Query 037626
Match_columns 99
No_of_seqs 232 out of 1543
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 02:51:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037626.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037626hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.8 1.3E-19 2.9E-24 89.0 2.5 44 50-95 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.8 1.1E-18 2.3E-23 116.8 7.5 48 50-98 230-277 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.7 7.3E-17 1.6E-21 87.1 3.8 46 49-95 19-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.6 6.1E-16 1.3E-20 103.7 7.0 55 42-98 280-344 (491)
5 PHA02929 N1R/p28-like protein; 99.6 1.6E-16 3.5E-21 102.2 4.1 51 47-98 172-226 (238)
6 PLN03208 E3 ubiquitin-protein 99.6 2.6E-15 5.6E-20 93.5 4.3 51 44-98 13-78 (193)
7 KOG0317 Predicted E3 ubiquitin 99.6 1.7E-15 3.7E-20 98.5 2.4 47 47-98 237-283 (293)
8 PF13920 zf-C3HC4_3: Zinc fing 99.5 3.9E-15 8.4E-20 74.9 3.0 45 49-98 2-47 (50)
9 COG5540 RING-finger-containing 99.5 6.7E-15 1.5E-19 96.5 4.0 50 49-99 323-372 (374)
10 PF12861 zf-Apc11: Anaphase-pr 99.5 1.1E-14 2.3E-19 79.7 3.4 51 48-98 20-81 (85)
11 PHA02926 zinc finger-like prot 99.5 9.7E-15 2.1E-19 92.2 3.2 52 47-98 168-229 (242)
12 cd00162 RING RING-finger (Real 99.5 3E-14 6.5E-19 69.4 3.7 45 51-98 1-45 (45)
13 PF15227 zf-C3HC4_4: zinc fing 99.5 2.1E-14 4.6E-19 69.6 3.1 39 52-94 1-42 (42)
14 PF13923 zf-C3HC4_2: Zinc fing 99.5 3.4E-14 7.4E-19 67.9 3.1 39 52-94 1-39 (39)
15 PF00097 zf-C3HC4: Zinc finger 99.4 1.4E-13 3.1E-18 66.4 3.1 40 52-94 1-41 (41)
16 KOG0823 Predicted E3 ubiquitin 99.4 2E-13 4.3E-18 86.6 3.4 48 47-98 45-94 (230)
17 PF14634 zf-RING_5: zinc-RING 99.4 4.4E-13 9.6E-18 65.6 3.1 44 51-96 1-44 (44)
18 KOG0802 E3 ubiquitin ligase [P 99.4 3.8E-13 8.3E-18 95.8 3.2 49 47-97 289-339 (543)
19 KOG0320 Predicted E3 ubiquitin 99.3 8.2E-13 1.8E-17 80.9 3.4 46 50-98 132-177 (187)
20 smart00184 RING Ring finger. E 99.3 2.6E-12 5.6E-17 60.5 3.1 39 52-94 1-39 (39)
21 smart00504 Ubox Modified RING 99.3 8E-12 1.7E-16 65.4 4.1 44 50-98 2-45 (63)
22 PF13445 zf-RING_UBOX: RING-ty 99.3 4.8E-12 1E-16 61.4 2.8 40 52-92 1-43 (43)
23 KOG1734 Predicted RING-contain 99.2 1.6E-11 3.6E-16 79.6 5.0 55 43-98 218-280 (328)
24 TIGR00599 rad18 DNA repair pro 99.2 1.2E-11 2.6E-16 84.8 3.6 50 44-98 21-70 (397)
25 KOG1493 Anaphase-promoting com 99.1 4.5E-12 9.8E-17 67.5 -0.6 50 49-98 20-80 (84)
26 COG5194 APC11 Component of SCF 99.1 4.9E-11 1.1E-15 64.0 2.8 48 50-98 21-80 (88)
27 COG5574 PEX10 RING-finger-cont 99.1 1.1E-10 2.3E-15 75.6 3.2 47 48-98 214-261 (271)
28 KOG2164 Predicted E3 ubiquitin 99.0 1.1E-10 2.4E-15 81.3 2.6 46 49-98 186-235 (513)
29 KOG0828 Predicted E3 ubiquitin 99.0 1.4E-10 3.1E-15 80.6 2.1 52 48-99 570-634 (636)
30 TIGR00570 cdk7 CDK-activating 99.0 4.7E-10 1E-14 74.6 3.8 50 49-98 3-53 (309)
31 KOG0804 Cytoplasmic Zn-finger 99.0 2.9E-10 6.3E-15 78.2 2.4 47 47-96 173-219 (493)
32 PF11793 FANCL_C: FANCL C-term 98.9 1.5E-10 3.3E-15 61.9 0.0 50 49-98 2-65 (70)
33 KOG0287 Postreplication repair 98.9 4.8E-10 1E-14 75.0 1.9 45 49-98 23-67 (442)
34 COG5432 RAD18 RING-finger-cont 98.9 8.5E-10 1.8E-14 72.6 2.5 45 48-97 24-68 (391)
35 KOG2930 SCF ubiquitin ligase, 98.9 1.2E-09 2.7E-14 61.4 2.7 49 49-98 46-107 (114)
36 KOG4172 Predicted E3 ubiquitin 98.9 3.3E-10 7.2E-15 56.7 0.4 46 49-98 7-53 (62)
37 PF04564 U-box: U-box domain; 98.9 1.9E-09 4.1E-14 58.1 3.3 47 48-98 3-49 (73)
38 smart00744 RINGv The RING-vari 98.9 2.9E-09 6.4E-14 53.1 3.2 43 51-95 1-49 (49)
39 KOG2177 Predicted E3 ubiquitin 98.8 1.3E-09 2.7E-14 71.6 1.6 47 45-96 9-55 (386)
40 KOG4265 Predicted E3 ubiquitin 98.8 4.5E-09 9.8E-14 70.6 3.6 47 47-98 288-335 (349)
41 COG5219 Uncharacterized conser 98.8 1.7E-09 3.8E-14 80.2 0.8 52 47-98 1467-1522(1525)
42 KOG1039 Predicted E3 ubiquitin 98.7 5.8E-09 1.3E-13 70.6 2.0 51 47-97 159-219 (344)
43 KOG0978 E3 ubiquitin ligase in 98.7 3.2E-09 6.8E-14 76.9 0.7 45 50-98 644-688 (698)
44 KOG0827 Predicted E3 ubiquitin 98.7 6.6E-09 1.4E-13 70.6 1.9 46 50-95 5-52 (465)
45 KOG0824 Predicted E3 ubiquitin 98.7 6.7E-09 1.4E-13 68.5 1.8 47 48-98 6-52 (324)
46 PF14835 zf-RING_6: zf-RING of 98.6 6.7E-09 1.5E-13 53.9 -0.1 42 50-97 8-49 (65)
47 KOG0311 Predicted E3 ubiquitin 98.5 9.7E-09 2.1E-13 69.0 -1.3 48 48-98 42-89 (381)
48 PF14570 zf-RING_4: RING/Ubox 98.4 3E-07 6.6E-12 45.3 2.1 46 52-98 1-47 (48)
49 KOG2879 Predicted E3 ubiquitin 98.3 4.2E-06 9.1E-11 54.9 6.9 53 43-98 233-286 (298)
50 KOG1645 RING-finger-containing 98.3 7.7E-07 1.7E-11 61.1 3.4 48 49-96 4-53 (463)
51 KOG4159 Predicted E3 ubiquitin 98.2 1E-06 2.2E-11 61.0 3.3 48 47-99 82-129 (398)
52 PF11789 zf-Nse: Zinc-finger o 98.2 9.9E-07 2.1E-11 45.3 2.3 45 46-93 8-53 (57)
53 KOG0297 TNF receptor-associate 98.2 8.1E-07 1.8E-11 61.5 2.4 48 46-98 18-66 (391)
54 KOG0825 PHD Zn-finger protein 98.2 3.1E-07 6.8E-12 67.4 -0.1 46 51-98 125-170 (1134)
55 PHA02825 LAP/PHD finger-like p 98.1 4E-06 8.6E-11 51.0 3.4 49 46-98 5-58 (162)
56 KOG1941 Acetylcholine receptor 98.0 1.2E-06 2.5E-11 60.1 0.2 49 47-96 363-413 (518)
57 KOG1785 Tyrosine kinase negati 98.0 2.1E-06 4.5E-11 59.1 1.2 44 51-98 371-415 (563)
58 PHA02862 5L protein; Provision 98.0 5.3E-06 1.2E-10 49.7 2.6 45 49-98 2-52 (156)
59 COG5152 Uncharacterized conser 97.9 4.2E-06 9.2E-11 52.7 1.0 41 51-96 198-238 (259)
60 KOG4445 Uncharacterized conser 97.9 5.2E-06 1.1E-10 55.2 1.2 50 48-98 114-185 (368)
61 KOG4185 Predicted E3 ubiquitin 97.8 1.1E-05 2.5E-10 53.8 2.2 48 50-97 4-53 (296)
62 KOG4275 Predicted E3 ubiquitin 97.8 3E-06 6.6E-11 56.1 -0.5 41 49-98 300-341 (350)
63 PF12906 RINGv: RING-variant d 97.8 2.1E-05 4.6E-10 38.8 2.4 42 52-94 1-47 (47)
64 COG5175 MOT2 Transcriptional r 97.8 1.4E-05 3.1E-10 54.1 2.0 53 46-98 11-63 (480)
65 KOG1428 Inhibitor of type V ad 97.8 1.7E-05 3.7E-10 62.2 2.5 55 43-98 3480-3543(3738)
66 KOG3970 Predicted E3 ubiquitin 97.7 3E-05 6.5E-10 49.8 3.1 51 47-99 48-105 (299)
67 KOG1813 Predicted E3 ubiquitin 97.7 8.4E-06 1.8E-10 54.0 0.6 42 51-97 243-284 (313)
68 PF05883 Baculo_RING: Baculovi 97.7 1.3E-05 2.9E-10 47.5 1.4 36 49-85 26-67 (134)
69 COG5222 Uncharacterized conser 97.7 3.6E-05 7.8E-10 51.4 3.5 44 50-96 275-318 (427)
70 KOG1002 Nucleotide excision re 97.7 1.8E-05 3.8E-10 56.4 1.9 52 42-97 529-584 (791)
71 KOG2660 Locus-specific chromos 97.7 7.8E-06 1.7E-10 54.8 -0.2 46 48-97 14-59 (331)
72 KOG1571 Predicted E3 ubiquitin 97.7 2.7E-05 5.7E-10 52.9 2.2 46 45-98 301-346 (355)
73 PHA03096 p28-like protein; Pro 97.7 2.3E-05 5E-10 52.2 1.9 47 50-96 179-231 (284)
74 KOG1952 Transcription factor N 97.6 3.5E-05 7.6E-10 57.3 2.1 48 49-96 191-244 (950)
75 PF10367 Vps39_2: Vacuolar sor 97.6 3.3E-05 7.2E-10 44.0 1.4 37 43-81 72-108 (109)
76 KOG1814 Predicted E3 ubiquitin 97.5 2.7E-05 6E-10 53.7 0.8 46 49-95 184-236 (445)
77 KOG4692 Predicted E3 ubiquitin 97.5 7.3E-05 1.6E-09 51.0 2.7 47 47-98 420-466 (489)
78 KOG0826 Predicted E3 ubiquitin 97.4 0.00095 2.1E-08 45.1 6.9 43 48-94 299-341 (357)
79 KOG3039 Uncharacterized conser 97.4 0.00018 4E-09 46.8 3.4 49 49-98 221-269 (303)
80 KOG4739 Uncharacterized protei 97.4 6.7E-05 1.4E-09 48.5 1.2 43 51-98 5-47 (233)
81 PF04641 Rtf2: Rtf2 RING-finge 97.4 0.0003 6.5E-09 46.4 4.2 50 47-98 111-160 (260)
82 KOG1940 Zn-finger protein [Gen 97.4 0.00012 2.5E-09 48.6 2.0 45 51-96 160-204 (276)
83 KOG3002 Zn finger protein [Gen 97.3 0.00012 2.6E-09 49.2 1.9 40 50-98 49-90 (299)
84 KOG3268 Predicted E3 ubiquitin 97.2 0.00034 7.4E-09 43.6 2.8 30 69-98 188-227 (234)
85 COG5236 Uncharacterized conser 97.2 0.00048 1E-08 47.0 3.3 48 46-97 58-106 (493)
86 PF14447 Prok-RING_4: Prokaryo 97.1 0.00021 4.6E-09 36.1 1.2 41 51-98 9-49 (55)
87 PF14446 Prok-RING_1: Prokaryo 97.1 0.00081 1.8E-08 33.9 2.9 35 48-82 4-38 (54)
88 PF07800 DUF1644: Protein of u 97.1 0.00071 1.5E-08 41.3 3.0 34 48-85 1-47 (162)
89 KOG3053 Uncharacterized conser 97.0 0.0003 6.4E-09 46.1 1.2 55 44-98 15-81 (293)
90 KOG2114 Vacuolar assembly/sort 97.0 0.00061 1.3E-08 51.0 2.5 42 48-96 839-880 (933)
91 KOG0827 Predicted E3 ubiquitin 96.9 5.4E-05 1.2E-09 52.1 -2.9 53 44-98 191-244 (465)
92 KOG3800 Predicted E3 ubiquitin 96.8 0.0014 3.1E-08 43.6 3.0 47 51-97 2-49 (300)
93 KOG1001 Helicase-like transcri 96.6 0.00069 1.5E-08 50.1 0.7 43 50-97 455-498 (674)
94 KOG2817 Predicted E3 ubiquitin 96.6 0.014 3E-07 40.6 6.7 45 51-96 336-382 (394)
95 PF10272 Tmpp129: Putative tra 96.5 0.0099 2.2E-07 41.0 5.6 27 72-98 312-350 (358)
96 PF08746 zf-RING-like: RING-li 96.5 0.0019 4.2E-08 31.1 1.6 42 52-94 1-43 (43)
97 COG5220 TFB3 Cdk activating ki 96.4 0.0014 3E-08 42.7 0.9 47 48-94 9-59 (314)
98 KOG0801 Predicted E3 ubiquitin 96.4 0.001 2.2E-08 40.9 0.3 29 48-77 176-204 (205)
99 PF03854 zf-P11: P-11 zinc fin 96.4 0.001 2.2E-08 32.6 0.2 29 70-99 17-46 (50)
100 KOG1812 Predicted E3 ubiquitin 96.3 0.002 4.2E-08 44.9 1.4 37 49-86 146-183 (384)
101 KOG1100 Predicted E3 ubiquitin 96.0 0.0024 5.3E-08 40.9 0.7 37 52-97 161-198 (207)
102 PF05290 Baculo_IE-1: Baculovi 96.0 0.055 1.2E-06 32.3 6.1 51 48-98 79-131 (140)
103 KOG2034 Vacuolar sorting prote 95.8 0.0049 1.1E-07 46.6 1.6 37 46-84 814-850 (911)
104 KOG3161 Predicted E3 ubiquitin 95.8 0.0033 7.2E-08 46.1 0.7 42 50-95 12-53 (861)
105 PF14569 zf-UDP: Zinc-binding 95.5 0.03 6.5E-07 30.3 3.4 51 48-98 8-61 (80)
106 KOG3899 Uncharacterized conser 95.2 0.012 2.5E-07 39.6 1.7 28 71-98 325-364 (381)
107 KOG0309 Conserved WD40 repeat- 95.1 0.017 3.7E-07 43.4 2.2 25 68-93 1045-1069(1081)
108 KOG0298 DEAD box-containing he 95.0 0.0085 1.8E-07 47.0 0.6 42 51-96 1155-1196(1394)
109 KOG1609 Protein involved in mR 94.9 0.021 4.6E-07 38.2 2.3 49 49-97 78-132 (323)
110 COG5183 SSM4 Protein involved 94.9 0.03 6.5E-07 42.5 3.1 51 47-98 10-65 (1175)
111 PF02891 zf-MIZ: MIZ/SP-RING z 94.4 0.089 1.9E-06 26.1 3.3 44 50-97 3-50 (50)
112 KOG4367 Predicted Zn-finger pr 94.3 0.024 5.3E-07 40.2 1.4 35 47-85 2-36 (699)
113 smart00249 PHD PHD zinc finger 94.2 0.017 3.7E-07 27.3 0.4 31 52-83 2-32 (47)
114 KOG2932 E3 ubiquitin ligase in 94.0 0.029 6.3E-07 38.1 1.4 43 50-98 91-133 (389)
115 PF07975 C1_4: TFIIH C1-like d 93.5 0.082 1.8E-06 26.4 2.1 43 52-95 2-50 (51)
116 KOG3113 Uncharacterized conser 92.9 0.19 4E-06 33.3 3.7 46 50-98 112-157 (293)
117 PLN02189 cellulose synthase 92.9 0.15 3.2E-06 39.8 3.7 51 48-98 33-86 (1040)
118 PF01363 FYVE: FYVE zinc finge 92.8 0.058 1.3E-06 28.2 1.0 38 47-84 7-44 (69)
119 KOG0825 PHD Zn-finger protein 92.7 0.087 1.9E-06 40.0 2.1 50 47-96 94-151 (1134)
120 KOG4362 Transcriptional regula 92.6 0.03 6.4E-07 41.6 -0.4 45 49-97 21-67 (684)
121 KOG1815 Predicted E3 ubiquitin 92.5 0.077 1.7E-06 37.7 1.7 38 46-86 67-104 (444)
122 PF10571 UPF0547: Uncharacteri 92.1 0.077 1.7E-06 22.7 0.8 23 51-75 2-24 (26)
123 PLN02436 cellulose synthase A 92.0 0.31 6.6E-06 38.3 4.3 51 48-98 35-88 (1094)
124 PF13901 DUF4206: Domain of un 91.5 0.1 2.2E-06 33.4 1.2 39 50-95 153-196 (202)
125 PF07191 zinc-ribbons_6: zinc- 91.4 0.0087 1.9E-07 31.8 -3.1 39 50-98 2-40 (70)
126 PF06906 DUF1272: Protein of u 91.2 0.35 7.6E-06 24.5 2.7 44 51-99 7-52 (57)
127 PF13719 zinc_ribbon_5: zinc-r 90.4 0.16 3.5E-06 23.4 1.1 26 51-76 4-36 (37)
