=25.3
Q ss_pred CcccccccccCCCCeeEEeCCCCcccH
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHS 307 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~ 307 (333)
.+|+|||+++..|+++.+|||-.+||+
T Consensus 178 GECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 178 GECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CcEEEEhhhccCCCceeccceEEEeec
Confidence 459999999999999999999999996
No 61
>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=96.37 E-value=0.0014 Score=52.88 Aligned_cols=28 Identities=29% Similarity=0.781 Sum_probs=24.9
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHH
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECIN 311 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~ 311 (333)
|+||-..+.. ..+.+.||+|+||..|+.
T Consensus 81 C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 81 CSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 9999999876 567788999999999985
No 62
>PHA03096 p28-like protein; Provisional
Probab=96.36 E-value=0.0017 Score=62.96 Aligned_cols=45 Identities=22% Similarity=0.440 Sum_probs=32.5
Q ss_pred ccccccccCCC----CeeEEeC-CCCcccHHHHHHHHhcC------CCCCCccccc
Q 019980 283 CVICRLDYEDG----ETLTVLS-CKHSYHSECINNWLKIN------KVCPVCSAEV 327 (333)
Q Consensus 283 C~ICLe~f~~g----d~l~~LP-CgH~FH~~CI~~WL~~k------ksCPvCR~~V 327 (333)
|.||++..... .....|+ |.|.||..||..|...+ +.||.|+..+
T Consensus 181 c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 181 CGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred cccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 99999987643 2445676 99999999999999543 3455555443
No 63
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.00017 Score=71.90 Aligned_cols=50 Identities=24% Similarity=0.579 Sum_probs=43.6
Q ss_pred CcccccccccCCC-CeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 281 FSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 281 ~~C~ICLe~f~~g-d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
..|+||.+.++.. +++..+-|+|++|..||.+||..+..||.|+++|...
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 3499999999865 5666778999999999999999999999999998754
No 64
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.0021 Score=64.70 Aligned_cols=45 Identities=24% Similarity=0.662 Sum_probs=37.6
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--------CCCCCCccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--------NKVCPVCSA 325 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--------kksCPvCR~ 325 (333)
..|.||++........+.|||+|+||..|+..++.. .-.||-|+.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 349999999988789999999999999999999953 237876654
No 65
>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=96.16 E-value=0.003 Score=54.85 Aligned_cols=39 Identities=15% Similarity=0.471 Sum_probs=30.4
Q ss_pred ccccccccCCCCeeEEeCCC------CcccHHHHHHHHhcCCCCC
Q 019980 283 CVICRLDYEDGETLTVLSCK------HSYHSECINNWLKINKVCP 321 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCg------H~FH~~CI~~WL~~kksCP 321 (333)
|.||+..+....-++.++|+ |.||..|+.+|-+.++.=|
T Consensus 29 C~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDP 73 (134)
T PF05883_consen 29 CQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDP 73 (134)
T ss_pred ehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCC
Confidence 99999999984557777886 8899999999954333333
No 66
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.10 E-value=0.0054 Score=58.28 Aligned_cols=51 Identities=20% Similarity=0.389 Sum_probs=43.6
Q ss_pred CCCcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 279 LGFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
....|+||...+...-....| ||||+|+..|+.+.++.-..||+|-+++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 345699999999877666666 799999999999999999999999988764
No 67
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.10 E-value=0.0038 Score=45.17 Aligned_cols=45 Identities=18% Similarity=0.517 Sum_probs=22.8
Q ss_pred ccccccccCCCC-eeEEeCCCCcccHHHHHHHHh-cCCCCCCccccc
Q 019980 283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLK-INKVCPVCSAEV 327 (333)
Q Consensus 283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V 327 (333)
|++|.+.+...+ .+.-.+|++.++..|...-++ ....||-||+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984333 233335899999999999886 478999999863
No 68
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.06 E-value=0.0029 Score=46.95 Aligned_cols=44 Identities=30% Similarity=0.635 Sum_probs=34.5
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSG 331 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~ 331 (333)
|..|...-..+ +++||+|+.+..|..-| +-+.||+|.+++...+
T Consensus 10 ~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 10 CVFCGFVGTKG---TVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred EEEcccccccc---ccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 77776554444 88999999999998664 6688999999987654
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.00 E-value=0.0022 Score=66.36 Aligned_cols=48 Identities=31% Similarity=0.635 Sum_probs=38.1
Q ss_pred CCCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh-----cCCCCCCccccccC
Q 019980 279 LGFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK-----INKVCPVCSAEVST 329 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~-----~kksCPvCR~~V~~ 329 (333)
....|.+|-+.-+.. +...|.|+||..||..++. .+-+||+|...++.
T Consensus 535 ~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred CceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 345699998876654 6778999999999998884 23589999887763
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.99 E-value=0.005 Score=61.00 Aligned_cols=44 Identities=27% Similarity=0.581 Sum_probs=34.8
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHH--HHhcCCCCCCccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINN--WLKINKVCPVCSAEV 327 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~--WL~~kksCPvCR~~V 327 (333)
.-|.||-..+.- ..++||+|..|-.|..+ -|=.++.||+||++.
T Consensus 62 ~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 62 MNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 349999888654 37889999999999654 345778999999874
No 71
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.94 E-value=0.005 Score=56.00 Aligned_cols=49 Identities=29% Similarity=0.720 Sum_probs=34.3
Q ss_pred cccccccccCCCCe----eEEeCCCCcccHHHHHHHHhcC-----------CCCCCccccccCC
Q 019980 282 SCVICRLDYEDGET----LTVLSCKHSYHSECINNWLKIN-----------KVCPVCSAEVSTS 330 (333)
Q Consensus 282 ~C~ICLe~f~~gd~----l~~LPCgH~FH~~CI~~WL~~k-----------ksCPvCR~~V~~s 330 (333)
.|.||+..-..|-. .--..|+..||.-|+..||+.- ..||+|..+|...
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 37788765444421 1123499999999999999521 3799999998743
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.91 E-value=0.0045 Score=66.96 Aligned_cols=46 Identities=28% Similarity=0.787 Sum_probs=34.9
Q ss_pred CcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcC-------CCCCCcccc
Q 019980 281 FSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKIN-------KVCPVCSAE 326 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~k-------ksCPvCR~~ 326 (333)
.+|.||++.+.....+-.. .|-|+||..||..|-+.. -.||.|+..
T Consensus 192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3499999999866443332 388999999999998643 269999843
No 73
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0039 Score=61.74 Aligned_cols=43 Identities=26% Similarity=0.518 Sum_probs=32.2
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..-|+||+..... .+.+||||.-| |+.-- +...+||+||+.|.
T Consensus 305 p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3449999999876 48899999866 65443 33445999999875
No 74
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0021 Score=62.23 Aligned_cols=41 Identities=27% Similarity=0.600 Sum_probs=30.4
Q ss_pred CcccccccccCCCCeeEEeCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHS-YHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~-FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|+||+..-.. ...|+|||. -|.+|-+.. +.|||||+.|.
T Consensus 301 ~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 301 RLCAICMDAPRD---CVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHhcCCcc---eEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 349999877443 478999994 577776543 38999998774
No 75
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.76 E-value=0.01 Score=56.52 Aligned_cols=50 Identities=20% Similarity=0.532 Sum_probs=39.3
Q ss_pred CCCcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 279 LGFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
..+.|||+...|....+++.| ||||+|...||..- +....||+|-.++..
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTE 162 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcccc
Confidence 456699999999665555554 89999999999986 345689999988763
No 76
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.70 E-value=0.0083 Score=53.53 Aligned_cols=45 Identities=29% Similarity=0.820 Sum_probs=32.7
Q ss_pred CCcccccccccCCCCeeEEeCC--CC---cccHHHHHHHHhcC--CCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSC--KH---SYHSECINNWLKIN--KVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPC--gH---~FH~~CI~~WL~~k--ksCPvCR~~V~ 328 (333)
...|-||++.... ..-|| +. ..|..|+.+|+..+ .+||+|+.+..
T Consensus 8 ~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 8 DKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 3459999888532 23465 44 56999999999754 58999998754
No 77
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.66 E-value=0.0051 Score=66.59 Aligned_cols=43 Identities=28% Similarity=0.699 Sum_probs=35.2
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|.+|--.+..+ .+...|+|.||..|+. .....||.|+.++.
T Consensus 841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 3499999988876 5666799999999998 45678999998654
No 78
>PHA02862 5L protein; Provisional
Probab=95.57 E-value=0.0096 Score=52.41 Aligned_cols=45 Identities=22% Similarity=0.639 Sum_probs=31.6
Q ss_pred cccccccccCCCCeeEEeCC---CCcccHHHHHHHHhc--CCCCCCcccccc
Q 019980 282 SCVICRLDYEDGETLTVLSC---KHSYHSECINNWLKI--NKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPC---gH~FH~~CI~~WL~~--kksCPvCR~~V~ 328 (333)
.|-||+..-... +.-..| ....|..|+.+|+.. +..||+|+.+..
T Consensus 4 iCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 4 ICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred EEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 499999985433 211113 246899999999974 458999998754
No 79
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.48 E-value=0.011 Score=57.54 Aligned_cols=42 Identities=29% Similarity=0.674 Sum_probs=33.9
Q ss_pred CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHh-cCCCCCCccc
Q 019980 281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLK-INKVCPVCSA 325 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~-~kksCPvCR~ 325 (333)
+.|+.|..-+..+ .++| |+|.||..||..-|. .-+.||.|.+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 5599998887766 3445 899999999998775 5579999976
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.24 E-value=0.0092 Score=57.61 Aligned_cols=43 Identities=33% Similarity=0.647 Sum_probs=37.6
Q ss_pred ccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
|+||.+.+.... .+..++|+|.-|..|+.......-+||+|.+
T Consensus 161 cPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 161 CPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 999999887654 4567899999999999999888899999998
No 81
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.07 E-value=0.011 Score=41.53 Aligned_cols=41 Identities=22% Similarity=0.711 Sum_probs=23.7
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC--CCCCc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK--VCPVC 323 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk--sCPvC 323 (333)
|.+|.+-...|..-....|+-.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888877773222223999999999999998665 79998
No 82
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.03 E-value=0.0085 Score=43.30 Aligned_cols=43 Identities=23% Similarity=0.671 Sum_probs=26.4
Q ss_pred ccccccccCCCCeeEEeCC-CCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 283 CVICRLDYEDGETLTVLSC-KHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPC-gH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
|--|+-..+ ..+.| .|..|..|+...|.++..||+|.+++++.
T Consensus 5 CKsCWf~~k-----~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 5 CKSCWFANK-----GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp --SS-S--S-----SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred ChhhhhcCC-----CeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 777776543 24557 59999999999999999999999999864
No 83
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.01 E-value=0.014 Score=57.01 Aligned_cols=42 Identities=24% Similarity=0.635 Sum_probs=34.5
Q ss_pred CCcccccccccCCCCeeEEeCC--CCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSC--KHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPC--gH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
...|+||...+..+ ++.| ||..|..|-. +.++.||.||.+|.
T Consensus 48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34599999999887 5556 7888888875 47789999999987
No 84
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.56 E-value=0.019 Score=62.68 Aligned_cols=31 Identities=23% Similarity=0.594 Sum_probs=26.6
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHH
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWL 314 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL 314 (333)
|.||...+... +..+.||+|.||+.||.+-.
T Consensus 820 C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 820 CDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred hHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 99999988754 67788999999999997665
No 85
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.94 E-value=0.041 Score=54.23 Aligned_cols=45 Identities=22% Similarity=0.389 Sum_probs=36.7
Q ss_pred CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
...|+||+.....+ .+|. -|-+||..||.+.+...+.|||=..++
T Consensus 300 ~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 300 REVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred cccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 34599999998776 3443 699999999999999999999865554
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.75 E-value=0.026 Score=55.27 Aligned_cols=42 Identities=29% Similarity=0.716 Sum_probs=30.3
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
.|--|=-.+.. .-+.+||+|+||.+|... ..-|.||.|--.|
T Consensus 92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 47777555442 236679999999999754 3568999997665
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.67 E-value=0.028 Score=60.47 Aligned_cols=43 Identities=23% Similarity=0.664 Sum_probs=34.7
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC--CCCCCcccccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN--KVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~ 328 (333)
.|.||++ .+.....+|+|.||..|+..-+... ..||+||..+.