128 KOG1829 Uncharacterized conser 90.3 0.079 1.7E-06 38.9 -0.1 40 50-94 512-556 (580)
129 KOG2068 MOT2 transcription fac 90.0 0.24 5.1E-06 33.9 2.0 47 50-98 250-297 (327)
130 KOG2066 Vacuolar assembly/sort 90.0 0.16 3.5E-06 38.4 1.3 43 44-87 779-825 (846)
131 KOG1812 Predicted E3 ubiquitin 89.9 0.16 3.5E-06 35.6 1.2 43 49-93 306-350 (384)
132 smart00064 FYVE Protein presen 89.8 0.3 6.6E-06 25.4 2.0 37 49-85 10-46 (68)
133 PF00628 PHD: PHD-finger; Int 89.8 0.14 3E-06 25.0 0.6 44 51-95 1-49 (51)
134 KOG4185 Predicted E3 ubiquitin 89.8 0.043 9.2E-07 36.7 -1.7 49 48-96 206-264 (296)
135 PLN02638 cellulose synthase A 89.7 0.78 1.7E-05 36.2 4.6 51 48-98 16-69 (1079)
136 TIGR00622 ssl1 transcription f 89.6 0.49 1.1E-05 27.5 2.8 47 49-96 55-111 (112)
137 KOG4718 Non-SMC (structural ma 89.5 0.23 5.1E-06 32.0 1.5 44 48-95 180-223 (235)
138 PF10497 zf-4CXXC_R1: Zinc-fin 89.4 0.65 1.4E-05 26.7 3.2 49 48-96 6-69 (105)
139 smart00132 LIM Zinc-binding do 89.3 0.49 1.1E-05 21.2 2.3 36 52-98 2-37 (39)
140 cd00065 FYVE FYVE domain; Zinc 89.0 0.31 6.6E-06 24.3 1.6 36 50-85 3-38 (57)
141 PLN02915 cellulose synthase A 89.0 0.87 1.9E-05 35.8 4.4 51 48-98 14-67 (1044)
142 PLN02195 cellulose synthase A 88.8 0.8 1.7E-05 35.8 4.1 51 48-98 5-58 (977)
143 KOG0802 E3 ubiquitin ligase [P 88.7 0.22 4.7E-06 36.4 1.2 43 46-97 476-518 (543)
144 KOG3579 Predicted E3 ubiquitin 88.6 0.22 4.8E-06 33.5 1.0 33 50-86 269-305 (352)
145 KOG0269 WD40 repeat-containing 88.0 0.77 1.7E-05 34.9 3.5 40 51-93 781-820 (839)
146 PLN02400 cellulose synthase 87.6 0.76 1.7E-05 36.2 3.4 51 48-98 35-88 (1085)
147 PF06844 DUF1244: Protein of u 87.5 0.41 8.9E-06 25.1 1.4 11 75-85 12-22 (68)
148 KOG3005 GIY-YIG type nuclease 87.5 0.56 1.2E-05 31.3 2.4 48 50-97 183-241 (276)
149 PF13717 zinc_ribbon_4: zinc-r 87.1 0.46 1E-05 21.8 1.4 26 51-76 4-36 (36)
150 PF02318 FYVE_2: FYVE-type zin 86.0 0.37 8.1E-06 28.1 0.9 35 48-82 53-88 (118)
151 COG3813 Uncharacterized protei 85.6 0.95 2.1E-05 24.2 2.2 24 72-98 28-51 (84)
152 PF04710 Pellino: Pellino; In 85.3 0.26 5.7E-06 34.6 0.0 28 67-97 305-337 (416)
153 PF04216 FdhE: Protein involve 84.5 0.28 6.1E-06 32.9 -0.1 49 47-96 170-219 (290)
154 KOG2807 RNA polymerase II tran 83.8 1.6 3.5E-05 30.1 3.2 47 49-97 330-376 (378)
155 PF10083 DUF2321: Uncharacteri 83.5 0.59 1.3E-05 28.7 1.0 41 54-98 9-49 (158)
156 COG5109 Uncharacterized conser 83.0 1.3 2.7E-05 30.5 2.4 46 50-96 337-384 (396)
157 PF07649 C1_3: C1-like domain; 82.6 1.4 3E-05 19.1 1.8 29 51-80 2-30 (30)
158 KOG3842 Adaptor protein Pellin 82.5 1.7 3.6E-05 30.0 2.9 55 44-98 336-413 (429)
159 KOG3039 Uncharacterized conser 82.3 1.6 3.4E-05 29.0 2.6 36 46-85 40-75 (303)
160 PF00412 LIM: LIM domain; Int 82.0 1.5 3.3E-05 21.6 2.1 9 71-79 18-26 (58)
161 smart00647 IBR In Between Ring 81.3 0.33 7.2E-06 24.6 -0.6 20 64-83 39-58 (64)
162 PF04423 Rad50_zn_hook: Rad50 77.8 0.68 1.5E-05 23.1 -0.1 9 90-98 22-30 (54)
163 TIGR00155 pqiA_fam integral me 75.8 7.6 0.00017 27.6 4.6 25 51-76 217-241 (403)
164 PF07282 OrfB_Zn_ribbon: Putat 75.7 3.4 7.3E-05 21.4 2.3 35 48-82 27-63 (69)
165 COG3492 Uncharacterized protei 75.1 1.8 3.9E-05 24.2 1.1 12 75-86 43-54 (104)
166 PF14311 DUF4379: Domain of un 73.9 3 6.4E-05 20.8 1.7 25 68-94 31-55 (55)
167 PF06750 DiS_P_DiS: Bacterial 73.4 14 0.0003 20.6 5.7 36 49-98 33-68 (92)
168 KOG2231 Predicted E3 ubiquitin 72.1 3.4 7.4E-05 31.2 2.3 44 51-98 2-51 (669)
169 KOG0824 Predicted E3 ubiquitin 71.8 1.3 2.8E-05 30.2 0.0 45 48-96 104-148 (324)
170 PF13832 zf-HC5HC2H_2: PHD-zin 69.8 7.2 0.00016 22.1 2.9 33 48-83 54-88 (110)
171 KOG3799 Rab3 effector RIM1 and 68.5 3 6.5E-05 25.2 1.1 25 44-75 60-84 (169)
172 smart00734 ZnF_Rad18 Rad18-lik 67.8 2.8 6.1E-05 17.7 0.7 8 90-97 3-10 (26)
173 PRK03564 formate dehydrogenase 66.3 6.8 0.00015 26.9 2.6 48 47-96 185-234 (309)
174 PF07172 GRP: Glycine rich pro 65.9 22 0.00047 20.0 4.5 8 1-8 1-8 (95)
175 PRK11088 rrmA 23S rRNA methylt 65.3 4.5 9.8E-05 26.7 1.6 25 50-75 3-27 (272)
176 KOG2071 mRNA cleavage and poly 65.2 4.6 0.0001 29.9 1.7 37 47-84 511-557 (579)
177 PF09723 Zn-ribbon_8: Zinc rib 64.4 1.7 3.6E-05 20.6 -0.4 27 68-96 8-34 (42)
178 PF09943 DUF2175: Uncharacteri 62.4 11 0.00023 21.6 2.5 33 51-85 4-36 (101)
179 PRK01343 zinc-binding protein; 62.2 4.6 0.0001 20.6 1.0 10 89-98 10-19 (57)
180 PF13240 zinc_ribbon_2: zinc-r 61.6 0.96 2.1E-05 18.6 -1.4 6 91-96 16-21 (23)
181 KOG2113 Predicted RNA binding 60.4 12 0.00027 25.9 3.0 42 49-97 343-385 (394)
182 COG4357 Zinc finger domain con 60.3 9.7 0.00021 21.6 2.1 26 71-98 65-90 (105)
183 KOG3726 Uncharacterized conser 60.0 5.7 0.00012 30.1 1.4 42 49-94 654-695 (717)
184 PF03107 C1_2: C1 domain; Int 59.6 5.7 0.00012 17.2 0.9 28 51-79 2-29 (30)
185 PF12773 DZR: Double zinc ribb 57.3 6.5 0.00014 18.9 1.0 11 50-60 13-23 (50)
186 COG4306 Uncharacterized protei 57.3 6.9 0.00015 23.4 1.2 21 74-98 29-49 (160)
187 COG4647 AcxC Acetone carboxyla 57.2 7.6 0.00017 23.3 1.4 22 52-77 60-81 (165)
188 TIGR01562 FdhE formate dehydro 57.2 9.8 0.00021 26.1 2.1 47 48-96 183-232 (305)
189 KOG4021 Mitochondrial ribosoma 57.2 5.3 0.00011 25.7 0.8 21 77-98 97-118 (239)
190 PF03119 DNA_ligase_ZBD: NAD-d 56.3 3.4 7.4E-05 17.8 -0.1 9 90-98 1-9 (28)
191 KOG4218 Nuclear hormone recept 56.0 7.9 0.00017 27.2 1.5 17 45-61 11-27 (475)
192 smart00109 C1 Protein kinase C 55.3 9.1 0.0002 17.8 1.3 35 49-83 11-45 (49)
193 PF01485 IBR: IBR domain; Int 55.2 0.75 1.6E-05 23.2 -2.8 33 51-83 20-58 (64)
194 PF13771 zf-HC5HC2H: PHD-like 55.0 9.3 0.0002 20.7 1.5 32 50-82 37-68 (90)
195 KOG0955 PHD finger protein BR1 55.0 22 0.00047 28.6 3.8 38 44-81 214-252 (1051)
196 PF12292 DUF3624: Protein of u 54.2 3.5 7.7E-05 22.3 -0.3 19 76-94 3-21 (77)
197 PF09237 GAGA: GAGA factor; I 54.2 3.7 8E-05 20.5 -0.2 7 90-96 26-32 (54)
198 PF10669 Phage_Gp23: Protein g 54.0 8.8 0.00019 21.8 1.3 24 6-29 17-40 (121)
199 KOG2979 Protein involved in DN 53.9 7.4 0.00016 26.0 1.1 41 50-93 177-218 (262)
200 PRK05978 hypothetical protein; 53.6 7.3 0.00016 23.8 1.0 26 67-98 35-62 (148)
201 PF06677 Auto_anti-p27: Sjogre 53.5 10 0.00022 17.9 1.2 9 90-98 19-27 (41)
202 TIGR02605 CxxC_CxxC_SSSS putat 53.4 4.7 0.0001 19.6 0.1 27 68-96 8-34 (52)
203 COG5627 MMS21 DNA repair prote 52.5 7 0.00015 25.9 0.8 42 49-93 189-231 (275)
204 PRK04023 DNA polymerase II lar 51.8 9.9 0.00021 30.3 1.6 44 47-97 624-672 (1121)
205 COG0675 Transposase and inacti 51.5 15 0.00033 24.5 2.4 32 46-80 306-337 (364)
206 PF06937 EURL: EURL protein; 51.3 21 0.00045 24.1 2.9 43 50-93 31-75 (285)
207 TIGR02098 MJ0042_CXXC MJ0042 f 50.8 14 0.00029 16.7 1.5 10 51-60 4-13 (38)
208 PF13913 zf-C2HC_2: zinc-finge 50.7 7.3 0.00016 16.1 0.5 9 90-98 4-12 (25)
209 cd00729 rubredoxin_SM Rubredox 50.7 8.2 0.00018 17.3 0.7 7 90-96 20-26 (34)
210 COG4847 Uncharacterized protei 50.7 29 0.00063 19.7 3.0 34 50-85 7-40 (103)
211 PF14353 CpXC: CpXC protein 50.1 15 0.00032 21.4 1.9 12 51-62 3-14 (128)
212 cd00350 rubredoxin_like Rubred 49.8 9.1 0.0002 16.9 0.8 7 90-96 19-25 (33)
213 KOG4323 Polycomb-like PHD Zn-f 49.7 14 0.00031 26.8 2.0 36 49-84 168-204 (464)
214 PF10764 Gin: Inhibitor of sig 49.5 19 0.00041 17.4 1.9 31 51-86 1-31 (46)
215 PLN02248 cellulose synthase-li 49.2 15 0.00033 29.6 2.2 28 70-98 149-176 (1135)
216 PF09297 zf-NADH-PPase: NADH p 48.9 1.1 2.3E-05 19.8 -2.5 7 52-58 6-12 (32)
217 COG1645 Uncharacterized Zn-fin 48.5 11 0.00024 22.6 1.2 25 50-74 29-53 (131)
218 PF09889 DUF2116: Uncharacteri 47.6 12 0.00027 19.2 1.1 27 50-86 4-31 (59)
219 PF10235 Cript: Microtubule-as 46.8 12 0.00025 21.0 1.0 36 49-98 44-79 (90)
220 COG3058 FdhE Uncharacterized p 46.8 56 0.0012 22.4 4.3 49 47-96 183-233 (308)
221 smart00659 RPOLCX RNA polymera 46.8 7.8 0.00017 18.6 0.3 6 90-95 21-26 (44)
222 PF14169 YdjO: Cold-inducible 46.4 18 0.0004 18.5 1.6 17 47-63 37-53 (59)
223 KOG2041 WD40 repeat protein [G 46.4 21 0.00045 27.9 2.5 27 67-98 1158-1184(1189)
224 KOG1729 FYVE finger containing 46.3 3.8 8.3E-05 27.8 -1.1 35 51-86 216-250 (288)
225 smart00531 TFIIE Transcription 45.3 22 0.00048 21.4 2.2 10 89-98 124-133 (147)
226 PF06679 DUF1180: Protein of u 45.0 32 0.0007 21.4 2.9 16 16-31 106-121 (163)
227 PF09435 DUF2015: Fungal prote 44.7 48 0.001 19.8 3.4 28 1-28 1-28 (128)
228 PF14369 zf-RING_3: zinc-finge 44.6 11 0.00025 17.0 0.7 9 91-99 24-32 (35)
229 PTZ00303 phosphatidylinositol 44.6 14 0.0003 29.0 1.4 35 50-84 461-500 (1374)
230 PF10146 zf-C4H2: Zinc finger- 43.2 19 0.00041 23.7 1.7 21 75-96 196-216 (230)
231 TIGR00686 phnA alkylphosphonat 43.1 14 0.00029 21.4 0.9 26 51-76 4-30 (109)
232 PF09337 zf-H2C2: His(2)-Cys(2 42.1 20 0.00043 16.7 1.3 6 90-95 34-39 (39)
233 PF14319 Zn_Tnp_IS91: Transpos 40.5 25 0.00053 20.3 1.8 35 46-86 39-77 (111)
234 COG4338 Uncharacterized protei 40.1 10 0.00023 18.6 0.1 9 90-98 14-22 (54)
235 COG1545 Predicted nucleic-acid 39.8 21 0.00045 21.5 1.4 22 67-97 31-52 (140)
236 PF05191 ADK_lid: Adenylate ki 39.7 16 0.00035 16.6 0.7 29 67-98 3-31 (36)
237 PRK00420 hypothetical protein; 39.6 22 0.00047 20.7 1.4 24 50-73 24-48 (112)
238 PRK00398 rpoP DNA-directed RNA 39.5 10 0.00022 18.0 0.1 10 89-98 22-31 (46)
239 COG2888 Predicted Zn-ribbon RN 39.2 50 0.0011 17.0 2.6 46 50-95 10-57 (61)
240 KOG2907 RNA polymerase I trans 39.0 10 0.00022 22.1 0.0 31 66-97 75-111 (116)
241 PRK11595 DNA utilization prote 38.4 28 0.00061 22.5 2.0 8 52-59 8-15 (227)
242 PF12756 zf-C2H2_2: C2H2 type 38.4 10 0.00022 20.4 -0.0 27 51-77 1-27 (100)
243 PF00130 C1_1: Phorbol esters/ 38.3 32 0.0007 16.5 1.8 35 48-82 10-45 (53)
244 COG1862 YajC Preprotein transl 38.1 78 0.0017 17.9 3.8 16 13-28 16-31 (97)
245 PRK14890 putative Zn-ribbon RN 38.0 47 0.001 17.1 2.3 43 50-95 8-55 (59)
246 cd00730 rubredoxin Rubredoxin; 38.0 18 0.00039 17.8 0.8 10 88-97 34-43 (50)
247 cd00029 C1 Protein kinase C co 37.6 21 0.00046 16.7 1.0 34 49-82 11-45 (50)
248 KOG4451 Uncharacterized conser 37.4 24 0.00052 23.4 1.5 21 75-96 251-271 (286)
249 KOG2462 C2H2-type Zn-finger pr 37.4 9.8 0.00021 25.7 -0.2 52 47-98 159-225 (279)
250 PF07227 DUF1423: Protein of u 37.3 26 0.00057 25.3 1.8 31 51-82 130-163 (446)
251 PF03966 Trm112p: Trm112p-like 37.2 28 0.0006 18.0 1.5 8 68-75 56-63 (68)
252 PF00096 zf-C2H2: Zinc finger, 36.9 8.3 0.00018 15.0 -0.4 7 90-96 2-8 (23)
253 PF08209 Sgf11: Sgf11 (transcr 36.5 12 0.00026 16.8 0.0 9 90-98 6-14 (33)
254 PF04606 Ogr_Delta: Ogr/Delta- 36.4 16 0.00034 17.6 0.5 6 70-75 32-37 (47)
255 COG3809 Uncharacterized protei 36.2 14 0.00031 20.2 0.3 12 51-62 3-14 (88)
256 COG2824 PhnA Uncharacterized Z 35.7 10 0.00022 21.9 -0.3 28 51-85 5-32 (112)
257 PRK10220 hypothetical protein; 35.1 27 0.00059 20.3 1.3 26 51-76 5-31 (111)
258 PF02132 RecR: RecR protein; 35.0 10 0.00022 17.7 -0.3 12 47-58 27-38 (41)
259 PTZ00083 40S ribosomal protein 34.7 54 0.0012 18.2 2.4 46 31-76 17-65 (85)
260 PF05502 Dynactin_p62: Dynacti 34.3 24 0.00052 25.8 1.3 15 48-62 25-39 (483)
261 PF15353 HECA: Headcase protei 33.7 31 0.00068 19.9 1.4 15 71-85 40-54 (107)
262 KOG4430 Topoisomerase I-bindin 33.3 11 0.00024 27.9 -0.5 51 47-98 258-308 (553)
263 PF08274 PhnA_Zn_Ribbon: PhnA 32.7 24 0.00052 15.4 0.7 24 51-74 4-28 (30)