T Consensus 456 ~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 456 WCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred ccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 4999999 3556788899999999999888543 36999997654
No 88
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.99 E-value=0.03 Score=63.25 Aligned_cols=44 Identities=30% Similarity=0.709 Sum_probs=37.4
Q ss_pred CCcccccccccC-CCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccc
Q 019980 280 GFSCVICRLDYE-DGETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326 (333)
Q Consensus 280 ~~~C~ICLe~f~-~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~ 326 (333)
...|.||+..+. .+ .+..|+|.||..|+..|+..+..||+|+..
T Consensus 1153 ~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 345999999987 33 456699999999999999999999999843
No 89
>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=92.92 E-value=0.15 Score=51.15 Aligned_cols=28 Identities=29% Similarity=0.899 Sum_probs=22.4
Q ss_pred CCCcccHHHHHHHHhc-------------CCCCCCcccccc
Q 019980 301 CKHSYHSECINNWLKI-------------NKVCPVCSAEVS 328 (333)
Q Consensus 301 CgH~FH~~CI~~WL~~-------------kksCPvCR~~V~ 328 (333)
|...+|..|+.+|+.. +-.||+||+...
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 5677899999999943 237999999865
No 90
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.64 E-value=0.056 Score=50.16 Aligned_cols=41 Identities=27% Similarity=0.730 Sum_probs=29.7
Q ss_pred ccccccccCCCCeeEEeCCCC-cccHHHHHHHHhcCCCCCCccccccCC
Q 019980 283 CVICRLDYEDGETLTVLSCKH-SYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH-~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
|-+|.+. +-.+..|||.| ++|..|=.. .+.||+|+..+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence 7777554 45578899987 578888754 45699999877644
No 91
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.61 E-value=0.13 Score=51.93 Aligned_cols=49 Identities=24% Similarity=0.475 Sum_probs=39.6
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC---CCCCCccccccC
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN---KVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k---ksCPvCR~~V~~ 329 (333)
+.|||=.+.-...+.-..|.|||+....-|.+--+.. ..||+|=.+...
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLA 386 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCH
Confidence 5599988888877788999999999999999976533 479999665543
No 92
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.50 E-value=0.081 Score=52.56 Aligned_cols=47 Identities=21% Similarity=0.483 Sum_probs=35.9
Q ss_pred ccccccccCCCCe-eEEeCCCCcccHHHHHHHHh-cCCCCCCccccccC
Q 019980 283 CVICRLDYEDGET-LTVLSCKHSYHSECINNWLK-INKVCPVCSAEVST 329 (333)
Q Consensus 283 C~ICLe~f~~gd~-l~~LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~~ 329 (333)
|+.|++++...++ ..-+|||-..|.-|....-+ -+..||-||+....
T Consensus 17 cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 17 CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 9999999987765 34467999888888766443 35689999987643
No 93
>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=91.64 E-value=0.066 Score=50.93 Aligned_cols=49 Identities=18% Similarity=0.470 Sum_probs=35.7
Q ss_pred CCcccccccccCC-CCee-EEeC-CCCcccHHHHHHHHhcCC-CCC--Ccccccc
Q 019980 280 GFSCVICRLDYED-GETL-TVLS-CKHSYHSECINNWLKINK-VCP--VCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~-gd~l-~~LP-CgH~FH~~CI~~WL~~kk-sCP--vCR~~V~ 328 (333)
+..|+||..+... ++.. .+-| |-|..|.+|+.+.|.... .|| -|.+-+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 3459999987653 4433 2336 999999999999997664 799 7866543
No 94
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.64 E-value=0.18 Score=37.36 Aligned_cols=41 Identities=27% Similarity=0.801 Sum_probs=31.9
Q ss_pred cccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCC--cccc
Q 019980 282 SCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPV--CSAE 326 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPv--CR~~ 326 (333)
.|.+|-..|..++-+++.| |+-.||+.|... ...|-+ |...
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4999999999888788887 999999999754 445544 5443
No 95
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=91.60 E-value=0.042 Score=58.83 Aligned_cols=45 Identities=24% Similarity=0.724 Sum_probs=37.0
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhc---CCCCCCccccccC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSAEVST 329 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~~V~~ 329 (333)
+|+||+..+..+ +.+.|.|.|+..|+..-|.. .+.||+|+..+..
T Consensus 23 Ec~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 23 ECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred cCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 399999999987 77889999999998776644 4589999977653
No 96
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=91.19 E-value=0.48 Score=51.85 Aligned_cols=17 Identities=29% Similarity=0.612 Sum_probs=11.6
Q ss_pred CCCCCCHHHHHHhhhhc
Q 019980 229 DPDELSYEELLALGEVV 245 (333)
Q Consensus 229 d~D~msYEeLlaL~e~v 245 (333)
+-+.|+-+++.+|...+
T Consensus 725 ~~~~mdDe~m~~lD~~L 741 (784)
T PF04931_consen 725 DDEDMDDEQMMALDEQL 741 (784)
T ss_pred cccccCHHHHHHHHHHH
Confidence 34567778888876655
No 97
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=91.09 E-value=0.25 Score=44.26 Aligned_cols=12 Identities=42% Similarity=0.985 Sum_probs=10.3
Q ss_pred CCCCccccccCC
Q 019980 319 VCPVCSAEVSTS 330 (333)
Q Consensus 319 sCPvCR~~V~~s 330 (333)
.||+||..|..+
T Consensus 82 ~CPLCRG~V~GW 93 (162)
T PF07800_consen 82 ACPLCRGEVKGW 93 (162)
T ss_pred cCccccCceece
Confidence 699999999754
No 98
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.87 E-value=0.11 Score=49.54 Aligned_cols=48 Identities=25% Similarity=0.641 Sum_probs=35.4
Q ss_pred CcccccccccCCCCe-eEEeCCC-----CcccHHHHHHHHh--cCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGET-LTVLSCK-----HSYHSECINNWLK--INKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~-l~~LPCg-----H~FH~~CI~~WL~--~kksCPvCR~~V~ 328 (333)
..|-||......... ....||. +..|..|+.+|+. .+..|.+|.....
T Consensus 79 ~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 79 PICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 459999997764322 3566764 5679999999998 4568999987554
No 99
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=90.80 E-value=0.2 Score=51.31 Aligned_cols=10 Identities=30% Similarity=0.371 Sum_probs=4.0
Q ss_pred hhhhhhcccc
Q 019980 152 EDAFDVHAHE 161 (333)
Q Consensus 152 ed~~~~~~~~ 161 (333)
|-+|..-..+
T Consensus 106 E~GFAdSDDE 115 (458)
T PF10446_consen 106 EAGFADSDDE 115 (458)
T ss_pred cccccccccc
Confidence 3344443333
No 100
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.37 E-value=0.15 Score=55.22 Aligned_cols=39 Identities=33% Similarity=0.877 Sum_probs=28.2
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPV 322 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPv 322 (333)
|.||...+ .|-..++..|+|+.|..|...|+...-.||.
T Consensus 1031 C~~C~l~V-~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAV-RGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEe-eccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 44443332 2233445679999999999999999999984
No 101
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.19 E-value=0.11 Score=56.33 Aligned_cols=52 Identities=8% Similarity=0.185 Sum_probs=38.2
Q ss_pred CCcccccccccCCC-CeeEEeC---CCCcccHHHHHHHHh------cCCCCCCccccccCCC
Q 019980 280 GFSCVICRLDYEDG-ETLTVLS---CKHSYHSECINNWLK------INKVCPVCSAEVSTSG 331 (333)
Q Consensus 280 ~~~C~ICLe~f~~g-d~l~~LP---CgH~FH~~CI~~WL~------~kksCPvCR~~V~~s~ 331 (333)
...|.||+..+... +....+| |.|.||..||..|+. ++-.|++|...|.+++
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 34588888887762 2345566 999999999999994 2346899988876553
No 102
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.44 E-value=0.12 Score=55.04 Aligned_cols=43 Identities=23% Similarity=0.470 Sum_probs=31.1
Q ss_pred cccccccccCCCCee-EEeCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 282 SCVICRLDYEDGETL-TVLSCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l-~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
.|.||+..|...... +.|-|+|+.|..|+..- .+.+|| |++.-
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~De 56 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKRDE 56 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCccc
Confidence 499998888755322 33459999999999764 566788 76543
No 103
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=89.31 E-value=0.12 Score=54.62 Aligned_cols=42 Identities=26% Similarity=0.773 Sum_probs=27.1
Q ss_pred Cccccccc-----ccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 281 FSCVICRL-----DYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 281 ~~C~ICLe-----~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
+.|.||.. .|......+...|+++||..|+.. ++..||.|-+
T Consensus 512 fiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred eeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 45888833 232222333446999999999865 5556999954
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.27 E-value=0.2 Score=48.97 Aligned_cols=28 Identities=18% Similarity=0.622 Sum_probs=22.7
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCCcccccc
Q 019980 301 CKHSYHSECINNWLK-------------INKVCPVCSAEVS 328 (333)
Q Consensus 301 CgH~FH~~CI~~WL~-------------~kksCPvCR~~V~ 328 (333)
|...+|..|+.+|+. .+-+||+||+...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 677889999999983 2458999999865
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.06 E-value=0.26 Score=53.72 Aligned_cols=47 Identities=34% Similarity=0.764 Sum_probs=35.4
Q ss_pred CcccccccccCCCCeeEEeCCCC-----cccHHHHHHHHhc--CCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKH-----SYHSECINNWLKI--NKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH-----~FH~~CI~~WL~~--kksCPvCR~~V~ 328 (333)
..|-||+.+=..++.+ .-||+. ..|.+|+..|+.. ++.|-+|+.++.
T Consensus 13 ~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 13 RSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred hhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 3499999887666554 346653 4899999999974 468999998753
No 106
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.96 E-value=0.33 Score=42.38 Aligned_cols=47 Identities=32% Similarity=0.726 Sum_probs=34.9
Q ss_pred cccccccccCCCCeeEEe-C---CCCcccHHHH-HHHHh--cCCCCCCccccccCCC
Q 019980 282 SCVICRLDYEDGETLTVL-S---CKHSYHSECI-NNWLK--INKVCPVCSAEVSTSG 331 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~L-P---CgH~FH~~CI-~~WL~--~kksCPvCR~~V~~s~ 331 (333)
+|-||.+..... +-| | ||-..|..|- .-|-- ...+||+|+++..+++
T Consensus 82 eCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 82 ECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred eccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 399999987655 333 3 8999999984 55642 3468999999987665
No 107
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.78 E-value=0.24 Score=47.51 Aligned_cols=49 Identities=31% Similarity=0.662 Sum_probs=34.0
Q ss_pred CCCcccccccccCCCCee-EEeCC-----CCcccHHHHHHHHhcC--------CCCCCccccc
Q 019980 279 LGFSCVICRLDYEDGETL-TVLSC-----KHSYHSECINNWLKIN--------KVCPVCSAEV 327 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l-~~LPC-----gH~FH~~CI~~WL~~k--------ksCPvCR~~V 327 (333)
.+..|-||+..=+..... -+-|| .|=.|..||..|+-.+ -+||-|+++.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 345699998875544222 23466 3669999999999433 2699999874
No 108
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.71 E-value=0.26 Score=49.70 Aligned_cols=37 Identities=22% Similarity=0.723 Sum_probs=27.9
Q ss_pred CcccccccccCCC-CeeEEeCCCCcccHHHHHHHHhcC
Q 019980 281 FSCVICRLDYEDG-ETLTVLSCKHSYHSECINNWLKIN 317 (333)
Q Consensus 281 ~~C~ICLe~f~~g-d~l~~LPCgH~FH~~CI~~WL~~k 317 (333)
..|.||+..+... ....++.|+|.||..|+.+.+..+
T Consensus 147 ~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 147 EECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 3499999444433 455566799999999999988754
No 109
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=86.61 E-value=0.49 Score=51.72 Aligned_cols=20 Identities=25% Similarity=0.340 Sum_probs=9.1
Q ss_pred ccCCCCCCC--HHHHHHhhhhc
Q 019980 226 EEVDPDELS--YEELLALGEVV 245 (333)
Q Consensus 226 ~~vd~D~ms--YEeLlaL~e~v 245 (333)
..+|-+.|- -+.|-++....