264 KOG2079 Vacuolar assembly/sort 32.6 27 0.00059 28.2 1.4 38 48-85 1132-1169(1206)
265 PF05605 zf-Di19: Drought indu 32.6 21 0.00046 17.5 0.6 11 50-60 3-13 (54)
266 COG0777 AccD Acetyl-CoA carbox 32.2 49 0.0011 22.6 2.3 29 51-79 30-61 (294)
267 PRK06531 yajC preprotein trans 31.9 81 0.0018 18.4 3.0 7 75-81 74-80 (113)
268 PF13894 zf-C2H2_4: C2H2-type 31.6 16 0.00035 13.8 0.1 7 90-96 2-8 (24)
269 KOG1705 Uncharacterized conser 31.6 36 0.00079 19.1 1.4 24 48-71 26-49 (110)
270 COG2816 NPY1 NTP pyrophosphohy 31.6 9.1 0.0002 25.9 -1.1 11 72-82 110-120 (279)
271 TIGR00739 yajC preprotein tran 31.4 94 0.002 16.9 3.1 6 19-24 16-21 (84)
272 PF11781 RRN7: RNA polymerase 31.2 22 0.00048 16.2 0.5 8 90-97 10-17 (36)
273 COG5216 Uncharacterized conser 31.2 30 0.00065 17.8 1.0 21 54-74 33-53 (67)
274 KOG4443 Putative transcription 30.8 30 0.00065 26.4 1.3 27 70-96 40-70 (694)
275 KOG2272 Focal adhesion protein 30.6 45 0.00098 22.5 2.0 50 46-99 180-232 (332)
276 PRK06266 transcription initiat 30.5 91 0.002 19.6 3.3 12 87-98 135-146 (178)
277 KOG1818 Membrane trafficking a 30.3 22 0.00049 26.9 0.6 35 50-84 166-200 (634)
278 PF00301 Rubredoxin: Rubredoxi 30.3 26 0.00056 17.0 0.7 8 89-96 35-42 (47)
279 PF10013 DUF2256: Uncharacteri 29.7 30 0.00064 16.5 0.8 9 90-98 10-18 (42)
280 TIGR00373 conserved hypothetic 29.5 60 0.0013 19.9 2.3 12 87-98 127-138 (158)
281 PF15486 DUF4644: Domain of un 29.1 13 0.00027 22.6 -0.7 15 82-96 147-161 (161)
282 PF02148 zf-UBP: Zn-finger in 28.4 41 0.00088 17.0 1.3 24 52-78 1-24 (63)
283 PF13465 zf-H2C2_2: Zinc-finge 28.2 15 0.00032 15.2 -0.4 9 89-97 15-23 (26)
284 COG5151 SSL1 RNA polymerase II 28.1 86 0.0019 21.9 3.0 46 50-96 363-418 (421)
285 PF07127 Nodulin_late: Late no 27.7 86 0.0019 15.4 2.3 11 1-11 1-11 (54)
286 PF10066 DUF2304: Uncharacteri 27.6 79 0.0017 18.2 2.5 23 4-26 68-90 (115)
287 PF11290 DUF3090: Protein of u 27.5 66 0.0014 20.3 2.2 12 87-98 153-164 (171)
288 PRK00595 rpmG 50S ribosomal pr 27.4 25 0.00055 17.5 0.3 9 90-98 39-47 (53)
289 COG1996 RPC10 DNA-directed RNA 27.3 41 0.00088 16.6 1.0 11 50-60 7-17 (49)
290 PLN00209 ribosomal protein S27 26.9 83 0.0018 17.5 2.3 43 34-76 21-66 (86)
291 PF08882 Acetone_carb_G: Aceto 26.8 28 0.0006 20.3 0.5 18 65-84 24-41 (112)
292 PRK15103 paraquat-inducible me 26.7 1.8E+02 0.0039 21.0 4.5 23 51-75 223-245 (419)
293 TIGR01023 rpmG_bact ribosomal 26.4 27 0.00059 17.5 0.4 9 90-98 40-48 (54)
294 KOG1538 Uncharacterized conser 26.4 30 0.00064 26.8 0.7 29 68-97 1047-1075(1081)
295 TIGR03847 conserved hypothetic 26.1 73 0.0016 20.2 2.2 13 86-98 154-166 (177)
296 COG3357 Predicted transcriptio 26.0 30 0.00065 19.5 0.5 24 70-98 63-86 (97)
297 PF02009 Rifin_STEVOR: Rifin/s 25.9 1E+02 0.0022 21.2 3.1 15 16-30 268-282 (299)
298 CHL00104 rpl33 ribosomal prote 25.8 30 0.00065 18.2 0.5 9 90-98 51-59 (66)
299 KOG4684 Uncharacterized conser 25.5 84 0.0018 20.7 2.5 22 71-96 173-197 (275)
300 PF02060 ISK_Channel: Slow vol 25.4 1.6E+02 0.0035 17.6 4.6 23 19-41 58-80 (129)
301 KOG0956 PHD finger protein AF1 25.4 44 0.00096 25.9 1.4 38 46-83 114-157 (900)
302 PF01405 PsbT: Photosystem II 25.2 76 0.0016 13.8 2.7 22 1-22 1-22 (29)
303 KOG0396 Uncharacterized conser 24.9 1E+02 0.0022 22.0 3.0 50 45-94 300-374 (389)
304 KOG3475 60S ribosomal protein 24.8 36 0.00078 18.8 0.7 25 72-96 15-39 (92)
305 PRK05585 yajC preprotein trans 24.8 1.5E+02 0.0032 17.0 3.6 8 75-82 89-96 (106)
306 PHA03030 hypothetical protein; 24.7 79 0.0017 18.2 2.0 18 4-21 4-21 (122)
307 PRK09678 DNA-binding transcrip 24.6 33 0.00071 18.3 0.5 6 70-75 34-39 (72)
308 PF15468 DUF4636: Domain of un 24.5 1.9E+02 0.0042 19.1 4.0 9 5-13 43-51 (243)
309 PF11682 DUF3279: Protein of u 24.5 53 0.0011 19.7 1.4 9 90-98 112-120 (128)
310 PHA02942 putative transposase; 24.5 78 0.0017 22.4 2.4 33 48-80 324-357 (383)
311 PF12660 zf-TFIIIC: Putative z 24.4 39 0.00084 19.0 0.8 46 50-97 15-64 (99)
312 TIGR02300 FYDLN_acid conserved 24.1 52 0.0011 19.7 1.3 28 51-78 11-39 (129)
313 PF09538 FYDLN_acid: Protein o 23.9 28 0.00061 20.1 0.1 28 51-78 11-39 (108)
314 smart00714 LITAF Possible memb 23.9 19 0.00041 18.6 -0.6 8 90-97 54-61 (67)
315 PRK00504 rpmG 50S ribosomal pr 23.8 34 0.00074 16.9 0.4 8 90-97 36-43 (50)
316 smart00355 ZnF_C2H2 zinc finge 23.7 40 0.00087 12.7 0.6 8 90-97 2-9 (26)
317 PF10601 zf-LITAF-like: LITAF- 23.7 15 0.00033 19.2 -0.9 14 48-61 6-19 (73)
318 PF13248 zf-ribbon_3: zinc-rib 23.6 15 0.00032 15.3 -0.8 7 90-96 18-24 (26)
319 smart00290 ZnF_UBP Ubiquitin C 23.6 76 0.0016 14.9 1.7 23 52-78 2-24 (50)
320 KOG1356 Putative transcription 23.5 40 0.00086 26.6 0.9 35 48-84 228-262 (889)
321 COG0267 RpmG Ribosomal protein 23.4 29 0.00063 17.2 0.1 9 90-98 36-44 (50)
322 PF03660 PHF5: PHF5-like prote 22.8 20 0.00044 20.6 -0.6 20 48-67 26-45 (106)
323 PF15446 zf-PHD-like: PHD/FYVE 22.5 51 0.0011 20.8 1.1 32 52-83 2-35 (175)
324 COG0353 RecR Recombinational D 21.8 80 0.0017 20.4 1.9 23 42-64 59-81 (198)
325 CHL00031 psbT photosystem II p 21.8 98 0.0021 13.9 2.4 23 1-23 1-23 (33)
326 KOG2302 T-type voltage-gated C 21.7 98 0.0021 25.6 2.6 27 2-28 1656-1682(1956)
327 KOG0230 Phosphatidylinositol-4 21.7 35 0.00076 28.6 0.3 19 67-85 877-895 (1598)
328 PF14205 Cys_rich_KTR: Cystein 21.3 37 0.00079 17.2 0.2 8 51-58 6-13 (55)
329 KOG1701 Focal adhesion adaptor 21.3 8.1 0.00017 27.8 -2.8 25 51-79 336-360 (468)
330 PF06676 DUF1178: Protein of u 21.2 1.5E+02 0.0032 18.2 2.9 22 71-97 10-41 (148)
331 PRK11875 psbT photosystem II r 21.1 99 0.0021 13.6 2.8 22 1-22 1-22 (31)
332 KOG1245 Chromatin remodeling c 21.0 36 0.00078 28.4 0.3 49 47-96 1106-1157(1404)
333 PRK05654 acetyl-CoA carboxylas 21.0 1.1E+02 0.0025 20.8 2.6 9 51-59 29-37 (292)
334 PF15616 TerY-C: TerY-C metal 20.7 31 0.00066 20.7 -0.1 37 50-97 78-114 (131)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.77 E-value=1.3e-19 Score=89.03 Aligned_cols=44 Identities=52% Similarity=1.226 Sum_probs=38.0
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
++|+||++++.+++.+..++ |||.||.+|+.+|++++. +||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~-~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNN-SCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSS-B-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCC-cCCccC
Confidence 46999999999888887776 999999999999999765 999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.77 E-value=1.1e-18 Score=116.78 Aligned_cols=48 Identities=42% Similarity=1.018 Sum_probs=43.8
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+||+|+|..+|++++|| |+|.||..||+.|+.+.+..||+||+++
T Consensus 230 ~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcC
Confidence 58999999999999999986 9999999999999997765699999875
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.66 E-value=7.3e-17 Score=87.11 Aligned_cols=46 Identities=39% Similarity=0.963 Sum_probs=35.3
Q ss_pred cccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 49 EEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 49 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
++.|+||++++.++ +....+++|||.||..||.+|++.++ +||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence 44599999999432 23335557999999999999999666 999998
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.64 E-value=6.1e-16 Score=103.75 Aligned_cols=55 Identities=36% Similarity=0.884 Sum_probs=43.1
Q ss_pred CCCCCcccccccccccccccCC----------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 42 EAEDSKVEEICSICLMEFEKED----------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 42 ~~~~~~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+++-...|..|.||+|++-.++ ...++ +|||.+|..|++.|+++++ +||+||.++
T Consensus 280 ~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQ-TCPICr~p~ 344 (491)
T COG5243 280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQ-TCPICRRPV 344 (491)
T ss_pred hhhhcCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhcc-CCCcccCcc
Confidence 4444567779999999953322 23355 5999999999999999887 999999985
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.64 E-value=1.6e-16 Score=102.18 Aligned_cols=51 Identities=33% Similarity=0.864 Sum_probs=41.1
Q ss_pred cccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..+.+|+||++.+.+++ ....+++|||.||.+||.+|++++. +||+||+++
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-tCPlCR~~~ 226 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-TCPVCRTPF 226 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-CCCCCCCEe
Confidence 34578999999987643 2346668999999999999998554 999999875
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.57 E-value=2.6e-15 Score=93.49 Aligned_cols=51 Identities=37% Similarity=0.709 Sum_probs=40.6
Q ss_pred CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc---------------CCCcCccCCCCC
Q 037626 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC---------------NQFTCPVCRSFF 98 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~---------------~~~~CP~CR~~~ 98 (99)
.+..++.+|+||++.+.++ ++++|||.||..||..|+.. ++.+||+||+++
T Consensus 13 ~~~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred ccCCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 3444567899999998877 55679999999999999852 234799999875
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=1.7e-15 Score=98.53 Aligned_cols=47 Identities=34% Similarity=0.805 Sum_probs=40.3
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..+..|.+|+|...++ ..++|||.||.+||.+|...+. .||+||+.+
T Consensus 237 ~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~ 283 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKA-ECPLCREKF 283 (293)
T ss_pred CCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHcccc-CCCcccccC
Confidence 3446799999999888 6668999999999999999555 899999864
No 8
>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=99.55 E-value=3.9e-15 Score=74.88 Aligned_cols=45 Identities=38% Similarity=0.829 Sum_probs=36.0
Q ss_pred cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+..|.||++...+. .+.+|||. ||.+|+.+|++ ++..||+||+++
T Consensus 2 ~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i 47 (50)
T PF13920_consen 2 DEECPICFENPRDV----VLLPCGHLCFCEECAERLLK-RKKKCPICRQPI 47 (50)
T ss_dssp HSB-TTTSSSBSSE----EEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-
T ss_pred cCCCccCCccCCce----EEeCCCChHHHHHHhHHhcc-cCCCCCcCChhh
Confidence 56799999986653 55579999 99999999999 444999999976
No 9
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=6.7e-15 Score=96.51 Aligned_cols=50 Identities=38% Similarity=0.864 Sum_probs=43.4
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~ 99 (99)
..+|+|||+++...|+++.+| |.|.||..|++.|+..-+..||+||.+++
T Consensus 323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCC
Confidence 457999999999999987775 99999999999999854458999999874
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.52 E-value=1.1e-14 Score=79.69 Aligned_cols=51 Identities=35% Similarity=0.884 Sum_probs=39.4
Q ss_pred ccccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~~~ 98 (99)
+++.|.||..+|+.. +-......|+|.||..||.+|++++ +.+||+||+++