T Consensus 727 ~~mdDe~m~~lD~~La~~Fk~r 748 (784)
T PF04931_consen 727 EDMDDEQMMALDEQLAAIFKER 748 (784)
T ss_pred cccCHHHHHHHHHHHHHHHHHH
Confidence 345444442 24555555443
No 110
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=86.20 E-value=0.66 Score=51.42 Aligned_cols=9 Identities=22% Similarity=0.032 Sum_probs=5.0
Q ss_pred HHHHHHHhh
Q 019980 80 ERAYMMLRM 88 (333)
Q Consensus 80 e~~y~~~~~ 88 (333)
++.-||++|
T Consensus 1380 ~~~~d~dq~ 1388 (1516)
T KOG1832|consen 1380 EDQEDMDQF 1388 (1516)
T ss_pred cChhhhhhh
Confidence 455566655
No 111
>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=84.82 E-value=1 Score=32.59 Aligned_cols=42 Identities=21% Similarity=0.415 Sum_probs=20.6
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC-----CCCCCcccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN-----KVCPVCSAE 326 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k-----ksCPvCR~~ 326 (333)
.|+|....+..+ ++...|.|.-+. =+..||... -.||+|+++
T Consensus 4 ~CPls~~~i~~P--~Rg~~C~H~~CF-Dl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKNCKHLQCF-DLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT--SS--E-EHHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCcCcccceE-CHHHHHHHhhccCCeECcCCcCc
Confidence 499998888765 556679997332 155666432 269999864
No 112
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.72 E-value=0.45 Score=49.89 Aligned_cols=41 Identities=29% Similarity=0.899 Sum_probs=35.1
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|.||+... ..+..+|. |..|+..|+-.+.+||+|++.+.
T Consensus 480 ~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 480 DVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred CcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhh
Confidence 4499999998 34677888 89999999999999999987765
No 113
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=83.77 E-value=0.88 Score=49.42 Aligned_cols=40 Identities=20% Similarity=0.486 Sum_probs=29.9
Q ss_pred CcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCC
Q 019980 281 FSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPV 322 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPv 322 (333)
..|.+|--.+.. .....+ |+|.-|..|+.+|+...+.||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 458888665542 223333 9999999999999999988876
No 114
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.66 E-value=0.71 Score=42.49 Aligned_cols=38 Identities=32% Similarity=0.808 Sum_probs=26.6
Q ss_pred ccccccc-----ccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccc
Q 019980 282 SCVICRL-----DYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 282 ~C~ICLe-----~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
.|-||-. +|... .+++.+ |+.+||..|.. ++.||.|.+
T Consensus 154 iCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 3889975 23332 344444 99999999986 267999965
No 115
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=83.13 E-value=0.6 Score=43.71 Aligned_cols=41 Identities=32% Similarity=0.842 Sum_probs=33.9
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR 324 (333)
.|-+|..-.--+ ++.-.|+-.||..|+...|++...||.|.
T Consensus 183 ~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 183 NCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 499998876655 33445899999999999999999999993
No 116
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.55 E-value=0.73 Score=50.23 Aligned_cols=44 Identities=27% Similarity=0.527 Sum_probs=33.3
Q ss_pred cccccccccCCC----CeeEEeCCCCcccHHHHHHHHhcCCCCCCcccc
Q 019980 282 SCVICRLDYEDG----ETLTVLSCKHSYHSECINNWLKINKVCPVCSAE 326 (333)
Q Consensus 282 ~C~ICLe~f~~g----d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~ 326 (333)
.|.-|+...... ..++++-|+|.||..|+.--+.+++ |-.|...
T Consensus 786 rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~~ 833 (846)
T KOG2066|consen 786 RCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESGK 833 (846)
T ss_pred hhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhce
Confidence 499999887643 4677889999999999977666555 7666543
No 117
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=80.53 E-value=0.85 Score=44.04 Aligned_cols=47 Identities=19% Similarity=0.534 Sum_probs=33.7
Q ss_pred CcccccccccCCCCe-eEEeC---CCCcccHHHHHHHHh---------cCCCCCCccccc
Q 019980 281 FSCVICRLDYEDGET-LTVLS---CKHSYHSECINNWLK---------INKVCPVCSAEV 327 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~-l~~LP---CgH~FH~~CI~~WL~---------~kksCPvCR~~V 327 (333)
.+|-||...+...+. ....| |.-++|..|+..-+. ....||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 359999999943333 33333 999999999998442 235899999855
No 118
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.05 E-value=0.99 Score=45.60 Aligned_cols=42 Identities=26% Similarity=0.592 Sum_probs=31.1
Q ss_pred ccccccccCC--CCeeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980 283 CVICRLDYED--GETLTVLSCKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 283 C~ICLe~f~~--gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR 324 (333)
|++|.-.+.. |-...+..|+|.||..|...|......|..|-
T Consensus 309 CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 309 CPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred CcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 8888776653 33444455999999999999988888775543
No 119
>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=79.83 E-value=1.5 Score=28.29 Aligned_cols=37 Identities=24% Similarity=0.617 Sum_probs=25.8
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
|..|...+........ .=+..||..|+ .|..|++.|.
T Consensus 2 C~~C~~~i~~~~~~~~-~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLR-ALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEE-eCCccccccCC--------CCcccCCcCc
Confidence 8889888876523322 23678888776 6888888764
No 120
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.65 E-value=3.5 Score=39.76 Aligned_cols=49 Identities=18% Similarity=0.425 Sum_probs=36.9
Q ss_pred CCCcccccccccCCCCeeEE-eCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 279 LGFSCVICRLDYEDGETLTV-LSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~-LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
..+.|+|---+|........ .+|||+|-..-+.+. ...+|++|...+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQE 159 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccc
Confidence 46779998888776554444 469999998888774 47789999887653
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=76.52 E-value=2.2 Score=42.29 Aligned_cols=50 Identities=20% Similarity=0.361 Sum_probs=36.8
Q ss_pred CcccccccccCCCCe-eEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 281 FSCVICRLDYEDGET-LTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~-l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
..|+||-+.....+. ..-.||++..|..|+..-......||.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 459999997743322 22235888888889888888889999999876543
No 122
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.91 E-value=1.4 Score=45.08 Aligned_cols=34 Identities=26% Similarity=0.703 Sum_probs=28.8
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN 317 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k 317 (333)
.|.||...+.. .+..+.|+|.|+..|+...|.++
T Consensus 72 ~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 72 QCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred cCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 39999999876 56778899999999999988654
No 123
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=74.40 E-value=3.7 Score=45.93 Aligned_cols=9 Identities=11% Similarity=0.549 Sum_probs=3.4
Q ss_pred CCCcccchH
Q 019980 61 TNLSQVDAD 69 (333)
Q Consensus 61 ~~~~~~~~d 69 (333)
..+.-++.+
T Consensus 1351 s~iaTi~v~ 1359 (1516)
T KOG1832|consen 1351 SDIATIPVD 1359 (1516)
T ss_pred ccceeeecc
Confidence 333333333
No 124
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.53 E-value=1.9 Score=42.09 Aligned_cols=38 Identities=18% Similarity=0.364 Sum_probs=28.9
Q ss_pred CCCcccccccccCCCCeeEEeC--CCCcccHHHHHHHHhcC
Q 019980 279 LGFSCVICRLDYEDGETLTVLS--CKHSYHSECINNWLKIN 317 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LP--CgH~FH~~CI~~WL~~k 317 (333)
..+.|.+|.+.++...- +.+| =.|+||.-|-..-+|..
T Consensus 267 apLcCTLC~ERLEDTHF-VQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHF-VQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCce-eecCCCcccceecccCHHHHHhh
Confidence 45779999999887532 2333 38999999999988754
No 125
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.76 E-value=1.6 Score=41.94 Aligned_cols=31 Identities=13% Similarity=0.219 Sum_probs=27.7
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKI 316 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~ 316 (333)
|+.||.++..+ ++.|=||+|+..||...+..
T Consensus 46 CsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 46 CSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred eeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 99999999888 78889999999999998743
No 126
>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 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=62.75 E-value=3.3 Score=29.08 Aligned_cols=43 Identities=33% Similarity=0.735 Sum_probs=29.7
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHh------cCCCCCCccc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLK------INKVCPVCSA 325 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~------~kksCPvCR~ 325 (333)
|.||......+..+.--.|+..||..|+..=+. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 899999544444444446999999999866543 2347888864
No 128
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=61.69 E-value=9.4 Score=38.00 Aligned_cols=45 Identities=22% Similarity=0.461 Sum_probs=32.7
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc---CCCCCCccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI---NKVCPVCSA 325 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~---kksCPvCR~ 325 (333)
+.||+--+.-........|.|||+.-..-+.+--+. +..||+|-.
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 559887666665566678899999998888774332 247999943
No 129
>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=60.93 E-value=4.5 Score=28.74 Aligned_cols=39 Identities=21% Similarity=0.520 Sum_probs=25.4
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
|..|...+.....++ ..-+..||..|+ +|-.|++.|...
T Consensus 1 C~~C~~~I~~~~~~~-~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEE-EETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEE-EeCCcEEEcccc--------ccCCCCCccCCC
Confidence 666777777554332 246777887665 688888877654
No 130
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=58.79 E-value=9.3 Score=38.15 Aligned_cols=44 Identities=20% Similarity=0.419 Sum_probs=33.9
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
.|-.|.........++.-.|+|.||..|=.--=..-..||.|..
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 49999888877777777779999999995443344568999974
No 131
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=58.56 E-value=3.8 Score=40.66 Aligned_cols=43 Identities=12% Similarity=0.134 Sum_probs=31.7
Q ss_pred ccccccccCCCCeeEEeCCCC-cccHHHHHHH-HhcCCCCCCcccccc
Q 019980 283 CVICRLDYEDGETLTVLSCKH-SYHSECINNW-LKINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH-~FH~~CI~~W-L~~kksCPvCR~~V~ 328 (333)
|+||+..-. .+...+|+| +|+..|..+- +++...||+|.+.+.
T Consensus 139 ~iqq~tnt~---I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ 183 (394)
T KOG2113|consen 139 RIQQFTNTY---IATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVT 183 (394)
T ss_pred hheecccce---EeeeccCCCceEEEecCCcchhhhccccchhhhhhh
Confidence 999966532 223446987 7999997776 778889999987664
No 132
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=57.38 E-value=3.7 Score=29.73 Aligned_cols=10 Identities=30% Similarity=1.132 Sum_probs=5.5
Q ss_pred CCCCcccccc
Q 019980 319 VCPVCSAEVS 328 (333)
Q Consensus 319 sCPvCR~~V~ 328 (333)
.||+|.+++.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999999875
No 133
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=57.07 E-value=3.7 Score=48.05 Aligned_cols=47 Identities=28% Similarity=0.586 Sum_probs=38.4
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCC----CCCCccccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINK----VCPVCSAEV 327 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kk----sCPvCR~~V 327 (333)
..|.||+........+...-|.-.||..|+.+-+.... .||-||..-
T Consensus 1109 ~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1109 ALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 55999999988766666666999999999999886553 799999764
No 134
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=56.07 E-value=10 Score=37.75 Aligned_cols=51 Identities=24% Similarity=0.629 Sum_probs=34.3
Q ss_pred CCcccccccccC---------------CCC-eeEEeCCCCcccHHHHHHHHhc---------CCCCCCccccccCC
Q 019980 280 GFSCVICRLDYE---------------DGE-TLTVLSCKHSYHSECINNWLKI---------NKVCPVCSAEVSTS 330 (333)
Q Consensus 280 ~~~C~ICLe~f~---------------~gd-~l~~LPCgH~FH~~CI~~WL~~---------kksCPvCR~~V~~s 330 (333)
..+|+||+..-. .|- ....-||+|+--.+-+.-|-+. +..||.|-..+...
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 467999987422 111 1223489998888888889754 24799998877543
No 135
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=54.35 E-value=3.4 Score=40.58 Aligned_cols=40 Identities=20% Similarity=0.591 Sum_probs=29.7
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
.|+-|.+.+.+.+.+++ .=.|+||..|+ .|-+|++.|.+.
T Consensus 94 KCsaC~~GIpPtqVVRk-Aqd~VYHl~CF--------~C~iC~R~L~TG 133 (383)
T KOG4577|consen 94 KCSACQEGIPPTQVVRK-AQDFVYHLHCF--------ACFICKRQLATG 133 (383)
T ss_pred cchhhcCCCChHHHHHH-hhcceeehhhh--------hhHhhhcccccC
Confidence 39999888876544433 36899999997 488898887654
No 136
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=54.14 E-value=12 Score=30.92 Aligned_cols=36 Identities=25% Similarity=0.503 Sum_probs=29.8
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI 316 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~ 316 (333)
...|.||-..+..|++.+.++ +-..|..|+..=+..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhc
Confidence 345999999999999998888 666899999775543
No 137
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=53.73 E-value=14 Score=41.07 Aligned_cols=19 Identities=11% Similarity=0.127 Sum_probs=9.2
Q ss_pred cccchHHHHHHHHHHHHHH
Q 019980 64 SQVDADLALARTLQEQERA 82 (333)
Q Consensus 64 ~~~~~d~~~a~~lq~qe~~ 82 (333)
|.++.--.-+..|+..|+.
T Consensus 272 T~EE~a~ee~erLeklE~~ 290 (840)
T PF04147_consen 272 TEEEIAKEEKERLEKLEEE 290 (840)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 4444444445566555544
No 138
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=53.38 E-value=11 Score=37.51 Aligned_cols=44 Identities=2% Similarity=-0.063 Sum_probs=33.0
Q ss_pred CCcccccccccCCCCeeEEeCCCC-cccHHHHHHHHhcCCCCCCcccccc
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKH-SYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH-~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..+|..|-..... .+..+|+| .||..|.. +....+||+|...+-
T Consensus 343 ~~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred hcccccccCceee---eEeecCCcccChhhhhh--cccCCccccccccce
Confidence 4558888666543 35668998 68999987 678889999987654
No 139
>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=52.89 E-value=4.5 Score=41.17 Aligned_cols=32 Identities=22% Similarity=0.638 Sum_probs=0.0
Q ss_pred EeCCCCcccHHHHHHHHhcC---------CCCCCccccccC
Q 019980 298 VLSCKHSYHSECINNWLKIN---------KVCPVCSAEVST 329 (333)
Q Consensus 298 ~LPCgH~FH~~CI~~WL~~k---------ksCPvCR~~V~~ 329 (333)
.-||||+--.+...-|-+.. ..||.|-..|..
T Consensus 362 F~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 362 FNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp -----------------------------------------
T ss_pred ecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 35899998888999997542 479999888763
No 140
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=52.07 E-value=10 Score=24.16 Aligned_cols=29 Identities=24% Similarity=0.556 Sum_probs=11.7
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHH
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECI 310 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI 310 (333)
.|.+|.......-...-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 38899888876445555679999999996
No 141
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=51.62 E-value=15 Score=39.71 Aligned_cols=43 Identities=19% Similarity=0.525 Sum_probs=25.0
Q ss_pred CCCcccccccccCCCCeeEEeCCCCcccH--HHHH-HHHh-cC-----CCCCCcccccc
Q 019980 279 LGFSCVICRLDYEDGETLTVLSCKHSYHS--ECIN-NWLK-IN-----KVCPVCSAEVS 328 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LPCgH~FH~--~CI~-~WL~-~k-----ksCPvCR~~V~ 328 (333)
..+.|+|+..-+ .+||.+..|. .|.. .|+. .+ -.||+|.+.+.
T Consensus 305 vSL~CPl~~~Rm-------~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 305 VSLNCPLSKMRM-------SLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred eEecCCccccee-------ecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc
Confidence 345688887664 4454444443 6643 3442 11 27999988764
No 142
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=51.12 E-value=9.1 Score=28.09 Aligned_cols=42 Identities=24% Similarity=0.553 Sum_probs=21.4
Q ss_pred ccccccccCCCC------eeEEeC-CCCcccHHHHHHHHhcCCCCCCcc
Q 019980 283 CVICRLDYEDGE------TLTVLS-CKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 283 C~ICLe~f~~gd------~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR 324 (333)
|--|+..|..+. .....| |++.|+..|=.--=.+-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 666777777652 223344 999999999433223445899884
No 143
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=51.01 E-value=40 Score=37.57 Aligned_cols=10 Identities=30% Similarity=0.305 Sum_probs=5.2
Q ss_pred chHHHHHHHH
Q 019980 180 SDEAYARALQ 189 (333)
Q Consensus 180 ~dE~lar~Lq 189 (333)
+-+.|..+|.
T Consensus 427 s~eel~~lL~ 436 (840)
T PF04147_consen 427 SHEELLELLD 436 (840)
T ss_pred CHHHHHHHHh
Confidence 3455555554
No 144
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=49.61 E-value=8 Score=24.44 Aligned_cols=13 Identities=62% Similarity=1.132 Sum_probs=9.7
Q ss_pred CCCCCccccccCC
Q 019980 318 KVCPVCSAEVSTS 330 (333)
Q Consensus 318 ksCPvCR~~V~~s 330 (333)
++||-|++.|+.+
T Consensus 1 K~CP~C~~~V~~~ 13 (26)
T PF10571_consen 1 KTCPECGAEVPES 13 (26)
T ss_pred CcCCCCcCCchhh
Confidence 4688888888654
No 145
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=48.89 E-value=1.7 Score=41.93 Aligned_cols=44 Identities=18% Similarity=0.285 Sum_probs=17.0
Q ss_pred ccccccccCCCCeeEEe--CCCCcccHHHHHHHHhcCCCCCCcccc
Q 019980 283 CVICRLDYEDGETLTVL--SCKHSYHSECINNWLKINKVCPVCSAE 326 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~L--PCgH~FH~~CI~~WL~~kksCPvCR~~ 326 (333)
|+||-..-..+.....- --.|.+|.-|-..|--.+..||.|-..
T Consensus 175 CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 175 CPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 99997753311000000 013446666888888788899999543
No 146
>COG3076 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.69 E-value=18 Score=30.91 Aligned_cols=43 Identities=21% Similarity=0.397 Sum_probs=22.5
Q ss_pred CCCCCcccchHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCcccccCC
Q 019980 59 PFTNLSQVDADLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHDE 108 (333)
Q Consensus 59 ~f~~~~~~~~d~~~a~~lq~qe~~y~~~~~~~~~~~~~~~~~~~~y~~~~ 108 (333)
=|.-.|+|.-+-.|-.+-|+ ....++..-+ .-|-+| |+|+.+-
T Consensus 73 C~Diisev~L~aeiIDaQ~e--~l~~L~Ek~~---~~YDGW--GTY~Edp 115 (135)
T COG3076 73 CCDIISEVALNAELIDAQVE--QLMPLAEKFD---VEYDGW--GTYFEDP 115 (135)
T ss_pred EeehhhhhhcCHHHHHHHHH--HHHHHHHHhC---ceecCc--eeeccCC
Confidence 35556666555444444333 3344444433 567666 5687554
No 147
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.35 E-value=3.2 Score=39.73 Aligned_cols=46 Identities=33% Similarity=0.590 Sum_probs=35.3
Q ss_pred CcccccccccCCCC---eeEEeC--------CCCcccHHHHHHHHhcC-CCCCCcccc
Q 019980 281 FSCVICRLDYEDGE---TLTVLS--------CKHSYHSECINNWLKIN-KVCPVCSAE 326 (333)
Q Consensus 281 ~~C~ICLe~f~~gd---~l~~LP--------CgH~FH~~CI~~WL~~k-ksCPvCR~~ 326 (333)
..|.||...|.... .-+++. |+|..+..|+..-+... ..||.||..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 34999999998322 233456 99999999999988655 589999874
No 148
>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=47.60 E-value=6.2 Score=40.24 Aligned_cols=28 Identities=29% Similarity=0.721 Sum_probs=0.0
Q ss_pred eEEeCCCCcccHHHHHHHHh------cCCCCCCcccc
Q 019980 296 LTVLSCKHSYHSECINNWLK------INKVCPVCSAE 326 (333)
Q Consensus 296 l~~LPCgH~FH~~CI~~WL~------~kksCPvCR~~ 326 (333)
.+-|.|||++.. ..|-. ..+.||+||..
T Consensus 304 ~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 304 WVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -------------------------------------
T ss_pred eeeccccceeee---cccccccccccccccCCCcccc
Confidence 445679998643 35753 24689999975
No 149
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=47.54 E-value=24 Score=29.39 Aligned_cols=24 Identities=25% Similarity=0.634 Sum_probs=19.0
Q ss_pred CCcccHHHHHHHHhc---------CCCCCCccc
Q 019980 302 KHSYHSECINNWLKI---------NKVCPVCSA 325 (333)
Q Consensus 302 gH~FH~~CI~~WL~~---------kksCPvCR~ 325 (333)
.-.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 678999999988843 237999986
No 150
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=47.25 E-value=12 Score=29.09 Aligned_cols=11 Identities=18% Similarity=1.132 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 019980 305 YHSECINNWLK 315 (333)
Q Consensus 305 FH~~CI~~WL~ 315 (333)
||+.||.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999995
No 151
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.10 E-value=12 Score=38.32 Aligned_cols=35 Identities=26% Similarity=0.563 Sum_probs=23.4
Q ss_pred EEeCCCCcccHHHHHHH------------H-------------h-cCCCCCCccccccCCC
Q 019980 297 TVLSCKHSYHSECINNW------------L-------------K-INKVCPVCSAEVSTSG 331 (333)
Q Consensus 297 ~~LPCgH~FH~~CI~~W------------L-------------~-~kksCPvCR~~V~~s~ 331 (333)
+...|+|.||..|...| | . ..+.||.|..++...+
T Consensus 180 v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~ 240 (444)
T KOG1815|consen 180 VDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDG 240 (444)
T ss_pred eeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccC
Confidence 44468888888886543 3 1 2356999999887654
No 152
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.98 E-value=5.2 Score=39.41 Aligned_cols=45 Identities=22% Similarity=0.559 Sum_probs=36.6
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
|-||.-.+..+. +.--|.|.|+..|...|....+.||.||..+.+
T Consensus 108 ~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 108 CYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred eeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 999988877651 122399999999999999999999999987654
No 153
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=46.51 E-value=3.6 Score=40.20 Aligned_cols=36 Identities=28% Similarity=0.575 Sum_probs=30.0
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKIN 317 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~k 317 (333)
.|.||+..|..+.....+.|..+||..|+..|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 599999999876666666677799999999999754
No 154
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.10 E-value=13 Score=38.11 Aligned_cols=8 Identities=38% Similarity=0.580 Sum_probs=4.9
Q ss_pred CCcccccC
Q 019980 100 EAGSYLHD 107 (333)
Q Consensus 100 ~~~~y~~~ 107 (333)
+.+||+.+
T Consensus 267 ~~ss~~ed 274 (514)
T KOG3130|consen 267 GSSSYHED 274 (514)
T ss_pred CCCCcccc
Confidence 56667644
No 155
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=45.70 E-value=6.8 Score=39.43 Aligned_cols=45 Identities=24% Similarity=0.533 Sum_probs=24.3
Q ss_pred CcccccccccCCCCeeEEeC---CCCcc--------cHHHHHHHH-----hcCCCCCCcccc
Q 019980 281 FSCVICRLDYEDGETLTVLS---CKHSY--------HSECINNWL-----KINKVCPVCSAE 326 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LP---CgH~F--------H~~CI~~WL-----~~kksCPvCR~~ 326 (333)
..|++|-.... |=....|. |+-.| |..|+..-- ..+|.||.||+-
T Consensus 16 ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 16 ELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 34999987654 22333454 54433 233433211 234689999964
No 156
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=45.67 E-value=16 Score=29.68 Aligned_cols=28 Identities=25% Similarity=0.783 Sum_probs=20.0
Q ss_pred ccccccccCCCCeeEEeC--CCCcccHHHHHH
Q 019980 283 CVICRLDYEDGETLTVLS--CKHSYHSECINN 312 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LP--CgH~FH~~CI~~ 312 (333)
|.||... .|-.+..-. |...||..|...