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 377899999998731 1123455799999999999999863 45899999975
No 11
>PHA02926 zinc finger-like protein; Provisional
Probab=99.51 E-value=9.7e-15 Score=92.22 Aligned_cols=52 Identities=31% Similarity=0.731 Sum_probs=39.6
Q ss_pred ccccccccccccccc-----CCeeeEecCCCCcccHHHHHHHHhcC-----CCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEK-----EDVVSRLTRCCHLFHADCIERWLDCN-----QFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~-----~~~~~~l~~C~H~fh~~Ci~~w~~~~-----~~~CP~CR~~~ 98 (99)
..+.+|+||+|..-. +.....+++|+|.||..||+.|.+.+ ..+||+||..+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 345789999998632 22345777999999999999999743 23599999864
No 12
>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=99.50 E-value=3e-14 Score=69.43 Aligned_cols=45 Identities=42% Similarity=1.013 Sum_probs=36.2
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+|+||++.+.++ ..+++|||.||..|++.|++.++..||.||..+
T Consensus 1 ~C~iC~~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCc---eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998332 244469999999999999986466899999864
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.50 E-value=2.1e-14 Score=69.59 Aligned_cols=39 Identities=38% Similarity=0.869 Sum_probs=30.2
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC---CcCccC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ---FTCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~---~~CP~C 94 (99)
|+||++.+.++ +.++|||+||.+||.+|++..+ ..||.|
T Consensus 1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998 6668999999999999987643 369987
No 14
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.48 E-value=3.4e-14 Score=67.90 Aligned_cols=39 Identities=44% Similarity=0.999 Sum_probs=31.3
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
|+||++.+.++ .+.++|||.||.+|+.+|++. +.+||+|
T Consensus 1 C~iC~~~~~~~---~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP---VVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE---EEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCc---CEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999998774 345579999999999999997 5599998
No 15
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.42 E-value=1.4e-13 Score=66.35 Aligned_cols=40 Identities=43% Similarity=1.089 Sum_probs=33.9
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHh-cCCCcCccC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-~~~~~CP~C 94 (99)
|+||++.+.++. .+++|||.||..|+.+|++ .+...||.|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988772 3668999999999999998 455689998
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=2e-13 Score=86.63 Aligned_cols=48 Identities=33% Similarity=0.645 Sum_probs=39.2
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~~~ 98 (99)
...-+|.||+|.-+++ +++.|||.||+.||.+|++.+ ...||+||..+
T Consensus 45 ~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred CCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 4445899999998888 666799999999999999863 23589999754
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.38 E-value=4.4e-13 Score=65.62 Aligned_cols=44 Identities=34% Similarity=0.936 Sum_probs=35.0
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.|+||++++.+.... .+++|||+||.+|+..+.. +...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~-~l~~CgH~~C~~C~~~~~~-~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRP-RLTSCGHIFCEKCLKKLKG-KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCe-EEcccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence 499999999444444 5667999999999999883 4458999985
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=3.8e-13 Score=95.79 Aligned_cols=49 Identities=41% Similarity=1.008 Sum_probs=40.5
Q ss_pred cccccccccccccccCCe--eeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 47 KVEEICSICLMEFEKEDV--VSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~--~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
..++.|+||+|++..+.. ..++ +|||.||..|+++|+++++ +||+||..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~q-tCP~CR~~ 339 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQ-TCPTCRTV 339 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhC-cCCcchhh
Confidence 336789999999987543 3355 5999999999999999766 99999974
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=8.2e-13 Score=80.88 Aligned_cols=46 Identities=33% Similarity=0.709 Sum_probs=37.3
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+|||+.+..... .-++|||+||..||+..++... .||+||+.+
T Consensus 132 ~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~-~CP~C~kkI 177 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTN-KCPTCRKKI 177 (187)
T ss_pred cCCCceecchhhccc--cccccchhHHHHHHHHHHHhCC-CCCCccccc
Confidence 579999999875533 3358999999999999999555 999999643
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=99.30 E-value=2.6e-12 Score=60.51 Aligned_cols=39 Identities=41% Similarity=1.069 Sum_probs=31.2
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
|+||++...+. ..++|||.||..|++.|++..+.+||.|
T Consensus 1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCc----EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999984433 4446999999999999998555579987
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.26 E-value=8e-12 Score=65.36 Aligned_cols=44 Identities=23% Similarity=0.360 Sum_probs=38.0
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+||.+.+.++ ...+|||+|+.+|+.+|++. +.+||.|++++
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLS-HGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCC
Confidence 4699999999987 55579999999999999986 45899999864
No 22
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.26 E-value=4.8e-12 Score=61.41 Aligned_cols=40 Identities=33% Similarity=0.839 Sum_probs=22.8
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcC---CCcCc
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN---QFTCP 92 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~---~~~CP 92 (99)
|+||.| +.+++...++++|||+|+++|++++...+ ...||
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 77655544555699999999999998853 45687
No 23
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=1.6e-11 Score=79.62 Aligned_cols=55 Identities=25% Similarity=0.666 Sum_probs=41.4
Q ss_pred CCCCcccccccccccccccCC-------eeeEecCCCCcccHHHHHHHHhc-CCCcCccCCCCC
Q 037626 43 AEDSKVEEICSICLMEFEKED-------VVSRLTRCCHLFHADCIERWLDC-NQFTCPVCRSFF 98 (99)
Q Consensus 43 ~~~~~~~~~C~IC~~~~~~~~-------~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~CR~~~ 98 (99)
+....++..|+||-..+..+. +.-++ .|+|+||+.||+.|... ++.+||.|++.+
T Consensus 218 Ptkhl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 218 PTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCCCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 445566778999999987654 44455 59999999999999643 333899998753
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.20 E-value=1.2e-11 Score=84.80 Aligned_cols=50 Identities=34% Similarity=0.586 Sum_probs=41.1
Q ss_pred CCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
...+....|+||++.+.++ ++++|||.||..|+..|+... ..||.||..+
T Consensus 21 ~~Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~ 70 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAED 70 (397)
T ss_pred cccccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCC-CCCCCCCCcc
Confidence 3344556899999999887 556899999999999999854 4899999864
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=4.5e-12 Score=67.46 Aligned_cols=50 Identities=42% Similarity=0.921 Sum_probs=37.6
Q ss_pred cccccccccccccC---------CeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKE---------DVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~~ 98 (99)
++.|.||..+|+.. +-..++..|.|.||..||.+|+.. ++..||+||+.+
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 34799999998632 222234479999999999999975 445799999975
No 26
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.12 E-value=4.9e-11 Score=64.04 Aligned_cols=48 Identities=35% Similarity=0.798 Sum_probs=35.4
Q ss_pred ccccccccccc-----------cCC-eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFE-----------KED-VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~-----------~~~-~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+.|+||...+. +++ -.....-|+|.||..||.+|+.++. .||++|+++
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~-~CPld~q~w 80 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG-VCPLDRQTW 80 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCC-CCCCCCcee
Confidence 45777776653 222 2334446999999999999999654 999999976
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=1.1e-10 Score=75.60 Aligned_cols=47 Identities=34% Similarity=0.683 Sum_probs=38.4
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHH-HHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER-WLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~-w~~~~~~~CP~CR~~~ 98 (99)
.+..|+||++....+ ..++|||.||..||-. |-.++...||+||+..
T Consensus 214 ~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 214 ADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred cccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 366799999998877 5557999999999999 8775553599999864
No 28
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=1.1e-10 Score=81.26 Aligned_cols=46 Identities=33% Similarity=0.756 Sum_probs=37.4
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC----CCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN----QFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~----~~~CP~CR~~~ 98 (99)
+..||||+++...+ ..+.|||.||..||-+++... -..||+||..|
T Consensus 186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 67899999997766 666799999999999977643 23799999764
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.4e-10 Score=80.58 Aligned_cols=52 Identities=35% Similarity=0.841 Sum_probs=39.5
Q ss_pred ccccccccccccccC-----Ce-----e---eEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626 48 VEEICSICLMEFEKE-----DV-----V---SRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~-----~~-----~---~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~ 99 (99)
...+|+|||.+++-. .. + -.++||.|.||..|+.+|.+..+..||.||.++.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 345799999987521 11 1 1345899999999999999965558999999874
No 30
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.99 E-value=4.7e-10 Score=74.60 Aligned_cols=50 Identities=16% Similarity=0.485 Sum_probs=36.2
Q ss_pred cccccccccc-cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLME-FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+..||+|..+ +.+++......+|||.||.+|++..+..+...||.|+.++
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~l 53 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPL 53 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence 4579999996 3344321112269999999999997765666899998764
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.97 E-value=2.9e-10 Score=78.19 Aligned_cols=47 Identities=32% Similarity=0.799 Sum_probs=37.3
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.+-.+||||+|.+++...-.....|.|.||..|+..|.. .+||+||.