T Consensus 58 C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 58 CSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 9999887 442333333 888999999865
No 157
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=44.64 E-value=11 Score=25.38 Aligned_cols=25 Identities=16% Similarity=0.522 Sum_probs=15.1
Q ss_pred cccccccccCCCCe-------eEEe-CCCCccc
Q 019980 282 SCVICRLDYEDGET-------LTVL-SCKHSYH 306 (333)
Q Consensus 282 ~C~ICLe~f~~gd~-------l~~L-PCgH~FH 306 (333)
.|+-|...|..++. ..+. .|+|+|+
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 38888888875442 1222 3777774
No 158
>PRK04023 DNA polymerase II large subunit; Validated
Probab=42.69 E-value=12 Score=42.33 Aligned_cols=47 Identities=15% Similarity=0.218 Sum_probs=33.2
Q ss_pred CCCcccccccccCCCCeeEEeC-CC-----CcccHHHHHHHHhcCCCCCCccccccCCC
Q 019980 279 LGFSCVICRLDYEDGETLTVLS-CK-----HSYHSECINNWLKINKVCPVCSAEVSTSG 331 (333)
Q Consensus 279 ~~~~C~ICLe~f~~gd~l~~LP-Cg-----H~FH~~CI~~WL~~kksCPvCR~~V~~s~ 331 (333)
....|+-|-.... ...+| || ..||..| .+......||-|.+++.+..
T Consensus 625 g~RfCpsCG~~t~----~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 625 GRRKCPSCGKETF----YRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPYS 677 (1121)
T ss_pred cCccCCCCCCcCC----cccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCccc
Confidence 3456998977642 24566 87 4699999 44455578999999887653
No 159
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=42.30 E-value=11 Score=40.05 Aligned_cols=51 Identities=16% Similarity=0.263 Sum_probs=42.5
Q ss_pred CCcccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 280 GFSCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
...|.+|+...........+. |.|.++..||..|=.....||.|++.+...
T Consensus 260 ~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~ 311 (553)
T KOG4430|consen 260 KNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTI 311 (553)
T ss_pred ccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccc
Confidence 455999999887766666665 789999999999998889999999988643
No 160
>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 PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=41.96 E-value=16 Score=29.70 Aligned_cols=35 Identities=20% Similarity=0.434 Sum_probs=27.7
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
|.-|...+..-+.+. |-.||..+..|..|+++|+.
T Consensus 36 C~~C~~~L~~~~lIP------------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 36 CPHCGHPLSWWDLIP------------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CcCCCCcCcccccch------------HHHHHHhCCCCcccCCCCCh
Confidence 988888876654333 55899999999999999874
No 162
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.40 E-value=42 Score=28.55 Aligned_cols=43 Identities=19% Similarity=0.417 Sum_probs=32.4
Q ss_pred cccccccccCCCC-----------eeEEeCCCCcccHHHHHHHHhcCCCCCCcc
Q 019980 282 SCVICRLDYEDGE-----------TLTVLSCKHSYHSECINNWLKINKVCPVCS 324 (333)
Q Consensus 282 ~C~ICLe~f~~gd-----------~l~~LPCgH~FH~~CI~~WL~~kksCPvCR 324 (333)
.|--|+..|..+. ....-.|++.|+..|=.-|-..-..||-|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 3999999987531 122234999999999777777778899996
No 163
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=38.19 E-value=15 Score=27.78 Aligned_cols=14 Identities=29% Similarity=0.888 Sum_probs=11.0
Q ss_pred CCCCCccccccCCC
Q 019980 318 KVCPVCSAEVSTSG 331 (333)
Q Consensus 318 ksCPvCR~~V~~s~ 331 (333)
.+||+|+.++....
T Consensus 40 p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 40 PVCPLCKSPMVSGT 53 (59)
T ss_pred ccCCCcCCccccce
Confidence 68999998876543
No 164
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=37.15 E-value=20 Score=25.90 Aligned_cols=22 Identities=32% Similarity=0.892 Sum_probs=13.8
Q ss_pred CCCcccHHHHHHHHhcCCCCCCc
Q 019980 301 CKHSYHSECINNWLKINKVCPVC 323 (333)
Q Consensus 301 CgH~FH~~CI~~WL~~kksCPvC 323 (333)
|+|.|... |..-+.....||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 67766543 33333567789998
No 165
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=36.90 E-value=15 Score=36.23 Aligned_cols=39 Identities=21% Similarity=0.476 Sum_probs=25.4
Q ss_pred cccccccccCCC-------CeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 282 SCVICRLDYEDG-------ETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 282 ~C~ICLe~f~~g-------d~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
.|+||-..-... ...+.| +|.-|-..|--.+..||.|-.
T Consensus 189 ~CPvCGs~P~~s~v~~~~~~G~RyL-----~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 189 FCPVCGSMPVSSVVQIGTTQGLRYL-----HCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCcchhheeeccCCCCceEE-----EcCCCCCcccccCccCCCCCC
Confidence 399997763211 223333 445577788888889999964
No 166
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.21 E-value=7.5 Score=34.26 Aligned_cols=46 Identities=26% Similarity=0.625 Sum_probs=25.7
Q ss_pred cccccccc-cCCCCeeEEeCCCCcccHHHHHHHH-hcCC---CCCCccccc
Q 019980 282 SCVICRLD-YEDGETLTVLSCKHSYHSECINNWL-KINK---VCPVCSAEV 327 (333)
Q Consensus 282 ~C~ICLe~-f~~gd~l~~LPCgH~FH~~CI~~WL-~~kk---sCPvCR~~V 327 (333)
.|.||+.. |..|.-....-|.-.||..|-.+-- +.++ .|-+|++.+
T Consensus 67 tC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 67 TCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred chhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 39999864 4444333333355556666644322 2233 688888754
No 167
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=36.15 E-value=28 Score=29.09 Aligned_cols=34 Identities=24% Similarity=0.466 Sum_probs=27.4
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHh
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK 315 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~ 315 (333)
..|.||-.++..|+..+.++= -..|..|+..=+.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK-GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC-CcEeHHHHHHHHh
Confidence 459999999999988777765 5589999987554
No 168
>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=36.09 E-value=16 Score=23.89 Aligned_cols=10 Identities=60% Similarity=1.175 Sum_probs=7.1
Q ss_pred CCCCCCcccc
Q 019980 317 NKVCPVCSAE 326 (333)
Q Consensus 317 kksCPvCR~~ 326 (333)
...||+|...
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 3489999753
No 169
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=35.99 E-value=22 Score=29.07 Aligned_cols=35 Identities=20% Similarity=0.658 Sum_probs=26.6
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccC
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
|-||-..+.. =+|.||..|..+ +..|.+|-+.|..
T Consensus 47 C~~CK~~v~q--------~g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 47 CKICKTKVHQ--------PGAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred cccccccccc--------CCCccChhhhcc----cCcccccCCeecc
Confidence 9999766443 267899999643 6789999998853
No 170
>PLN02189 cellulose synthase
Probab=35.83 E-value=32 Score=39.28 Aligned_cols=46 Identities=22% Similarity=0.538 Sum_probs=33.5
Q ss_pred ccccccccC---CCCeeEEeC-CCCcccHHHHHHHHh-cCCCCCCcccccc
Q 019980 283 CVICRLDYE---DGETLTVLS-CKHSYHSECINNWLK-INKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~---~gd~l~~LP-CgH~FH~~CI~~WL~-~kksCPvCR~~V~ 328 (333)
|.||-+.+. .|+..+.+. |+--.|..|..-=.+ -++.||-||+...
T Consensus 37 C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 37 CEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 999999875 455555554 888899999844322 3468999998754
No 171
>PF15295 CCDC50_N: Coiled-coil domain-containing protein 50 N-terminus
Probab=35.76 E-value=33 Score=29.98 Aligned_cols=17 Identities=59% Similarity=0.454 Sum_probs=15.0
Q ss_pred cchHHHHHHHHHHHHHH
Q 019980 66 VDADLALARTLQEQERA 82 (333)
Q Consensus 66 ~~~d~~~a~~lq~qe~~ 82 (333)
|--|.|||..||+||+-
T Consensus 23 V~EDgaLA~~LQeqEIe 39 (132)
T PF15295_consen 23 VLEDGALAHRLQEQEIE 39 (132)
T ss_pred HhhhHHHHHHHHHHHHH
Confidence 45689999999999976
No 172
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=35.50 E-value=17 Score=39.38 Aligned_cols=28 Identities=29% Similarity=0.843 Sum_probs=22.1
Q ss_pred CCCCcccHHHHHHHHhcC-----CCCCCccccc
Q 019980 300 SCKHSYHSECINNWLKIN-----KVCPVCSAEV 327 (333)
Q Consensus 300 PCgH~FH~~CI~~WL~~k-----ksCPvCR~~V 327 (333)
.|+-.||..|+.-|+... -.||-||...
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 489999999999999643 2588887643
No 173
>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=35.46 E-value=59 Score=24.49 Aligned_cols=44 Identities=27% Similarity=0.645 Sum_probs=30.6
Q ss_pred ccccccccCCCC-eeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 283 CVICRLDYEDGE-TLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~~gd-~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
|-.|-.++.... ...+..=...||..|...-| +..||.|-..+.
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 777877776553 22222213479999999876 789999988765
No 174
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=35.02 E-value=29 Score=29.56 Aligned_cols=19 Identities=16% Similarity=0.342 Sum_probs=14.4
Q ss_pred HHHhcCCCCCCccccccCC
Q 019980 312 NWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 312 ~WL~~kksCPvCR~~V~~s 330 (333)
+.|.+.-.|+.|+++++-.
T Consensus 80 KmLGr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLD 98 (114)
T ss_pred hhhchhhccCcCCCcCccC
Confidence 4566667899999998743
No 175
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=34.65 E-value=16 Score=27.28 Aligned_cols=33 Identities=18% Similarity=0.411 Sum_probs=17.0
Q ss_pred cccccccccCCCCeeEEe-CCCCcccHHHHHHHH
Q 019980 282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWL 314 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL 314 (333)
.|.+|...|..-..-... .||++|+..|....+
T Consensus 11 ~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 11 NCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp B-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred cCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 499999999754322223 499999999987655
No 176
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=34.34 E-value=22 Score=35.56 Aligned_cols=41 Identities=27% Similarity=0.581 Sum_probs=26.5
Q ss_pred CcccccccccCCC-----------CeeEEeCCCCc--ccHHHHHHHHh------cCCCCCCcccc
Q 019980 281 FSCVICRLDYEDG-----------ETLTVLSCKHS--YHSECINNWLK------INKVCPVCSAE 326 (333)
Q Consensus 281 ~~C~ICLe~f~~g-----------d~l~~LPCgH~--FH~~CI~~WL~------~kksCPvCR~~ 326 (333)
..|++=|..+..+ +..+-|.|+|+ || .|=. +.+.||+||..