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~ 219 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRY 219 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhh
Confidence 444589999999987753333335999999999999976 48999985
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.93 E-value=1.5e-10 Score=61.88 Aligned_cols=50 Identities=26% Similarity=0.555 Sum_probs=23.3
Q ss_pred cccccccccccccCC-e-eeEe--cCCCCcccHHHHHHHHhc---CC-------CcCccCCCCC
Q 037626 49 EEICSICLMEFEKED-V-VSRL--TRCCHLFHADCIERWLDC---NQ-------FTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~-~-~~~l--~~C~H~fh~~Ci~~w~~~---~~-------~~CP~CR~~~ 98 (99)
+.+|.||++...+++ . .... ..|++.||..|+.+|+.. ++ .+||.|++++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 457999999876332 2 2223 279999999999999863 11 2599999875
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.92 E-value=4.8e-10 Score=75.02 Aligned_cols=45 Identities=31% Similarity=0.682 Sum_probs=39.1
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
-..|.||.+-|..+ .+++|||+||.-||+..+. .+..||.|+.++
T Consensus 23 lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~-~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 23 LLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLS-YKPQCPTCCVTV 67 (442)
T ss_pred HHHHhHHHHHhcCc----eeccccchHHHHHHHHHhc-cCCCCCceeccc
Confidence 34799999999988 7778999999999999998 555899998754
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.90 E-value=8.5e-10 Score=72.59 Aligned_cols=45 Identities=38% Similarity=0.611 Sum_probs=39.0
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
....|.||-+.+..+ ..++|||.||.-||+..+. .+..||+||.+
T Consensus 24 s~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~-~qp~CP~Cr~~ 68 (391)
T COG5432 24 SMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLG-TQPFCPVCRED 68 (391)
T ss_pred hHHHhhhhhheeecc----eecccccchhHHHHHHHhc-CCCCCcccccc
Confidence 345799999999888 7778999999999999999 55589999975
No 35
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=1.2e-09 Score=61.41 Aligned_cols=49 Identities=31% Similarity=0.715 Sum_probs=37.5
Q ss_pred cccccccccccc-------------cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFE-------------KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~-------------~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
-+.|+||...+- ..+-......|+|.||.-||.+|+++++ .||+|.+++
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~-vCPLdn~eW 107 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRN-VCPLDNKEW 107 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcC-cCCCcCcce
Confidence 456999887652 1233445568999999999999999777 999998765
No 36
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=3.3e-10 Score=56.70 Aligned_cols=46 Identities=26% Similarity=0.540 Sum_probs=36.4
Q ss_pred cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+++|.||+|...+. ++-.|||. .|.+|-.+.++..+..||+||+++
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 36799999986665 55569997 899998776665566899999875
No 37
>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=98.89 E-value=1.9e-09 Score=58.09 Aligned_cols=47 Identities=28% Similarity=0.378 Sum_probs=36.3
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
++..|+|+.+-|.++ +..++||+|.+++|.+|++++..+||++++++
T Consensus 3 ~~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l 49 (73)
T PF04564_consen 3 DEFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPL 49 (73)
T ss_dssp GGGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred cccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence 456799999999988 66679999999999999997566999998764
No 38
>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=98.86 E-value=2.9e-09 Score=53.07 Aligned_cols=43 Identities=35% Similarity=0.887 Sum_probs=31.1
Q ss_pred cccccccccccCCeeeEecCCC-----CcccHHHHHHHHhcC-CCcCccCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDCN-QFTCPVCR 95 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~~-~~~CP~CR 95 (99)
.|.||++...+++.+ ..| |. |.+|.+|+.+|+..+ +.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l-~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPL-VSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCee-Eec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999943344343 454 74 889999999999753 44799995
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=1.3e-09 Score=71.57 Aligned_cols=47 Identities=36% Similarity=0.759 Sum_probs=39.2
Q ss_pred CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
...+...|+||++.+..+ .+++|||.||..|+..++. ....||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcC----ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 344566899999999998 5557999999999999987 5558999993
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=4.5e-09 Score=70.64 Aligned_cols=47 Identities=28% Similarity=0.616 Sum_probs=37.3
Q ss_pred cccccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
++..+|.||+++.++. .++||.|. .|.+|.+...- +++.||+||+++
T Consensus 288 ~~gkeCVIClse~rdt----~vLPCRHLCLCs~Ca~~Lr~-q~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT----VVLPCRHLCLCSGCAKSLRY-QTNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecCCcce----EEecchhhehhHhHHHHHHH-hhcCCCccccch
Confidence 4456899999997665 55579998 89999998764 334899999976
No 41
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.77 E-value=1.7e-09 Score=80.18 Aligned_cols=52 Identities=31% Similarity=0.747 Sum_probs=38.6
Q ss_pred cccccccccccccccCC---eeeEecCCCCcccHHHHHHHHhc-CCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKED---VVSRLTRCCHLFHADCIERWLDC-NQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~CR~~~ 98 (99)
...++|+||+..+..-+ +-.+.+.|.|.||..|+..|++. ++.+||+||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 34457999999876211 11245579999999999999986 345799999875
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=5.8e-09 Score=70.61 Aligned_cols=51 Identities=31% Similarity=0.772 Sum_probs=39.1
Q ss_pred cccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcCC------CcCccCCCC
Q 037626 47 KVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCNQ------FTCPVCRSF 97 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~~------~~CP~CR~~ 97 (99)
..+..|.||++...... ...++++|.|.||..|++.|....+ ..||.||.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 45678999999875442 2345689999999999999984332 479999974
No 43
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=3.2e-09 Score=76.95 Aligned_cols=45 Identities=29% Similarity=0.806 Sum_probs=39.2
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+.|-...++. +++.|||.||..|++..+..++..||.|.+.|
T Consensus 644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 3699999887766 66789999999999999998888999998865
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=6.6e-09 Score=70.62 Aligned_cols=46 Identities=26% Similarity=0.881 Sum_probs=34.0
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR 95 (99)
..|.||-+-+.....+.....|||+||..|+.+|++... ++||+||
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 469999444444444444446999999999999998632 4799998
No 45
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=6.7e-09 Score=68.51 Aligned_cols=47 Identities=28% Similarity=0.419 Sum_probs=39.0
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
...+|+||+....-+ +.+.|+|.||.-||..-...++.+||+||.+|
T Consensus 6 ~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pi 52 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPI 52 (324)
T ss_pred cCCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCC
Confidence 356799999997766 45579999999999987776676899999986
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.61 E-value=6.7e-09 Score=53.91 Aligned_cols=42 Identities=33% Similarity=0.773 Sum_probs=22.3
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
..|++|.+.++.+ ..+..|+|.||..|+..-+. . .||+|+.+
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~-~CPvC~~P 49 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--S-ECPVCHTP 49 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--T-B-SSS--B
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--C-CCCCcCCh
Confidence 4699999999887 23458999999999987544 2 69999875
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=9.7e-09 Score=69.04 Aligned_cols=48 Identities=35% Similarity=0.736 Sum_probs=39.6
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.+..|+||++-++.. ...+.|.|.||.+||..-++.....||.||+.+
T Consensus 42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 355799999998766 234489999999999998887666999999865
No 48
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=98.36 E-value=3e-07 Score=45.28 Aligned_cols=46 Identities=24% Similarity=0.518 Sum_probs=24.1
Q ss_pred ccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 52 CSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
|++|.++++..+.- ..| +||+..|..|...-++.....||-||+++
T Consensus 1 cp~C~e~~d~~d~~-~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKD-FYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT---SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCc-cccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78999999555432 333 78999999999998875556899999875
No 49
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=4.2e-06 Score=54.92 Aligned_cols=53 Identities=23% Similarity=0.531 Sum_probs=38.4
Q ss_pred CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626 43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF 98 (99)
Q Consensus 43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~ 98 (99)
......+.+|++|.+.-..|-. ..+|||.||.-|+..-.... ..+||.|.++.
T Consensus 233 ss~~t~~~~C~~Cg~~PtiP~~---~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGEPPTIPHV---IGKCGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred cccccCCceeeccCCCCCCCee---eccccceeehhhhhhhhcchhhcccCccCCCC
Confidence 3344556689999998776622 22699999999999865532 35899998764
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=7.7e-07 Score=61.12 Aligned_cols=48 Identities=33% Similarity=0.856 Sum_probs=36.6
Q ss_pred cccccccccccccCCe-eeEecCCCCcccHHHHHHHHhcC-CCcCccCCC
Q 037626 49 EEICSICLMEFEKEDV-VSRLTRCCHLFHADCIERWLDCN-QFTCPVCRS 96 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~ 96 (99)
..+|+||++.+..+.. -...+.|||.|..+|++.|+.+. ...||.|..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 4579999999876543 33445899999999999999632 236999964
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=1e-06 Score=60.98 Aligned_cols=48 Identities=31% Similarity=0.724 Sum_probs=39.5
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFFL 99 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~~ 99 (99)
..+.+|.||+..+.++ +.++|||.||..|+.+-+.++. .||.||..++
T Consensus 82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~-~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQET-ECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCC-CCcccccccc
Confidence 5566899999998888 5558999999999999777444 8999998763
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.23 E-value=9.9e-07 Score=45.26 Aligned_cols=45 Identities=29% Similarity=0.641 Sum_probs=28.5
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-CCCcCcc
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-NQFTCPV 93 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-~~~~CP~ 93 (99)
...+..|||.+..+.+| + +...|||+|-++.|.+|+++ +...||+
T Consensus 8 ~~~~~~CPiT~~~~~~P--V-~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDP--V-KSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSE--E-EESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCC--c-CcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34456799999999877 2 33379999999999999943 3446998
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.21 E-value=8.1e-07 Score=61.53 Aligned_cols=48 Identities=31% Similarity=0.652 Sum_probs=40.4
Q ss_pred CcccccccccccccccCCeeeEe-cCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRL-TRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.+++..|++|...+.++ .. +.|||.||..|+..|+.. +..||.||+.+
T Consensus 18 ~~~~l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQEL 66 (391)
T ss_pred CcccccCccccccccCC----CCCCCCCCcccccccchhhcc-CcCCccccccc
Confidence 56677899999999888 33 379999999999999996 44899998754
No 54
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.19 E-value=3.1e-07 Score=67.42 Aligned_cols=46 Identities=35% Similarity=0.730 Sum_probs=32.9
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.|++|+..+.+....... .|+|.||..|+..|-+..+ +||+||..|
T Consensus 125 ~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF 170 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQ-TCPVDRGEF 170 (1134)
T ss_pred hhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcc-cCchhhhhh
Confidence 355555555443322233 6999999999999998666 999999865
No 55
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=98.09 E-value=4e-06 Score=51.01 Aligned_cols=49 Identities=24% Similarity=0.758 Sum_probs=34.4
Q ss_pred CcccccccccccccccCCeeeEec-CCCC---cccHHHHHHHHhcC-CCcCccCCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLT-RCCH---LFHADCIERWLDCN-QFTCPVCRSFF 98 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H---~fh~~Ci~~w~~~~-~~~CP~CR~~~ 98 (99)
+..+..|-||.++-.+. ..| .|.. ..|.+|+++|+..+ ..+||+|++++
T Consensus 5 s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 45566899999885422 223 3444 46999999999864 34699998864
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=98.03 E-value=1.2e-06 Score=60.12 Aligned_cols=49 Identities=31% Similarity=0.762 Sum_probs=37.2
Q ss_pred cccccccccccccccCC-eeeEecCCCCcccHHHHHHHHhcC-CCcCccCCC
Q 037626 47 KVEEICSICLMEFEKED-VVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~ 96 (99)
+.+..|..|-+.+...+ .+..+ +|.|+||..|+.+.++++ ..+||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqAL-pCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQAL-PCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCccccccc-chhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 34557999999986544 44344 699999999999998753 347999983
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.01 E-value=2.1e-06 Score=59.12 Aligned_cols=44 Identities=34% Similarity=0.899 Sum_probs=33.0
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~CR~~~ 98 (99)
-|-||-|.-++ + +.-+|||..|..|+..|-... ..+||.||..+
T Consensus 371 LCKICaendKd---v-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 371 LCKICAENDKD---V-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHhhccCCC---c-ccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 49999887332 3 444699999999999997543 33899999754
No 58
>PHA02862 5L protein; Provisional
Probab=98.00 E-value=5.3e-06 Score=49.68 Aligned_cols=45 Identities=22% Similarity=0.734 Sum_probs=32.7
Q ss_pred cccccccccccccCCeeeEecCCC-----CcccHHHHHHHHhcCC-CcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDCNQ-FTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~~~-~~CP~CR~~~ 98 (99)
++.|-||.++-+++ .- ||. ...|++|+.+|++.++ ..||+|+.++
T Consensus 2 ~diCWIC~~~~~e~----~~-PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 2 SDICWICNDVCDER----NN-FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CCEEEEecCcCCCC----cc-cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 45799999985433 22 353 4589999999997533 3699999864
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.89 E-value=4.2e-06 Score=52.69 Aligned_cols=41 Identities=32% Similarity=0.724 Sum_probs=34.9
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.|.||-++|..+ +.+.|||.||..|...-.+... .|-+|.+
T Consensus 198 ~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~-~C~~Cgk 238 (259)
T COG5152 198 LCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGD-ECGVCGK 238 (259)
T ss_pred eehhchhhccch----hhhhcchhHHHHHHHHHhccCC-cceecch
Confidence 699999999998 7778999999999888777444 8999865
No 60
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.87 E-value=5.2e-06 Score=55.21 Aligned_cols=50 Identities=32% Similarity=0.714 Sum_probs=39.2
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----------------------CCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----------------------NQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----------------------~~~~CP~CR~~~ 98 (99)
...+|.||+--|.+++...+. .|-|.||..|+.+++.. -+..||+||..+
T Consensus 114 p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 345799999999988877555 59999999999888741 123699999875
No 61
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=1.1e-05 Score=53.77 Aligned_cols=48 Identities=29% Similarity=0.774 Sum_probs=38.9
Q ss_pred ccccccccccccCC--eeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 50 EICSICLMEFEKED--VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
..|-||-++|...+ ...+.+.|||.+|..|+...+......||.||.+
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 46999999998763 3334557999999999999888666679999986
No 62
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=3e-06 Score=56.08 Aligned_cols=41 Identities=27% Similarity=0.764 Sum_probs=32.2
Q ss_pred cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+.-|.||++...+- .+++|||. -|..|-.+. ..||+||+.+
T Consensus 300 ~~LC~ICmDaP~DC----vfLeCGHmVtCt~CGkrm-----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC----VFLECGHMVTCTKCGKRM-----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcce----EEeecCcEEeehhhcccc-----ccCchHHHHH
Confidence 66799999987766 66689995 799996543 3799999854
No 63
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.80 E-value=2.1e-05 Score=38.75 Aligned_cols=42 Identities=33% Similarity=0.871 Sum_probs=26.3
Q ss_pred ccccccccccCCeeeEec-CCC---CcccHHHHHHHHhc-CCCcCccC
Q 037626 52 CSICLMEFEKEDVVSRLT-RCC---HLFHADCIERWLDC-NQFTCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~-~C~---H~fh~~Ci~~w~~~-~~~~CP~C 94 (99)
|-||++.-.+++.+ +.| .|. ...|.+|+.+|+.. ++.+|++|
T Consensus 1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 67999987666533 333 333 36899999999875 34479987
No 64
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.77 E-value=1.4e-05 Score=54.07 Aligned_cols=53 Identities=19% Similarity=0.386 Sum_probs=38.9
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+++++.|+.|+|+++..|+--.--+||-..|.-|+....+.-+..||-||+.+
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 34455699999999877654333379999999998776554345899999753
No 65
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.76 E-value=1.7e-05 Score=62.18 Aligned_cols=55 Identities=29% Similarity=0.755 Sum_probs=40.4
Q ss_pred CCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC---------CCcCccCCCCC
Q 037626 43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN---------QFTCPVCRSFF 98 (99)
Q Consensus 43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~---------~~~CP~CR~~~ 98 (99)
+...+.|+.|.||+.+--..-..+.+ .|+|.||..|.++.++.+ -.+||+|+.++
T Consensus 3480 ~tkQD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3480 ATKQDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred hhhcccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 34455677899999876555555455 699999999998877641 13799998865
No 66
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=3e-05 Score=49.83 Aligned_cols=51 Identities=27% Similarity=0.708 Sum_probs=40.0
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-------CCCcCccCCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-------NQFTCPVCRSFFL 99 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-------~~~~CP~CR~~~~ 99 (99)
+.+..|..|-..+..+|.+ ++. |=|.||.+|+.+|... ...+||-|..+++
T Consensus 48 DY~pNC~LC~t~La~gdt~-RLv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTT-RLV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCCceeCCccccCcce-eeh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3344599999999988887 453 9999999999999753 1237999988775
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=8.4e-06 Score=54.01 Aligned_cols=42 Identities=29% Similarity=0.573 Sum_probs=36.3
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
.|-||...|..+ +.+.|+|.||..|...-++.+. .|++|.+.
T Consensus 243 ~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~ 284 (313)
T KOG1813|consen 243 KCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGE-KCYVCSQQ 284 (313)
T ss_pred cccccccccccc----hhhcCCceeehhhhccccccCC-cceecccc
Confidence 599999999998 7778999999999988777555 89999764
No 68
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.74 E-value=1.3e-05 Score=47.53 Aligned_cols=36 Identities=33% Similarity=0.648 Sum_probs=28.7
Q ss_pred cccccccccccccCCeeeEecCCC------CcccHHHHHHHHh
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCC------HLFHADCIERWLD 85 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~------H~fh~~Ci~~w~~ 85 (99)
..+|.||++.+.+.+.++.++ || |.||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 346999999999855565665 65 8899999999943
No 69
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.74 E-value=3.6e-05 Score=51.42 Aligned_cols=44 Identities=27% Similarity=0.618 Sum_probs=35.8
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
..|+.|..-+.++- +.+.|+|.||.+||..-+......||.|.+
T Consensus 275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence 67999999887773 234799999999999987766778999943
No 70
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.71 E-value=1.8e-05 Score=56.44 Aligned_cols=52 Identities=31% Similarity=0.606 Sum_probs=40.0
Q ss_pred CCCCCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc----CCCcCccCCCC
Q 037626 42 EAEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC----NQFTCPVCRSF 97 (99)
Q Consensus 42 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~----~~~~CP~CR~~ 97 (99)
...+..++.+|.+|.++-++. ....|.|.||+-|+.++... .+.+||.|...
T Consensus 529 ~~~enk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 529 LPDENKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIG 584 (791)
T ss_pred CCccccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence 344555667899999997766 55679999999999888753 44589999653
No 71
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.69 E-value=7.8e-06 Score=54.85 Aligned_cols=46 Identities=26% Similarity=0.649 Sum_probs=37.2
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
...+|.+|-.-+.++.. .+.|-|+||.+||-..++... .||.|...
T Consensus 14 ~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~-~CP~C~i~ 59 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESK-YCPTCDIV 59 (331)
T ss_pred cceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhc-cCCcccee
Confidence 34579999999887733 337999999999999999755 89999753
No 72
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=2.7e-05 Score=52.91 Aligned_cols=46 Identities=26% Similarity=0.560 Sum_probs=31.0
Q ss_pred CCcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 45 DSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 45 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+....+.|.||+++..+. ...+|||.-| |..--.. ..+||+||+.+
T Consensus 301 ~~~~p~lcVVcl~e~~~~----~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI 346 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSA----VFVPCGHVCC--CTLCSKH--LPQCPVCRQRI 346 (355)
T ss_pred ccCCCCceEEecCCccce----eeecCCcEEE--chHHHhh--CCCCchhHHHH
Confidence 334455799999997775 4457999855 4433222 23699999864
No 73
>PHA03096 p28-like protein; Provisional
Probab=97.68 E-value=2.3e-05 Score=52.23 Aligned_cols=47 Identities=30% Similarity=0.551 Sum_probs=34.3
Q ss_pred ccccccccccccC----CeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCC
Q 037626 50 EICSICLMEFEKE----DVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRS 96 (99)
Q Consensus 50 ~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~ 96 (99)
..|.||++..... .....++.|.|.||..|++.|...+ ..+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 6799999987542 2344677999999999999998642 224666654
No 74
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.60 E-value=3.5e-05 Score=57.29 Aligned_cols=48 Identities=31% Similarity=0.867 Sum_probs=38.2
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC------CcCccCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ------FTCPVCRS 96 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~------~~CP~CR~ 96 (99)
..+|.||.+.++....+-....|=|+||..||+.|.+... -.||.|+.
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 4579999999988877665556789999999999986411 25999973
No 75
>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=97.58 E-value=3.3e-05 Score=44.03 Aligned_cols=37 Identities=24% Similarity=0.495 Sum_probs=27.4
Q ss_pred CCCCcccccccccccccccCCeeeEecCCCCcccHHHHH
Q 037626 43 AEDSKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIE 81 (99)
Q Consensus 43 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~ 81 (99)
.....++..|++|...+.++ ..... ||||.||..|++
T Consensus 72 ~v~i~~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~ 108 (109)
T PF10367_consen 72 SVVITESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK 108 (109)
T ss_pred eEEECCCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence 33445566799999999874 33344 699999999975
No 76
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.54 E-value=2.7e-05 Score=53.72 Aligned_cols=46 Identities=24% Similarity=0.569 Sum_probs=33.8
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc-------CCCcCccCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC-------NQFTCPVCR 95 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~-------~~~~CP~CR 95 (99)
-..|.||+++.........+ +|+|+||..|+..+... +...||-+.
T Consensus 184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 34699999997665555455 69999999999999752 233677653
No 77
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=7.3e-05 Score=51.00 Aligned_cols=47 Identities=21% Similarity=0.497 Sum_probs=37.7
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.+++.|+||...-.+. +..+|+|.-|..||.+.+-..+ .|=.|+..+
T Consensus 420 sEd~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv 466 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCK-RCFFCKTTV 466 (489)
T ss_pred cccccCcceecccchh----hccCCCCchHHHHHHHHHhcCC-eeeEeccee
Confidence 5667899998875555 5557999999999999988555 899998764
No 78
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=0.00095 Score=45.13 Aligned_cols=43 Identities=28% Similarity=0.542 Sum_probs=33.3
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
....|++|+....++..+ .--|-+||..|+-+++. +...||+=
T Consensus 299 ~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~-~~~~CPVT 341 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVV-NYGHCPVT 341 (357)
T ss_pred ccccChhHHhccCCCceE---EecceEEeHHHHHHHHH-hcCCCCcc
Confidence 345799999998887433 23589999999999998 44489973
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.42 E-value=0.00018 Score=46.85 Aligned_cols=49 Identities=16% Similarity=0.329 Sum_probs=42.8
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
...|++|.+.+.+......+-+|||+|+.+|.+..++... .||+|-.++
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~pl 269 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPL 269 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcC
Confidence 4569999999999988888889999999999999988555 899997653
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.40 E-value=6.7e-05 Score=48.51 Aligned_cols=43 Identities=28% Similarity=0.617 Sum_probs=30.2
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.|.-|...-. ++.. .++.|+|+||..|...-.. ..||+||+++
T Consensus 5 hCn~C~~~~~-~~~f-~LTaC~HvfC~~C~k~~~~---~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPF-FLTACRHVFCEPCLKASSP---DVCPLCKKSI 47 (233)
T ss_pred EeccccccCC-CCce-eeeechhhhhhhhcccCCc---ccccccccee
Confidence 3676766544 4455 5668999999999775322 2899999864
No 81
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.39 E-value=0.0003 Score=46.44 Aligned_cols=50 Identities=24% Similarity=0.475 Sum_probs=40.2
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.....|||...++........+.+|||+|...++.+.- ....||+|-.++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f 160 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPF 160 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcc
Confidence 44457999999997766777777899999999999973 233799998765
No 82
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.36 E-value=0.00012 Score=48.60 Aligned_cols=45 Identities=27% Similarity=0.634 Sum_probs=38.2
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.||||.+.+..........+|||.-|..|.+.....+ .+||+|..
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 4999999987776665666899999999999998866 79999976
No 83
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=97.34 E-value=0.00012 Score=49.18 Aligned_cols=40 Identities=25% Similarity=0.636 Sum_probs=32.1
Q ss_pred ccccccccccccCCeeeEecCC--CCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRC--CHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C--~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.+||||.+.+..+ +. +| ||.-|.+|-.+. . ..||.||.++
T Consensus 49 leCPvC~~~l~~P----i~-QC~nGHlaCssC~~~~---~-~~CP~Cr~~~ 90 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP----IF-QCDNGHLACSSCRTKV---S-NKCPTCRLPI 90 (299)
T ss_pred ccCchhhccCccc----ce-ecCCCcEehhhhhhhh---c-ccCCcccccc
Confidence 4799999999988 55 47 799999997642 2 3899999865
No 84
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=0.00034 Score=43.56 Aligned_cols=30 Identities=33% Similarity=0.802 Sum_probs=24.1
Q ss_pred cCCCCcccHHHHHHHHhc----CC------CcCccCCCCC
Q 037626 69 TRCCHLFHADCIERWLDC----NQ------FTCPVCRSFF 98 (99)
Q Consensus 69 ~~C~H~fh~~Ci~~w~~~----~~------~~CP~CR~~~ 98 (99)
.+||..||.-|+..|++. ++ ..||.|-.++
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 479999999999999873 22 2699998765
No 85
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.16 E-value=0.00048 Score=47.04 Aligned_cols=48 Identities=25% Similarity=0.431 Sum_probs=33.5
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh-cCCCcCccCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-CNQFTCPVCRSF 97 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-~~~~~CP~CR~~ 97 (99)
++++..|.||-+.+.-. .+.||+|..|..|.-+... -.+..||+||..
T Consensus 58 DEen~~C~ICA~~~TYs----~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTYS----ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceEE----EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34445799998886543 4557999999999765321 133389999975
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.15 E-value=0.00021 Score=36.07 Aligned_cols=41 Identities=27% Similarity=0.540 Sum_probs=27.7
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.|..|...-..+ .+.+|||..+..|...+- -+.||.|.+++
T Consensus 9 ~~~~~~~~~~~~----~~~pCgH~I~~~~f~~~r---YngCPfC~~~~ 49 (55)
T PF14447_consen 9 PCVFCGFVGTKG----TVLPCGHLICDNCFPGER---YNGCPFCGTPF 49 (55)
T ss_pred eEEEcccccccc----ccccccceeeccccChhh---ccCCCCCCCcc
Confidence 455555442222 455799999999988652 24799998765
No 87
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=97.07 E-value=0.00081 Score=33.91 Aligned_cols=35 Identities=26% Similarity=0.577 Sum_probs=30.4
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~ 82 (99)
....|++|-+.+.+.+.+.+.+.||-.+|++|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34569999999998888888999999999999765
No 88
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=97.05 E-value=0.00071 Score=41.31 Aligned_cols=34 Identities=21% Similarity=0.563 Sum_probs=23.3
Q ss_pred ccccccccccccccCCeeeEecCC------------CC-cccHHHHHHHHh
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRC------------CH-LFHADCIERWLD 85 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C------------~H-~fh~~Ci~~w~~ 85 (99)
++..|+||||..-+. +|+-| +- .-|..|+++..+
T Consensus 1 ed~~CpICme~PHNA----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCce----EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 356799999987665 33333 32 357899999864
No 89
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.01 E-value=0.0003 Score=46.07 Aligned_cols=55 Identities=27% Similarity=0.798 Sum_probs=35.9
Q ss_pred CCCcccccccccccccccCCeeeEecCC-----CCcccHHHHHHHHhcCC-------CcCccCCCCC
Q 037626 44 EDSKVEEICSICLMEFEKEDVVSRLTRC-----CHLFHADCIERWLDCNQ-------FTCPVCRSFF 98 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C-----~H~fh~~Ci~~w~~~~~-------~~CP~CR~~~ 98 (99)
++.+.+..|=||+..=++.....-.-|| .|-.|.+|+.+|..+++ .+||.|++.+
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 3445566799999874433211112245 27799999999996532 2699998865
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.95 E-value=0.00061 Score=51.02 Aligned_cols=42 Identities=29% Similarity=0.689 Sum_probs=32.5
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
....|..|-..++-| .+.. .|||.||..|+. + +...||-|+.
T Consensus 839 q~skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~-~~~~CP~C~~ 880 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---D-KEDKCPKCLP 880 (933)
T ss_pred eeeeecccCCccccc--eeee-ecccHHHHHhhc---c-CcccCCccch
Confidence 346799999998877 2233 599999999998 2 5558999985
No 91
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=5.4e-05 Score=52.05 Aligned_cols=53 Identities=26% Similarity=0.631 Sum_probs=40.3
Q ss_pred CCCcccccccccccccccC-CeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 44 EDSKVEEICSICLMEFEKE-DVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
........|+||.+.++.. ++...+ .|||..|.+|++.|+.... .||.||+.+
T Consensus 191 ~~~slv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~-kl~~~~rel 244 (465)
T KOG0827|consen 191 PTSSLVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKR-KLPSCRREL 244 (465)
T ss_pred chHHHHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHH-HhHHHHhhh
Confidence 3334456799999998765 444344 4999999999999998644 899998764
No 92
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.0014 Score=43.60 Aligned_cols=47 Identities=21% Similarity=0.627 Sum_probs=36.2
Q ss_pred cccccccc-cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 51 ICSICLME-FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 51 ~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
.|++|-.+ +.+++.....-+|+|..|.+|.+..+..+...||-|-..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~i 49 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVI 49 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccch
Confidence 48899875 445554333337999999999999998888899999654
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.61 E-value=0.00069 Score=50.14 Aligned_cols=43 Identities=30% Similarity=0.794 Sum_probs=32.6
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCC-cCccCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQF-TCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~-~CP~CR~~ 97 (99)
..|.||.+ .+.. ....|||.||.+|+..-++.... .||.||..
T Consensus 455 ~~c~ic~~-~~~~----~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~ 498 (674)
T KOG1001|consen 455 HWCHICCD-LDSF----FITRCGHDFCVECLKKSIQQSENAPCPLCRNV 498 (674)
T ss_pred cccccccc-cccc----eeecccchHHHHHHHhccccccCCCCcHHHHH
Confidence 68999999 3322 34469999999999998775433 59999864
No 94
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.59 E-value=0.014 Score=40.58 Aligned_cols=45 Identities=27% Similarity=0.583 Sum_probs=36.8
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCC--CcCccCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQ--FTCPVCRS 96 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~--~~CP~CR~ 96 (99)
.|||=.+.-.+.++...+. |||+...+-+.+..+.+. ..||.|-.