T Consensus 291 PQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 291 PQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCCCcccceeecccccccccccccCCeEEEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 4488877766533 23456789986 55 3642 34689999864
No 177
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=34.14 E-value=72 Score=36.21 Aligned_cols=8 Identities=13% Similarity=0.173 Sum_probs=3.4
Q ss_pred cccccccc
Q 019980 283 CVICRLDY 290 (333)
Q Consensus 283 C~ICLe~f 290 (333)
-+||++.+
T Consensus 202 Sv~a~D~l 209 (1024)
T KOG1999|consen 202 SVFAKDHL 209 (1024)
T ss_pred EEEecccc
Confidence 34444443
No 178
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=33.66 E-value=25 Score=38.83 Aligned_cols=44 Identities=30% Similarity=0.696 Sum_probs=27.7
Q ss_pred CcccccccccCC----C----CeeEEe-C-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 281 FSCVICRLDYED----G----ETLTVL-S-CKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~----g----d~l~~L-P-CgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
..|+-|...|.. | +.+..| | |+|..|..=|. +.+.||+|...+.
T Consensus 1132 ~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1132 LQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSMES 1185 (1189)
T ss_pred CCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChhh
Confidence 447777766652 1 122222 3 99988876663 4578999987664
No 179
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=33.32 E-value=29 Score=24.63 Aligned_cols=34 Identities=21% Similarity=0.434 Sum_probs=24.7
Q ss_pred cccccccccCCCCeeEE-eCCCCcccHHHHHHHHh
Q 019980 282 SCVICRLDYEDGETLTV-LSCKHSYHSECINNWLK 315 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~-LPCgH~FH~~CI~~WL~ 315 (333)
.|.+|-..|..-..... ..||++|+..|....+.
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 39999988876432222 34999999999987654
No 180
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=33.15 E-value=24 Score=31.72 Aligned_cols=44 Identities=18% Similarity=0.362 Sum_probs=28.6
Q ss_pred cccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 284 VICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 284 ~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
.||+..-.....+..-| =.+.||.+|-.+-+. .||.|..+|...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 36766544433333333 356799999877544 699999988754
No 181
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=32.76 E-value=35 Score=35.04 Aligned_cols=43 Identities=21% Similarity=0.424 Sum_probs=34.1
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
|++-|.+|..+ ++++=+.+|-..-|.+||++..+-|+--+.+.
T Consensus 43 C~lt~~Pfe~P---vC~~dg~vFd~~~Ivp~lkk~g~nP~tG~kl~ 85 (518)
T KOG0883|consen 43 CSLTMLPFEDP---VCTVDGTVFDLTAIVPWLKKHGTNPITGQKLD 85 (518)
T ss_pred ceeccccccCc---ccccCCcEEeeehhhHHHHHcCCCCCCCCccc
Confidence 99999999887 56667889999999999988776666554443
No 182
>PRK11827 hypothetical protein; Provisional
Probab=32.53 E-value=15 Score=27.80 Aligned_cols=18 Identities=28% Similarity=0.580 Sum_probs=13.7
Q ss_pred HHHHhcCCCCCCcccccc
Q 019980 311 NNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 311 ~~WL~~kksCPvCR~~V~ 328 (333)
.+||..--.||+|+..+.
T Consensus 2 d~~LLeILaCP~ckg~L~ 19 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLW 19 (60)
T ss_pred ChHHHhheECCCCCCcCe
Confidence 356777778999988875
No 183
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=32.30 E-value=19 Score=38.36 Aligned_cols=33 Identities=30% Similarity=0.569 Sum_probs=21.8
Q ss_pred CcccccccccCCC---C-------eeEEeCCCCcccHHHHHHH
Q 019980 281 FSCVICRLDYEDG---E-------TLTVLSCKHSYHSECINNW 313 (333)
Q Consensus 281 ~~C~ICLe~f~~g---d-------~l~~LPCgH~FH~~CI~~W 313 (333)
..|+||.+.|..- + -.+.+.=|-+||..|+..-
T Consensus 514 ~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 514 ASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred cCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 3499999999721 0 1122335889999998543
No 184
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=31.85 E-value=45 Score=37.10 Aligned_cols=13 Identities=54% Similarity=0.767 Sum_probs=7.0
Q ss_pred CcccchHHHHHHH
Q 019980 176 DVFSSDEAYARAL 188 (333)
Q Consensus 176 ~~~~~dE~lar~L 188 (333)
++|.+-+.++-+|
T Consensus 964 pvFAsaeey~hll 976 (988)
T KOG2038|consen 964 PVFASAEEYAHLL 976 (988)
T ss_pred hhhhhHHHHHHHh
Confidence 3455555555554
No 185
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=31.60 E-value=23 Score=34.16 Aligned_cols=44 Identities=23% Similarity=0.290 Sum_probs=33.1
Q ss_pred CcccccccccCCCCeeEEeCCCCcccHHHHHHHHhc--CCCCCCcccc
Q 019980 281 FSCVICRLDYEDGETLTVLSCKHSYHSECINNWLKI--NKVCPVCSAE 326 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~--kksCPvCR~~ 326 (333)
..|+|=+-.+..+ ++-..|+|+|-+.=|.+.|.. .-.||+=-.+
T Consensus 177 ~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 4599987777765 555669999999999999876 3468874443
No 186
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=31.03 E-value=29 Score=27.03 Aligned_cols=28 Identities=29% Similarity=0.822 Sum_probs=19.2
Q ss_pred ccccccccCCCCeeEEe--CCCCcccHHHHHH
Q 019980 283 CVICRLDYEDGETLTVL--SCKHSYHSECINN 312 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~L--PCgH~FH~~CI~~ 312 (333)
|.||... .|-.+..- .|...||..|...
T Consensus 39 C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 39 CSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 9999866 24222222 3899999999865
No 187
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=31.03 E-value=41 Score=29.22 Aligned_cols=13 Identities=31% Similarity=0.813 Sum_probs=10.5
Q ss_pred CCCCCccccccCC
Q 019980 318 KVCPVCSAEVSTS 330 (333)
Q Consensus 318 ksCPvCR~~V~~s 330 (333)
..||.|...|...
T Consensus 124 f~Cp~Cg~~l~~~ 136 (147)
T smart00531 124 FTCPRCGEELEED 136 (147)
T ss_pred EECCCCCCEEEEc
Confidence 6799999988644
No 188
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=30.67 E-value=22 Score=38.97 Aligned_cols=28 Identities=25% Similarity=0.542 Sum_probs=20.2
Q ss_pred CCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 301 CKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 301 CgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
|...||..=..--..++..||.||++-.
T Consensus 1050 C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1050 CFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred HHhhhccchhhHHHHhcCCCCccccccc
Confidence 6666666655555567899999998654
No 189
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.45 E-value=29 Score=23.30 Aligned_cols=25 Identities=24% Similarity=0.680 Sum_probs=14.9
Q ss_pred cccccccccCCCCe--------eEEeCCCCccc
Q 019980 282 SCVICRLDYEDGET--------LTVLSCKHSYH 306 (333)
Q Consensus 282 ~C~ICLe~f~~gd~--------l~~LPCgH~FH 306 (333)
.|+-|...|...+. ++.-.|+|+|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 38888888874432 22223777764
No 190
>KOG0803 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.38 E-value=11 Score=44.00 Aligned_cols=48 Identities=25% Similarity=0.559 Sum_probs=32.5
Q ss_pred CcccccccccCC-CCeeEEe--CCCCcccHHHHHHHHhcC---CCCCCcccccc
Q 019980 281 FSCVICRLDYED-GETLTVL--SCKHSYHSECINNWLKIN---KVCPVCSAEVS 328 (333)
Q Consensus 281 ~~C~ICLe~f~~-gd~l~~L--PCgH~FH~~CI~~WL~~k---ksCPvCR~~V~ 328 (333)
..|+||...... -.....+ -|...||..|+..|.... -.||+||...+
T Consensus 1062 ~~~si~~~~~~~~~~~~~~~r~~c~~~f~~~~l~~w~s~ed~s~~~~~~r~~~~ 1115 (1312)
T KOG0803|consen 1062 REFSISHGSNDDDLPFLSCLRAFCPNKFHTECLVKWKSGEDISENCPLCRELST 1115 (1312)
T ss_pred HHhhhhccccchhhhHHHHHHHhhhhhhhchhhHHhhccccccccccchhhhhH
Confidence 347777666554 1111122 399999999999999543 38999998754
No 191
>PLN02436 cellulose synthase A
Probab=30.08 E-value=44 Score=38.28 Aligned_cols=47 Identities=28% Similarity=0.632 Sum_probs=33.7
Q ss_pred cccccccccC---CCCeeEEeC-CCCcccHHHHHHHHh-cCCCCCCcccccc
Q 019980 282 SCVICRLDYE---DGETLTVLS-CKHSYHSECINNWLK-INKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~---~gd~l~~LP-CgH~FH~~CI~~WL~-~kksCPvCR~~V~ 328 (333)
.|-||-+++. .|+..+.+. |+--.|..|..-=.+ -++.||-||+...
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3999999864 555555554 888899999844322 3468999998754
No 192
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=30.00 E-value=19 Score=35.51 Aligned_cols=38 Identities=24% Similarity=0.503 Sum_probs=25.0
Q ss_pred ccccccccC-----C---CCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 283 CVICRLDYE-----D---GETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 283 C~ICLe~f~-----~---gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
|+||-..-. . .+..+.| +|.-|-..|--.+..||.|-.
T Consensus 187 CPvCGs~P~~s~~~~~~~~~G~RyL-----~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 187 CPACGSPPVASMVRQGGKETGLRYL-----SCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCCCChhhhhhhcccCCCCCceEE-----EcCCCCCcccccCccCCCCCC
Confidence 999977532 1 1223444 444477788888889999965
No 193
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=29.67 E-value=12 Score=40.73 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=29.5
Q ss_pred ccccccccCCCC--eeEEe-----CCCCcccHHHHHHHH----------hcCCCCCCcccccc
Q 019980 283 CVICRLDYEDGE--TLTVL-----SCKHSYHSECINNWL----------KINKVCPVCSAEVS 328 (333)
Q Consensus 283 C~ICLe~f~~gd--~l~~L-----PCgH~FH~~CI~~WL----------~~kksCPvCR~~V~ 328 (333)
|-||-+.=.+.. +-.+| .|+..||..|...-= ..-+-|-+|+.-+.
T Consensus 120 CYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 120 CYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred eeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 999988744332 12233 278899999985421 12357999986554
No 194
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.49 E-value=27 Score=38.00 Aligned_cols=41 Identities=22% Similarity=0.604 Sum_probs=27.8
Q ss_pred cccccccccC-CCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccc
Q 019980 282 SCVICRLDYE-DGETLTVLSCKHSYHSECINNWLKINKVCPVCSA 325 (333)
Q Consensus 282 ~C~ICLe~f~-~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~ 325 (333)
.|.+|...=. .....+++.|+-.||..| |+--+..||+|--
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~~ 697 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCGP 697 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccCc
Confidence 4888876544 223445566999988877 5556778999953
No 195
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=29.34 E-value=41 Score=36.24 Aligned_cols=8 Identities=38% Similarity=0.501 Sum_probs=4.5
Q ss_pred HHHHHHHh
Q 019980 80 ERAYMMLR 87 (333)
Q Consensus 80 e~~y~~~~ 87 (333)
..||..+.
T Consensus 118 ~~a~~~l~ 125 (622)
T PF02724_consen 118 RDAYEALE 125 (622)
T ss_pred HHHHHHhh
Confidence 45666654
No 196
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=29.17 E-value=38 Score=32.39 Aligned_cols=31 Identities=16% Similarity=0.394 Sum_probs=21.8
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCccccccCC
Q 019980 300 SCKHSYHSECINNWLKINKVCPVCSAEVSTS 330 (333)
Q Consensus 300 PCgH~FH~~CI~~WL~~kksCPvCR~~V~~s 330 (333)
|=.-..|..|..+.-+....||+|+..-.+.