T Consensus 336 ~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 336 ICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 6999888877767665664 999999999999988655 67999954
No 95
>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=96.50 E-value=0.0099 Score=41.03 Aligned_cols=27 Identities=26% Similarity=0.944 Sum_probs=20.6
Q ss_pred CCcccHHHHHHHHhc------------CCCcCccCCCCC
Q 037626 72 CHLFHADCIERWLDC------------NQFTCPVCRSFF 98 (99)
Q Consensus 72 ~H~fh~~Ci~~w~~~------------~~~~CP~CR~~~ 98 (99)
.-.+|.+|+.+|+-. ++.+||+||+.+
T Consensus 312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 356789999999853 234799999975
No 96
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.48 E-value=0.0019 Score=31.09 Aligned_cols=42 Identities=24% Similarity=0.624 Sum_probs=21.7
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCC-cCccC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQF-TCPVC 94 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~-~CP~C 94 (99)
|.+|.+....+..-. ...|+=.+|..|++.+++.++. .||.|
T Consensus 1 C~~C~~iv~~G~~C~-~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCS-NRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-S-S--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCC-CCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 566777665552221 1158889999999999885443 59987
No 97
>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=96.37 E-value=0.0014 Score=42.74 Aligned_cols=47 Identities=21% Similarity=0.596 Sum_probs=36.1
Q ss_pred cccccccccccc-ccCCe-eeEecCCCCcccHHHHHHHHhcCCCcCc--cC
Q 037626 48 VEEICSICLMEF-EKEDV-VSRLTRCCHLFHADCIERWLDCNQFTCP--VC 94 (99)
Q Consensus 48 ~~~~C~IC~~~~-~~~~~-~~~l~~C~H~fh~~Ci~~w~~~~~~~CP--~C 94 (99)
.+..||||..+. -+|+. +.+-|.|=|..|.+|.++-+..+...|| -|
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC 59 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGC 59 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccH
Confidence 345799999864 44543 3344569999999999999988888999 56
No 98
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.001 Score=40.86 Aligned_cols=29 Identities=34% Similarity=0.802 Sum_probs=24.9
Q ss_pred ccccccccccccccCCeeeEecCCCCcccH
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHA 77 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~ 77 (99)
...+|.||+|++..++.+.++| |--+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 3458999999999999998886 9888885
No 99
>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=96.37 E-value=0.001 Score=32.56 Aligned_cols=29 Identities=24% Similarity=0.754 Sum_probs=20.6
Q ss_pred CCC-CcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626 70 RCC-HLFHADCIERWLDCNQFTCPVCRSFFL 99 (99)
Q Consensus 70 ~C~-H~fh~~Ci~~w~~~~~~~CP~CR~~~~ 99 (99)
.|+ |..|..|+...+..+. .||+|..+++
T Consensus 17 ~C~dHYLCl~CLt~ml~~s~-~C~iC~~~LP 46 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRSD-RCPICGKPLP 46 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSSS-EETTTTEE--
T ss_pred eecchhHHHHHHHHHhcccc-CCCcccCcCc
Confidence 586 8999999999988555 8999988763
No 100
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.002 Score=44.90 Aligned_cols=37 Identities=35% Similarity=0.831 Sum_probs=27.6
Q ss_pred cccccccc-cccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626 49 EEICSICL-MEFEKEDVVSRLTRCCHLFHADCIERWLDC 86 (99)
Q Consensus 49 ~~~C~IC~-~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~ 86 (99)
..+|.||. +.....+... ...|+|.||.+|..+.++.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence 45799999 4444444444 4479999999999998873
No 101
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.0024 Score=40.90 Aligned_cols=37 Identities=38% Similarity=0.729 Sum_probs=26.3
Q ss_pred ccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
|-.|.+. .....+.||.|. +|..|-.. + ..||+|+.+
T Consensus 161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~-~----~~CPiC~~~ 198 (207)
T KOG1100|consen 161 CRKCGER----EATVLLLPCRHLCLCGICDES-L----RICPICRSP 198 (207)
T ss_pred ceecCcC----CceEEeecccceEeccccccc-C----ccCCCCcCh
Confidence 8888776 222355579996 89999765 2 279999875
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.95 E-value=0.055 Score=32.31 Aligned_cols=51 Identities=22% Similarity=0.386 Sum_probs=36.0
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~~ 98 (99)
.-.+|.||.|.-.+..-+.----||-..|..|-...++. -...||.|+.++
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 556899999986554333222258999999998876653 235799999865
No 103
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.82 E-value=0.0049 Score=46.57 Aligned_cols=37 Identities=24% Similarity=0.522 Sum_probs=27.5
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
.+.++.|.+|..++..... .+. +|||.||.+|+.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~pF-~vf-~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPF-YVF-PCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcCcc-eee-eccchHHHHHHHHHH
Confidence 3556789999998865422 233 699999999997754
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.0033 Score=46.14 Aligned_cols=42 Identities=24% Similarity=0.624 Sum_probs=32.3
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
..|.||+..|......-+.+.|||+.|..|++.-.. .+|| |+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp-~~ 53 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP-TK 53 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC-CC
Confidence 469999998877655545668999999999998654 2788 43
No 105
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=95.47 E-value=0.03 Score=30.29 Aligned_cols=51 Identities=22% Similarity=0.472 Sum_probs=22.8
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|-||-+++. +++..+..-.|+--.|+.|.+-=.+..+..||.|++++
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 4457999999874 34444444467778899999876665555899998764
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.23 E-value=0.012 Score=39.58 Aligned_cols=28 Identities=29% Similarity=0.740 Sum_probs=21.5
Q ss_pred CCCcccHHHHHHHHhc------------CCCcCccCCCCC
Q 037626 71 CCHLFHADCIERWLDC------------NQFTCPVCRSFF 98 (99)
Q Consensus 71 C~H~fh~~Ci~~w~~~------------~~~~CP~CR~~~ 98 (99)
|...+|.+|+.+|+.. ++.+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 4567899999999742 345899999865
No 107
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.06 E-value=0.017 Score=43.41 Aligned_cols=25 Identities=28% Similarity=0.848 Sum_probs=21.3
Q ss_pred ecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626 68 LTRCCHLFHADCIERWLDCNQFTCPV 93 (99)
Q Consensus 68 l~~C~H~fh~~Ci~~w~~~~~~~CP~ 93 (99)
...|+|.-|.+|...|++.+. .||.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd-~Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGD-VCPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhcCC-cCCC
Confidence 346999999999999999666 8885
No 108
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.99 E-value=0.0085 Score=47.02 Aligned_cols=42 Identities=33% Similarity=0.778 Sum_probs=34.3
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.|.||++.+.+-.. +. .|||.+|..|...|+..+. .||.|+.
T Consensus 1155 ~c~ic~dil~~~~~--I~-~cgh~~c~~c~~~~l~~~s-~~~~~ks 1196 (1394)
T KOG0298|consen 1155 VCEICLDILRNQGG--IA-GCGHEPCCRCDELWLYASS-RCPICKS 1196 (1394)
T ss_pred chHHHHHHHHhcCC--ee-eechhHhhhHHHHHHHHhc-cCcchhh
Confidence 69999999885433 22 5999999999999999555 8999964
No 109
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.92 E-value=0.021 Score=38.22 Aligned_cols=49 Identities=33% Similarity=0.847 Sum_probs=32.9
Q ss_pred cccccccccccccCCeeeEecCCC-----CcccHHHHHHHHhc-CCCcCccCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCC-----HLFHADCIERWLDC-NQFTCPVCRSF 97 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~w~~~-~~~~CP~CR~~ 97 (99)
+..|-||.++...........+|. +..|..|++.|... +...|.+|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 357999999866443211222453 56799999999874 34479999764
No 110
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.88 E-value=0.03 Score=42.46 Aligned_cols=51 Identities=24% Similarity=0.748 Sum_probs=35.3
Q ss_pred cccccccccccccccCCeeeEec-CCC---CcccHHHHHHHHhcC-CCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLT-RCC---HLFHADCIERWLDCN-QFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~-~C~---H~fh~~Ci~~w~~~~-~~~CP~CR~~~ 98 (99)
+++..|-||..+-..++++ --| +|. ...|++|+-+|+..+ ...|-+|+.++
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 4446899999986666554 222 343 347999999999853 33599998753
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=94.37 E-value=0.089 Score=26.05 Aligned_cols=44 Identities=27% Similarity=0.597 Sum_probs=18.6
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHH----hcCCCcCccCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL----DCNQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~----~~~~~~CP~CR~~ 97 (99)
..|+|-...+..+ + +-..|.|.-|.+ ++.|+ +.+.-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~-Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--V-RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--E-EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--c-cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3588888887765 2 333799984422 33343 3344579999874
No 112
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=94.28 E-value=0.024 Score=40.18 Aligned_cols=35 Identities=20% Similarity=0.427 Sum_probs=29.1
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
+++..|+||..-|.++ +.++|+|..|..|.+.-+.
T Consensus 2 eeelkc~vc~~f~~ep----iil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP----IILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCc----eEeecccHHHHHHHHhhcc
Confidence 3566799999999888 5556999999999987665
No 113
>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 KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.04 E-value=0.029 Score=38.06 Aligned_cols=43 Identities=26% Similarity=0.730 Sum_probs=27.9
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|--|--++..- .++.+|.|+||.+|.+. ...+ .||.|-..+
T Consensus 91 HfCd~Cd~PI~IY---GRmIPCkHvFCl~CAr~--~~dK-~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAIY---GRMIPCKHVFCLECARS--DSDK-ICPLCDDRV 133 (389)
T ss_pred EeecccCCcceee---ecccccchhhhhhhhhc--Cccc-cCcCcccHH
Confidence 3576665554322 24447999999999875 2223 799996543
No 115
>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=93.51 E-value=0.082 Score=26.38 Aligned_cols=43 Identities=26% Similarity=0.514 Sum_probs=20.9
Q ss_pred ccccccccccCC------eeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 52 CSICLMEFEKED------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 52 C~IC~~~~~~~~------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
|--|+.++..+. ..-..+.|++.||.+|=.- +...--+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f-iHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVF-IHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHT-TTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChh-hhccccCCcCCC
Confidence 445666665541 3345678999999999432 222223799884
No 116
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.94 E-value=0.19 Score=33.30 Aligned_cols=46 Identities=20% Similarity=0.424 Sum_probs=36.6
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+|=.-+|........+.+|||+|-..-+.+.- ..+|++|.+.+
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y 157 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAY 157 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcc
Confidence 36999888888777776777899999998888753 34899998754
No 117
>PLN02189 cellulose synthase
Probab=92.93 E-value=0.15 Score=39.76 Aligned_cols=51 Identities=22% Similarity=0.457 Sum_probs=36.8
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|.||-+++. +++..+....|+--.|..|.+-=.+.++..||.|++.+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 3457999999975 34455555578888999999654444555899998764
No 118
>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=92.78 E-value=0.058 Score=28.23 Aligned_cols=38 Identities=16% Similarity=0.330 Sum_probs=20.2
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
.+...|.+|..+|..-..-.....||+.||.+|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34567999999997654444555799999999986543
No 119
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=92.65 E-value=0.087 Score=40.00 Aligned_cols=50 Identities=10% Similarity=0.157 Sum_probs=33.5
Q ss_pred cccccccccccccccCCe-eeEe--cCCCCcccHHHHHHHHhc-----CCCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDV-VSRL--TRCCHLFHADCIERWLDC-----NQFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~-~~~l--~~C~H~fh~~Ci~~w~~~-----~~~~CP~CR~ 96 (99)
.....|.+|.-++.+++. ...+ -.|+|.||..||..|..+ ..-.|++|..
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 334568888887776332 2222 259999999999999874 2225788864
No 120
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.55 E-value=0.03 Score=41.60 Aligned_cols=45 Identities=27% Similarity=0.671 Sum_probs=35.0
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhc--CCCcCccCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC--NQFTCPVCRSF 97 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~--~~~~CP~CR~~ 97 (99)
..+|+||...+..+ .++.|.|.|+..|+..-+.. ....||+|+..
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 45699999999888 66689999999998775442 23379999854
No 121
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.55 E-value=0.077 Score=37.72 Aligned_cols=38 Identities=24% Similarity=0.526 Sum_probs=29.6
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC 86 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~ 86 (99)
...+.+|.||.+.+.. .. ..+.|||.||..|+...+.+
T Consensus 67 ~~~~~~c~ic~~~~~~--~~-~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EI-IGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hh-hhcCCCcHHHHHHHHHHhhh
Confidence 3445689999999875 22 34479999999999999874
No 122
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=92.12 E-value=0.077 Score=22.69 Aligned_cols=23 Identities=22% Similarity=0.379 Sum_probs=13.2
Q ss_pred cccccccccccCCeeeEecCCCCcc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLF 75 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~f 75 (99)
.||-|...+... ....+.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 467776665332 22455677776
No 123
>PLN02436 cellulose synthase A
Probab=92.01 E-value=0.31 Score=38.28 Aligned_cols=51 Identities=22% Similarity=0.458 Sum_probs=36.8
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|.||-+++. +++..+..-.|+--.|..|.+-=.+.++..||.|++.+
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 3457999999973 45555555568888999999654444555899998764
No 124
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=91.48 E-value=0.1 Score=33.37 Aligned_cols=39 Identities=36% Similarity=0.917 Sum_probs=27.4
Q ss_pred ccccccccc-----cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 50 EICSICLME-----FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
..|-+|.++ |+. +.+.....|+-.||..|..+ ..||-|.
T Consensus 153 fiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~------~~CpkC~ 196 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK------KSCPKCA 196 (202)
T ss_pred CCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC------CCCCCcH
Confidence 357777753 122 34557778999999999873 2799994
No 125
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=91.42 E-value=0.0087 Score=31.79 Aligned_cols=39 Identities=23% Similarity=0.549 Sum_probs=19.0
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..||.|..++.... +|..|..|-..... ...||-|.+++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~--~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKDYKK--EAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--EEEE--EEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECcccccccee--cccCCCcccHH
Confidence 46888888865542 56666666655332 23688887653
No 126
>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=91.24 E-value=0.35 Score=24.52 Aligned_cols=44 Identities=27% Similarity=0.627 Sum_probs=30.0
Q ss_pred cccccccccccCCeeeEecCCC--CcccHHHHHHHHhcCCCcCccCCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCC--HLFHADCIERWLDCNQFTCPVCRSFFL 99 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~~~~ 99 (99)
.|-.|-.++..+...... |+ .+||.+|.+..+. ..||.|...++
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l~---~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETMLN---GVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHhc---CcCcCCCCccc
Confidence 477777777655422222 65 4799999999874 37999976553
No 127
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=90.43 E-value=0.16 Score=23.45 Aligned_cols=26 Identities=31% Similarity=0.685 Sum_probs=15.8
Q ss_pred cccccccccccCCe-------eeEecCCCCccc
Q 037626 51 ICSICLMEFEKEDV-------VSRLTRCCHLFH 76 (99)
Q Consensus 51 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh 76 (99)
.||-|...|..++. ..+.+.|+|.|.
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 57777777765432 234556777764
No 128
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=90.32 E-value=0.079 Score=38.86 Aligned_cols=40 Identities=35% Similarity=0.876 Sum_probs=26.8
Q ss_pred ccccccccc-----cccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 50 EICSICLME-----FEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 50 ~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
..|.+|..+ |. .+.++....|++.||..|+.+ ++..||.|
T Consensus 512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r----~s~~CPrC 556 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR----KSPCCPRC 556 (580)
T ss_pred eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc----cCCCCCch
Confidence 357777432 11 234456667999999999876 44359999
No 129
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=90.03 E-value=0.24 Score=33.90 Aligned_cols=47 Identities=26% Similarity=0.514 Sum_probs=35.0
Q ss_pred ccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..|+||.++....+.. .+| +||+..|..|...-.. +..+||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d~~-~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSN-FLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCcccccccc-cccccccccchhhhhhcccc-cCCCCCccCCcc
Confidence 5799999988655544 333 6898888888877666 556899999764
No 130
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.03 E-value=0.16 Score=38.41 Aligned_cols=43 Identities=28% Similarity=0.417 Sum_probs=29.8
Q ss_pred CCCcccccccccccccccCC----eeeEecCCCCcccHHHHHHHHhcC
Q 037626 44 EDSKVEEICSICLMEFEKED----VVSRLTRCCHLFHADCIERWLDCN 87 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~w~~~~ 87 (99)
.....+..|.-|.++..+.. .+.+. .|||.||..|+..-..++
T Consensus 779 v~v~~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 779 VLVSVEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRN 825 (846)
T ss_pred eeEeehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhc
Confidence 33444557999999876433 33344 699999999998766533
No 131
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.95 E-value=0.16 Score=35.57 Aligned_cols=43 Identities=23% Similarity=0.398 Sum_probs=29.5
Q ss_pred cccccccccccccCC--eeeEecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626 49 EEICSICLMEFEKED--VVSRLTRCCHLFHADCIERWLDCNQFTCPV 93 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~ 93 (99)
-..|+.|.-.+.-.+ ...+.. |||.||..|...|...+. .|..