T Consensus 246 pppMK~ClsChqqIHRNAPiCPlCKaKsRSr 276 (286)
T KOG4451|consen 246 PPPMKVCLSCHQQIHRNAPICPLCKAKSRSR 276 (286)
T ss_pred CCcchHHHHHHHHHhcCCCCCcchhhccccC
Confidence 3344566778777667778999998765543
No 197
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=29.16 E-value=25 Score=21.98 Aligned_cols=10 Identities=60% Similarity=1.215 Sum_probs=8.0
Q ss_pred CCCCcccccc
Q 019980 319 VCPVCSAEVS 328 (333)
Q Consensus 319 sCPvCR~~V~ 328 (333)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5999988873
No 198
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=29.05 E-value=42 Score=31.81 Aligned_cols=26 Identities=19% Similarity=0.549 Sum_probs=18.8
Q ss_pred cccHHHHHHHHhcCCCCCCccccccC
Q 019980 304 SYHSECINNWLKINKVCPVCSAEVST 329 (333)
Q Consensus 304 ~FH~~CI~~WL~~kksCPvCR~~V~~ 329 (333)
.-|..|-.+.=+....||+|+..-.+
T Consensus 195 K~C~sC~qqIHRNAPiCPlCK~KsRS 220 (230)
T PF10146_consen 195 KTCQSCHQQIHRNAPICPLCKAKSRS 220 (230)
T ss_pred chhHhHHHHHhcCCCCCccccccccc
Confidence 45567777765677899999876544
No 199
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=28.64 E-value=27 Score=29.24 Aligned_cols=43 Identities=23% Similarity=0.525 Sum_probs=26.4
Q ss_pred ccccccccC--CCCeeEEeCCCCcccHHHHHHHHhcCC--CCCCcccc
Q 019980 283 CVICRLDYE--DGETLTVLSCKHSYHSECINNWLKINK--VCPVCSAE 326 (333)
Q Consensus 283 C~ICLe~f~--~gd~l~~LPCgH~FH~~CI~~WL~~kk--sCPvCR~~ 326 (333)
|++|...|. .+-......|+|.+|..|-.. ..... .|.+|.+.
T Consensus 57 C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 57 CARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp -TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHHH
T ss_pred hhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHHH
Confidence 999998764 233444556999999999544 11122 58888653
No 200
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=28.64 E-value=25 Score=33.79 Aligned_cols=41 Identities=24% Similarity=0.331 Sum_probs=30.8
Q ss_pred CCcccccccccCCCCeeEEeCCCCcccHHHHHHHHh--cCCCCCC
Q 019980 280 GFSCVICRLDYEDGETLTVLSCKHSYHSECINNWLK--INKVCPV 322 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~--~kksCPv 322 (333)
..+|+|-+.++..+ +....|.|+|-..-|...|+ ....||.
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 34599988887655 33335999999999999998 4567774
No 201
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=28.62 E-value=65 Score=25.81 Aligned_cols=47 Identities=30% Similarity=0.545 Sum_probs=19.2
Q ss_pred cccccccccCC---CCeeEE-eCCCCcccHHHHHHHHh-cCCCCCCcccccc
Q 019980 282 SCVICRLDYED---GETLTV-LSCKHSYHSECINNWLK-INKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~---gd~l~~-LPCgH~FH~~CI~~WL~-~kksCPvCR~~V~ 328 (333)
.|-||-+.+-. |+..+. .-|+--.|..|..-=.+ -++.||-|++...
T Consensus 11 iCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 11 ICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred ccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 39999988753 333222 24888889999865444 4578999997654
No 202
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=28.54 E-value=30 Score=35.65 Aligned_cols=40 Identities=25% Similarity=0.530 Sum_probs=23.4
Q ss_pred cccccccccCCCCeeEEeC-CCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 282 SCVICRLDYEDGETLTVLS-CKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LP-CgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
.|++=+.++..|...+..| |+-.||... +.+.||+|.-..
T Consensus 366 ICa~s~tPIY~G~~~v~CP~cgA~y~~~~------kG~lC~vC~l~~ 406 (422)
T PF06957_consen 366 ICAASYTPIYRGSPSVKCPYCGAKYHPEY------KGQLCPVCELSE 406 (422)
T ss_dssp EBTTT--EEETTS-EEE-TTT--EEEGGG------TTSB-TTTTTBB
T ss_pred eeecccccccCCCCCeeCCCCCCccChhh------CCCCCCCCccee
Confidence 3666666677788888888 999998733 356899997543
No 203
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=28.43 E-value=54 Score=37.61 Aligned_cols=47 Identities=26% Similarity=0.545 Sum_probs=32.5
Q ss_pred cccccccccC---CCCeeEEe-CCCCcccHHHHHHHH-hcCCCCCCcccccc
Q 019980 282 SCVICRLDYE---DGETLTVL-SCKHSYHSECINNWL-KINKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~---~gd~l~~L-PCgH~FH~~CI~~WL-~~kksCPvCR~~V~ 328 (333)
.|-||-+++. .|+..+.+ -|+--.|..|..==. .-+..||-||+...
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3999999875 44444443 388889999983221 24578999998754
No 204
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=28.05 E-value=52 Score=32.13 Aligned_cols=41 Identities=24% Similarity=0.395 Sum_probs=27.1
Q ss_pred CcccccccccCCCCeeEEeC-C-CCcccHHHHHHHHh-cCCCCC
Q 019980 281 FSCVICRLDYEDGETLTVLS-C-KHSYHSECINNWLK-INKVCP 321 (333)
Q Consensus 281 ~~C~ICLe~f~~gd~l~~LP-C-gH~FH~~CI~~WL~-~kksCP 321 (333)
..|.||++-...|-....|. - .-.=|..|+.+|=. .+..||
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 34999998876664333332 1 22467899999965 456798
No 205
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=27.74 E-value=23 Score=39.37 Aligned_cols=43 Identities=14% Similarity=0.403 Sum_probs=28.3
Q ss_pred cccccccccCCCCeeEEe-CCCCcccHHHHHHHH-h-----cCCCCCCcccc
Q 019980 282 SCVICRLDYEDGETLTVL-SCKHSYHSECINNWL-K-----INKVCPVCSAE 326 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL-~-----~kksCPvCR~~ 326 (333)
.|-.|....-. ..-+. .|++.||..|+..|. + ....|++|+..
T Consensus 231 mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~ 280 (889)
T KOG1356|consen 231 MCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLK 280 (889)
T ss_pred hhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHh
Confidence 38889766431 12233 499999999999995 1 12367777654
No 206
>PRK01343 zinc-binding protein; Provisional
Probab=27.23 E-value=32 Score=25.89 Aligned_cols=13 Identities=23% Similarity=0.705 Sum_probs=9.8
Q ss_pred cCCCCCCcccccc
Q 019980 316 INKVCPVCSAEVS 328 (333)
Q Consensus 316 ~kksCPvCR~~V~ 328 (333)
..+.||+|++.+.
T Consensus 8 p~~~CP~C~k~~~ 20 (57)
T PRK01343 8 PTRPCPECGKPST 20 (57)
T ss_pred CCCcCCCCCCcCc
Confidence 3467999998764
No 207
>PRK05978 hypothetical protein; Provisional
Probab=27.20 E-value=29 Score=30.77 Aligned_cols=18 Identities=22% Similarity=0.593 Sum_probs=15.3
Q ss_pred HHHhcCCCCCCccccccC
Q 019980 312 NWLKINKVCPVCSAEVST 329 (333)
Q Consensus 312 ~WL~~kksCPvCR~~V~~ 329 (333)
.+|+.+..||.|-..+..
T Consensus 47 g~Lkv~~~C~~CG~~~~~ 64 (148)
T PRK05978 47 AFLKPVDHCAACGEDFTH 64 (148)
T ss_pred cccccCCCccccCCcccc
Confidence 688999999999887753
No 208
>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein. This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane
Probab=25.28 E-value=48 Score=28.74 Aligned_cols=8 Identities=13% Similarity=0.318 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 019980 78 EQERAYMM 85 (333)
Q Consensus 78 ~qe~~y~~ 85 (333)
+|+=..|+
T Consensus 85 EldDLL~l 92 (136)
T PF04871_consen 85 ELDDLLVL 92 (136)
T ss_pred hHHHHHHH
Confidence 33333333
No 209
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=24.78 E-value=22 Score=34.60 Aligned_cols=49 Identities=24% Similarity=0.529 Sum_probs=28.4
Q ss_pred CcccccccccCCC------CeeEEeCCCCcccHHHH-HHHHhc----------CCCCCCccccccC
Q 019980 281 FSCVICRLDYEDG------ETLTVLSCKHSYHSECI-NNWLKI----------NKVCPVCSAEVST 329 (333)
Q Consensus 281 ~~C~ICLe~f~~g------d~l~~LPCgH~FH~~CI-~~WL~~----------kksCPvCR~~V~~ 329 (333)
..|.+|=..|..- -.+-.|||...||-+=+ .+||.+ -..||.|.+.+-.
T Consensus 162 ~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 162 FSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred ccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 4499997777521 01223554444443332 489943 2589999987754
No 210
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=23.85 E-value=36 Score=31.79 Aligned_cols=20 Identities=30% Similarity=0.818 Sum_probs=13.8
Q ss_pred HHHHHHHh-cCCCCCCccccc
Q 019980 308 ECINNWLK-INKVCPVCSAEV 327 (333)
Q Consensus 308 ~CI~~WL~-~kksCPvCR~~V 327 (333)
.||.+--. ..+-||+||-+-
T Consensus 98 tCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 98 TCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred HHHhhcCeecCCCCCccccce
Confidence 58877543 456899999653
No 211
>PF03344 Daxx: Daxx Family; InterPro: IPR005012 Daxx is a ubiquitously expressed protein that functions, in part, as a transcriptional co-repressor through its interaction with a growing number of nuclear, DNA-associated proteins. Human Daxx contains four structural domains commonly found in transcriptional regulatory proteins: two predicted paired amphipathic helices, an acid-rich domain and a Ser/Pro/Thr (SPT)-rich domain. The post-translational modification status of the SPT-domain of hDaxx regulates its association with transcription factors such as Pax3 and ETS-1, effectively bringing hDaxx to sites of active transcription. Through its presence at the site of active transcription, hDaxx could then be able to associate with acetylated histones present in the nucleosomes and Dek that is associated with chromatin. Through its association with the SPT-domain of hDaxx, histone deacetylases may also be brought to the site of active transcription. As a consequence, nucleosomes in the vicinity of the site of active transcription will have the histone tails deacetylated, allowing the deactylated tail to bind to DNA, thereby leading to an inactive chromatin structure and transcriptional repression []. The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis as a component of nuclear promyelocytic leukemia protein (PML) oncogenic domains (PODS). Daxx associates with PODs through a direct interaction with PML, a critical component of PODs. The interaction is a dynamic, cell cycle regulated event and is dependent on the post-translational modification of PML by the small ubiquitin-related modifier SUMO-1. ; PDB: 2KZS_A 2KZU_A.
Probab=23.29 E-value=27 Score=38.31 Aligned_cols=14 Identities=43% Similarity=0.608 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHH
Q 019980 69 DLALARTLQEQERA 82 (333)
Q Consensus 69 d~~~a~~lq~qe~~ 82 (333)
|-+|++.|.+=.+.
T Consensus 366 d~~L~~kL~eN~~~ 379 (713)
T PF03344_consen 366 DPELARKLEENRKL 379 (713)
T ss_dssp --------------
T ss_pred cccccccccccccc
Confidence 44556666554443
No 212
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=23.18 E-value=18 Score=35.31 Aligned_cols=28 Identities=25% Similarity=0.544 Sum_probs=0.0
Q ss_pred CCcccHHHHHHHH----hcCCCCCCccccccC
Q 019980 302 KHSYHSECINNWL----KINKVCPVCSAEVST 329 (333)
Q Consensus 302 gH~FH~~CI~~WL----~~kksCPvCR~~V~~ 329 (333)
.|.||..|-.+.. ..+..||.|+....+
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fP 141 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFP 141 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCC
No 213
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=23.13 E-value=25 Score=36.71 Aligned_cols=47 Identities=23% Similarity=0.588 Sum_probs=29.7
Q ss_pred CcccccccccC-CCCeeEEe-CCCCcccHHHHHHHHhcC--------CCCCCccccc
Q 019980 281 FSCVICRLDYE-DGETLTVL-SCKHSYHSECINNWLKIN--------KVCPVCSAEV 327 (333)
Q Consensus 281 ~~C~ICLe~f~-~gd~l~~L-PCgH~FH~~CI~~WL~~k--------ksCPvCR~~V 327 (333)
..|++|..... ...++... .|+--||..|...-.+.. ..|-+|+...
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 34999996543 23333333 489999999987654321 3688887643
No 214
>PHA00009 F capsid protein
Probab=22.40 E-value=46 Score=32.88 Aligned_cols=36 Identities=39% Similarity=0.490 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCcccccC
Q 019980 69 DLALARTLQEQERAYMMLRMNNNEGSDYGSWEAGSYLHD 107 (333)
Q Consensus 69 d~~~a~~lq~qe~~y~~~~~~~~~~~~~~~~~~~~y~~~ 107 (333)
--|.|+.--||||-|+|-|-.. --++|| ++.||.-|
T Consensus 197 qaaya~lhteqerdyfm~ryrd-ii~~fg--g~tsydad 232 (427)
T PHA00009 197 QAAYAQLHTEQERDYFMTRYRD-IISSFG--GSTSYDAD 232 (427)
T ss_pred HHHHHHhhhHHHHHHHHHHHHH-HHHhcC--CccccCCC
Confidence 3578888899999999987422 224566 55666543
No 215
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=22.37 E-value=7.1 Score=30.52 Aligned_cols=39 Identities=23% Similarity=0.541 Sum_probs=19.1
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVS 328 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~ 328 (333)
.|++|..++.... +|.+|..|-.. +.....||-|..+|.
T Consensus 3 ~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 3 TCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred cCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 3888988765322 45555555543 345567888887764
No 216
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.34 E-value=45 Score=27.54 Aligned_cols=11 Identities=27% Similarity=1.223 Sum_probs=9.9
Q ss_pred ccHHHHHHHHh
Q 019980 305 YHSECINNWLK 315 (333)
Q Consensus 305 FH~~CI~~WL~ 315 (333)
||..||..|++
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 88999999985
No 217
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.24 E-value=45 Score=29.01 Aligned_cols=20 Identities=30% Similarity=0.806 Sum_probs=15.3
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 300 SCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 300 PCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
.|||+||. -+..||.|..+.
T Consensus 34 ~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 34 KCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCeEEcC--------CcccCCCCCCCC
Confidence 48998876 456799998773
No 218
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=21.99 E-value=22 Score=24.54 Aligned_cols=26 Identities=23% Similarity=0.534 Sum_probs=15.2
Q ss_pred EeCCCCcccHHH-HHHHHhcCCCCCCccc
Q 019980 298 VLSCKHSYHSEC-INNWLKINKVCPVCSA 325 (333)
Q Consensus 298 ~LPCgH~FH~~C-I~~WL~~kksCPvCR~ 325 (333)
...|+|.|-... |.. .....||.|..
T Consensus 8 C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE--DDPVPCPECGS 34 (42)
T ss_pred eCCCCCEEEEEEEcCC--CCCCcCCCCCC
Confidence 345888776422 111 23457999988
No 219
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=21.76 E-value=51 Score=21.01 Aligned_cols=28 Identities=21% Similarity=0.503 Sum_probs=18.9
Q ss_pred ccccccccCCCCeeEEeCCCCcccHHHH
Q 019980 283 CVICRLDYEDGETLTVLSCKHSYHSECI 310 (333)
Q Consensus 283 C~ICLe~f~~gd~l~~LPCgH~FH~~CI 310 (333)
|.||...........-..|...+|..|+
T Consensus 3 C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 3 CDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 8999777654423444467888888774
No 220
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=21.66 E-value=33 Score=38.23 Aligned_cols=43 Identities=28% Similarity=0.580 Sum_probs=0.0
Q ss_pred cccccccccCCCCeeEEeCCCCcccHHHHHHHHhcCCCCCCccccccCCCCC
Q 019980 282 SCVICRLDYEDGETLTVLSCKHSYHSECINNWLKINKVCPVCSAEVSTSGHS 333 (333)
Q Consensus 282 ~C~ICLe~f~~gd~l~~LPCgH~FH~~CI~~WL~~kksCPvCR~~V~~s~~~ 333 (333)
.|+|| .++|.|.-..-..--..-=.+-..|-||-+.+.+.++.
T Consensus 607 qCiiC---------~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNL 649 (958)
T KOG1074|consen 607 QCIIC---------LRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNL 649 (958)
T ss_pred ceeee---------eecccchhhhhhhhhcccCcCccccccccchhccccch
No 221
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=21.64 E-value=65 Score=31.84 Aligned_cols=13 Identities=15% Similarity=0.217 Sum_probs=6.2
Q ss_pred chHHHHHHHHHHH
Q 019980 180 SDEAYARALQDAE 192 (333)
Q Consensus 180 ~dE~lar~Lq~~e 192 (333)
+.+-|+++-.++.
T Consensus 191 T~eDF~kI~~lr~ 203 (324)
T PF05285_consen 191 TPEDFAKIRELRA 203 (324)
T ss_pred CHHHHHHHHHHHH
Confidence 4555555544433
No 222
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=21.51 E-value=34 Score=32.79 Aligned_cols=14 Identities=29% Similarity=0.731 Sum_probs=9.2
Q ss_pred CCcccccccccCCC
Q 019980 280 GFSCVICRLDYEDG 293 (333)
Q Consensus 280 ~~~C~ICLe~f~~g 293 (333)
++.|+|||.-|..+
T Consensus 260 GfvCsVCLsvfc~p 273 (296)
T COG5242 260 GFVCSVCLSVFCRP 273 (296)
T ss_pred eeehhhhheeecCC
Confidence 45677777777543
No 223
>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein. This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane
Probab=21.45 E-value=65 Score=27.94 Aligned_cols=10 Identities=30% Similarity=0.597 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 019980 76 LQEQERAYMM 85 (333)
Q Consensus 76 lq~qe~~y~~ 85 (333)
|...-..|-.
T Consensus 96 le~K~~kyk~ 105 (136)
T PF04871_consen 96 LEEKRKKYKE 105 (136)
T ss_pred HHHHHHHHHH
Confidence 3333445543
No 224
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=21.40 E-value=1.5e+02 Score=24.40 Aligned_cols=18 Identities=22% Similarity=0.228 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHHh
Q 019980 68 ADLALARTLQEQERAYMMLR 87 (333)
Q Consensus 68 ~d~~~a~~lq~qe~~y~~~~ 87 (333)
.+.-|+ -|+|+++-|+-.
T Consensus 26 dE~EL~--~~Eq~~q~Wl~s 43 (92)
T PF15243_consen 26 DETELQ--QQEQQHQAWLQS 43 (92)
T ss_pred hHHHHH--HHHHHHHHHHHH
Confidence 344444 467777777543
No 225
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=21.06 E-value=21 Score=25.61 Aligned_cols=21 Identities=24% Similarity=0.555 Sum_probs=15.6
Q ss_pred CCeeEEe-CCCCcccHHHHHHH
Q 019980 293 GETLTVL-SCKHSYHSECINNW 313 (333)
Q Consensus 293 gd~l~~L-PCgH~FH~~CI~~W 313 (333)
+...+.. .|+|.||..|...|
T Consensus 37 ~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 37 GCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCeeECCCCCCeECCCCCCcC
Confidence 3344555 49999999998887
No 226
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.91 E-value=15 Score=22.46 Aligned_cols=7 Identities=43% Similarity=1.402 Sum_probs=3.3
Q ss_pred CCCCccc
Q 019980 319 VCPVCSA 325 (333)
Q Consensus 319 sCPvCR~ 325 (333)
.||.|-+
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3555543
No 227
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=20.69 E-value=30 Score=31.31 Aligned_cols=9 Identities=56% Similarity=1.486 Sum_probs=6.3
Q ss_pred CCCCCCccc
Q 019980 317 NKVCPVCSA 325 (333)
Q Consensus 317 kksCPvCR~ 325 (333)
-..||+|..
T Consensus 149 P~~CPiCga 157 (166)
T COG1592 149 PEVCPICGA 157 (166)
T ss_pred CCcCCCCCC
Confidence 347888864
No 228
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=20.27 E-value=82 Score=27.78 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=22.3
Q ss_pred EEeCCCCcccHHHHHHHHhcC--CCCCCccccccC
Q 019980 297 TVLSCKHSYHSECINNWLKIN--KVCPVCSAEVST 329 (333)
Q Consensus 297 ~~LPCgH~FH~~CI~~WL~~k--ksCPvCR~~V~~ 329 (333)
+.+.|++.|...-+..++... ..||.|...+.+
T Consensus 107 ~C~~C~~~~~~~~~~~~~~~~~~~~C~~C~~~lrp 141 (178)
T PF02146_consen 107 RCSKCGKEYDREDIVDSIDEEEPPRCPKCGGLLRP 141 (178)
T ss_dssp EETTTSBEEEGHHHHHHHHTTSSCBCTTTSCBEEE
T ss_pred eecCCCccccchhhcccccccccccccccCccCCC
Confidence 344588888777665555433 589999887653
No 229
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=20.25 E-value=28 Score=36.85 Aligned_cols=45 Identities=31% Similarity=0.690 Sum_probs=29.6
Q ss_pred CCcccccccccCCCCeeEEe-CCCCcccHHHHHHHHhc----C-C---CCCCccc
Q 019980 280 GFSCVICRLDYEDGETLTVL-SCKHSYHSECINNWLKI----N-K---VCPVCSA 325 (333)
Q Consensus 280 ~~~C~ICLe~f~~gd~l~~L-PCgH~FH~~CI~~WL~~----k-k---sCPvCR~ 325 (333)
...|.||...-... .++.. .|+-.||..||.+=|.+ + + .|.-|-+
T Consensus 544 ~ysCgiCkks~dQH-ll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECdk 597 (707)
T KOG0957|consen 544 NYSCGICKKSTDQH-LLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECDK 597 (707)
T ss_pred ceeeeeeccchhhH-HHhhcchhhceeeccccCCccccCcccccCcceeeccccc
Confidence 34599998764322 22233 38888999999998842 2 1 5888843
No 230
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=20.18 E-value=33 Score=25.43 Aligned_cols=11 Identities=36% Similarity=1.135 Sum_probs=5.3
Q ss_pred CCCCccccccC
Q 019980 319 VCPVCSAEVST 329 (333)
Q Consensus 319 sCPvCR~~V~~ 329 (333)
+||+|...+..
T Consensus 26 tCP~C~a~~~~ 36 (54)
T PF09237_consen 26 TCPICGAVIRQ 36 (54)
T ss_dssp E-TTT--EESS
T ss_pred CCCcchhhccc
Confidence 68888776653
No 231
>PLN02248 cellulose synthase-like protein
Probab=20.17 E-value=65 Score=37.14 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=25.6
Q ss_pred eCCCCcccHHHHHHHHhcCCCCCCccccc
Q 019980 299 LSCKHSYHSECINNWLKINKVCPVCSAEV 327 (333)
Q Consensus 299 LPCgH~FH~~CI~~WL~~kksCPvCR~~V 327 (333)
+.|+++.|..|...-++....||-||...
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 148 CECGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred ccccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 34899999999999999999999998765
Done!