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~-~~~~ 350 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNG-ECYE 350 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCc-cccC
Confidence 346999988765433 223444 999999999999987444 4533
No 132
>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 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=89.83 E-value=0.14 Score=25.05 Aligned_cols=44 Identities=20% Similarity=0.615 Sum_probs=28.6
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHh-----cCCCcCccCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD-----CNQFTCPVCR 95 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~-----~~~~~CP~CR 95 (99)
.|.||...- +++....--.|+..||..|+..-.. ...-.||.|+
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 388998843 3334445557899999999865432 1244688875
No 134
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.80 E-value=0.043 Score=36.74 Aligned_cols=49 Identities=22% Similarity=0.562 Sum_probs=36.5
Q ss_pred ccccccccccccccC--CeeeEecC--------CCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 48 VEEICSICLMEFEKE--DVVSRLTR--------CCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~--~~~~~l~~--------C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.+..|.||...++.. ..+..+.. |||..|..|+..-+.+....||.||.
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 446799999999832 22223334 99999999999987755468999986
No 135
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=89.71 E-value=0.78 Score=36.18 Aligned_cols=51 Identities=18% Similarity=0.406 Sum_probs=35.7
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|-||-+++. +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 3457999999974 34455555578888999999543333444899998754
No 136
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.58 E-value=0.49 Score=27.53 Aligned_cols=47 Identities=23% Similarity=0.390 Sum_probs=32.5
Q ss_pred cccccccccccccCC----------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 49 EEICSICLMEFEKED----------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
+..|--|+.+|.... ..-..+.|++.||.+|-.-+-+.=+ +||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh-~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLH-CCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhcc-CCcCCCC
Confidence 346999999886431 1123568999999999666655333 7999964
No 137
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=89.47 E-value=0.23 Score=31.98 Aligned_cols=44 Identities=25% Similarity=0.584 Sum_probs=33.7
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
.-..|.+|.+-.-.+ +....||-.+|..|+...+++ ...||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~-~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQR-RDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcc-cCcCCchh
Confidence 345799999876554 244468888999999999985 55899993
No 138
>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=89.44 E-value=0.65 Score=26.66 Aligned_cols=49 Identities=18% Similarity=0.474 Sum_probs=28.5
Q ss_pred ccccccccccccccCCee----eEecCC---CCcccHHHHHHHHhc--------CCCcCccCCC
Q 037626 48 VEEICSICLMEFEKEDVV----SRLTRC---CHLFHADCIERWLDC--------NQFTCPVCRS 96 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~----~~l~~C---~H~fh~~Ci~~w~~~--------~~~~CP~CR~ 96 (99)
....|.-|...-.+.... .....| .=.||..||..+... ..-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 344577776643322110 012356 567999999888653 2236999985
No 139
>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=89.25 E-value=0.49 Score=21.18 Aligned_cols=36 Identities=25% Similarity=0.665 Sum_probs=22.8
Q ss_pred ccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
|..|.+.+.+.+.... .=+..||.+| ..|..|+.++
T Consensus 2 C~~C~~~i~~~~~~~~--~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLR--ALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEE--eCCccccccC---------CCCcccCCcC
Confidence 7788888776533222 2367788887 3577776654
No 140
>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=89.05 E-value=0.31 Score=24.34 Aligned_cols=36 Identities=17% Similarity=0.367 Sum_probs=26.2
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
..|.+|...|..-..-.....||+.||.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 458899888876443334457999999999877643
No 141
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=88.97 E-value=0.87 Score=35.81 Aligned_cols=51 Identities=18% Similarity=0.340 Sum_probs=36.3
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|-||-++.. +++..+..-.|+--.|+.|.+-=.+.++..||.|++++
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y 67 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRY 67 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 4457999999974 34455555578888999999544444554899998764
No 142
>PLN02195 cellulose synthase A
Probab=88.78 E-value=0.8 Score=35.76 Aligned_cols=51 Identities=18% Similarity=0.376 Sum_probs=36.1
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|.||-++.. +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Y 58 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPY 58 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcc
Confidence 3457999999875 34455555578888999999543343444799998764
No 143
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.71 E-value=0.22 Score=36.37 Aligned_cols=43 Identities=35% Similarity=1.070 Sum_probs=32.2
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
.+..+.|.||+++. .. +..+|. |..|++.|+..+. .||.|+..
T Consensus 476 ~~~~~~~~~~~~~~-~~----~~~~~~---~~~~l~~~~~~~~-~~pl~~~~ 518 (543)
T KOG0802|consen 476 REPNDVCAICYQEM-SA----RITPCS---HALCLRKWLYVQE-VCPLCHTY 518 (543)
T ss_pred hcccCcchHHHHHH-Hh----cccccc---chhHHHhhhhhcc-ccCCCchh
Confidence 34456799999998 22 333577 9999999998555 89999764
No 144
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.59 E-value=0.22 Score=33.55 Aligned_cols=33 Identities=24% Similarity=0.582 Sum_probs=27.1
Q ss_pred ccccccccccccCCeeeEecCC----CCcccHHHHHHHHhc
Q 037626 50 EICSICLMEFEKEDVVSRLTRC----CHLFHADCIERWLDC 86 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C----~H~fh~~Ci~~w~~~ 86 (99)
..|.+|.|.+++...+ +| +|.||..|-++-+++
T Consensus 269 LcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred eeehhhhhhhccCcee----ecCCCcccceecccCHHHHHh
Confidence 4699999999887444 45 699999999998874
No 145
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=87.96 E-value=0.77 Score=34.88 Aligned_cols=40 Identities=18% Similarity=0.380 Sum_probs=28.6
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCcc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPV 93 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~ 93 (99)
.|.+|-..+..- ......|||.-|.+++.+|+...+ .||.
T Consensus 781 ~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s-~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKAS-PCAK 820 (839)
T ss_pred Cceeecceeeee--EeecccccccccHHHHHHHHhcCC-CCcc
Confidence 577887665422 224457999999999999998544 6765
No 146
>PLN02400 cellulose synthase
Probab=87.61 E-value=0.76 Score=36.24 Aligned_cols=51 Identities=24% Similarity=0.477 Sum_probs=35.6
Q ss_pred ccccccccccccc---cCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 48 VEEICSICLMEFE---KEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 48 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
....|-||-+++. +++..+..-.|+--.|+.|.+-=.+.++..||.|++.+
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence 3457999999974 44555555578888999998543333444799998764
No 147
>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=87.54 E-value=0.41 Score=25.10 Aligned_cols=11 Identities=27% Similarity=1.162 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 037626 75 FHADCIERWLD 85 (99)
Q Consensus 75 fh~~Ci~~w~~ 85 (99)
||+.|+..|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999985
No 148
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=87.54 E-value=0.56 Score=31.30 Aligned_cols=48 Identities=27% Similarity=0.471 Sum_probs=33.8
Q ss_pred ccccccccccccCCeeeE---ecCCCCcccHHHHHHHHhc--------CCCcCccCCCC
Q 037626 50 EICSICLMEFEKEDVVSR---LTRCCHLFHADCIERWLDC--------NQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~---l~~C~H~fh~~Ci~~w~~~--------~~~~CP~CR~~ 97 (99)
..|.+|.+++...+..+. -+.|+-.+|..|+..-+.. -...||.|++.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 579999999965544332 2368889999999984432 12379999874
No 149
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=87.11 E-value=0.46 Score=21.79 Aligned_cols=26 Identities=31% Similarity=0.768 Sum_probs=15.6
Q ss_pred cccccccccccCCe-------eeEecCCCCccc
Q 037626 51 ICSICLMEFEKEDV-------VSRLTRCCHLFH 76 (99)
Q Consensus 51 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh 76 (99)
+|+=|...|..++. ..+.+.|||.|+
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 57777777765432 124456777763
No 150
>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=86.03 E-value=0.37 Score=28.08 Aligned_cols=35 Identities=20% Similarity=0.144 Sum_probs=23.4
Q ss_pred ccccccccccccccCC-eeeEecCCCCcccHHHHHH
Q 037626 48 VEEICSICLMEFEKED-VVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~ 82 (99)
.+..|.+|..+|..-. .-.....|+|.+|..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 5568999999874322 2246678999999999654
No 151
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.55 E-value=0.95 Score=24.23 Aligned_cols=24 Identities=38% Similarity=0.612 Sum_probs=19.4
Q ss_pred CCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 72 CHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 72 ~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.|+||.+|...-+. ..||.|-..+
T Consensus 28 EcTFCadCae~~l~---g~CPnCGGel 51 (84)
T COG3813 28 ECTFCADCAENRLH---GLCPNCGGEL 51 (84)
T ss_pred eeehhHhHHHHhhc---CcCCCCCchh
Confidence 58999999998776 4799996554
No 152
>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=85.30 E-value=0.26 Score=34.57 Aligned_cols=28 Identities=29% Similarity=0.667 Sum_probs=0.0
Q ss_pred EecCCCCcccHHHHHHHHhc-----CCCcCccCCCC
Q 037626 67 RLTRCCHLFHADCIERWLDC-----NQFTCPVCRSF 97 (99)
Q Consensus 67 ~l~~C~H~fh~~Ci~~w~~~-----~~~~CP~CR~~ 97 (99)
+-+.|||++.. ..|... +..+||+||+.
T Consensus 305 VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 305 VYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ------------------------------------
T ss_pred eeccccceeee---cccccccccccccccCCCcccc
Confidence 34479998763 345321 23479999863
No 153
>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=84.51 E-value=0.28 Score=32.94 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=20.2
Q ss_pred cccccccccccccccCCeeeEec-CCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLT-RCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.....||||-..-.-......-. .=.|.+|.-|-.+|--.+ ..||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT--
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCC
Confidence 44468999988754321100000 113568888999996633 48999954
No 154
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=83.75 E-value=1.6 Score=30.12 Aligned_cols=47 Identities=23% Similarity=0.464 Sum_probs=31.7
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
+..|-.|.++....... +...|.|.||.+|-.--=+ .-..||-|...
T Consensus 330 ~~~Cf~C~~~~~~~~~y-~C~~Ck~~FCldCDv~iHe-sLh~CpgCeh~ 376 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRY-RCESCKNVFCLDCDVFIHE-SLHNCPGCEHK 376 (378)
T ss_pred CcceeeeccccCCCCcE-EchhccceeeccchHHHHh-hhhcCCCcCCC
Confidence 34599997776655444 4557999999999543322 22279999653
No 155
>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=83.54 E-value=0.59 Score=28.69 Aligned_cols=41 Identities=22% Similarity=0.447 Sum_probs=24.7
Q ss_pred ccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 54 ICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 54 IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
||++--...+....-+.=.+.||..|-.+-.. .||.|..++
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~----~Cp~C~~~I 49 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTIT----SCPNCSTPI 49 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHHH----HCcCCCCCC
Confidence 45544333332223333346699999888766 799998765
No 156
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=82.99 E-value=1.3 Score=30.51 Aligned_cols=46 Identities=20% Similarity=0.458 Sum_probs=32.7
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC--CCcCccCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN--QFTCPVCRS 96 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~--~~~CP~CR~ 96 (99)
-.||+=-+.-.+.+.. ..+.|||+.-.+-+++..+.+ ++.||.|-.
T Consensus 337 FiCPVlKe~~t~ENpP-~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPP-VMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCC-eeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 3698866665544444 455799999999999877643 346999953
No 157
>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=82.62 E-value=1.4 Score=19.10 Aligned_cols=29 Identities=21% Similarity=0.495 Sum_probs=10.8
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHH
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCI 80 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci 80 (99)
.|.+|.++... +..-....|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47888888766 334455678888999885
No 158
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=82.50 E-value=1.7 Score=29.98 Aligned_cols=55 Identities=16% Similarity=0.456 Sum_probs=34.3
Q ss_pred CCCcccccccccccccc---------------cCCeeeEecCCCCcccHHHHHHHHhc--------CCCcCccCCCCC
Q 037626 44 EDSKVEEICSICLMEFE---------------KEDVVSRLTRCCHLFHADCIERWLDC--------NQFTCPVCRSFF 98 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~---------------~~~~~~~l~~C~H~fh~~Ci~~w~~~--------~~~~CP~CR~~~ 98 (99)
+....+.+||+|+..-. .+-......+|||.--+.-..-|.+. =+..||.|-+.+
T Consensus 336 ~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 336 NTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred ccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 33445668999987521 11111123379999888888888763 123699996643
No 159
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.32 E-value=1.6 Score=29.05 Aligned_cols=36 Identities=22% Similarity=0.269 Sum_probs=29.4
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
..+-+.|+.|+.+..+| +..+=||.|+++||.+++.
T Consensus 40 iK~FdcCsLtLqPc~dP----vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP----VITPDGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccCC----ccCCCCeeeeHHHHHHHHH
Confidence 34446799999999988 6666899999999988764
No 160
>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=82.02 E-value=1.5 Score=21.63 Aligned_cols=9 Identities=22% Similarity=0.881 Sum_probs=4.3
Q ss_pred CCCcccHHH
Q 037626 71 CCHLFHADC 79 (99)
Q Consensus 71 C~H~fh~~C 79 (99)
-|..||.+|
T Consensus 18 ~~~~~H~~C 26 (58)
T PF00412_consen 18 MGKFWHPEC 26 (58)
T ss_dssp TTEEEETTT
T ss_pred CCcEEEccc
Confidence 344455544
No 161
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=81.33 E-value=0.33 Score=24.60 Aligned_cols=20 Identities=20% Similarity=0.453 Sum_probs=15.5
Q ss_pred eeeEecCCCCcccHHHHHHH
Q 037626 64 VVSRLTRCCHLFHADCIERW 83 (99)
Q Consensus 64 ~~~~l~~C~H~fh~~Ci~~w 83 (99)
.....+.|||.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 33455579999999998887
No 162
>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=77.82 E-value=0.68 Score=23.07 Aligned_cols=9 Identities=33% Similarity=1.069 Sum_probs=4.5
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||+|.+++
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 789987764
No 163
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=75.84 E-value=7.6 Score=27.56 Aligned_cols=25 Identities=20% Similarity=0.363 Sum_probs=14.8
Q ss_pred cccccccccccCCeeeEecCCCCccc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFH 76 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh 76 (99)
.|+-|-.....++. ...+.|||.-+
T Consensus 217 ~C~~Cd~~~~~~~~-a~CpRC~~~L~ 241 (403)
T TIGR00155 217 SCSACHTTILPAQE-PVCPRCSTPLY 241 (403)
T ss_pred cCCCCCCccCCCCC-cCCcCCCCccc
Confidence 48888775544333 35667777643
No 164
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=75.74 E-value=3.4 Score=21.39 Aligned_cols=35 Identities=17% Similarity=0.242 Sum_probs=24.9
Q ss_pred cccccccccccccc--CCeeeEecCCCCcccHHHHHH
Q 037626 48 VEEICSICLMEFEK--EDVVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 48 ~~~~C~IC~~~~~~--~~~~~~l~~C~H~fh~~Ci~~ 82 (99)
....|+.|-..... .+..-..+.||+.++.+--..
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 45679999998776 444455667999888775443
No 165
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=75.06 E-value=1.8 Score=24.24 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=10.7
Q ss_pred ccHHHHHHHHhc
Q 037626 75 FHADCIERWLDC 86 (99)
Q Consensus 75 fh~~Ci~~w~~~ 86 (99)
||+.|+..|...
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999863
No 166
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=73.86 E-value=3 Score=20.75 Aligned_cols=25 Identities=28% Similarity=0.618 Sum_probs=14.4
Q ss_pred ecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 68 LTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 68 l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
.+.|||.|-..=-.+- . +...||.|
T Consensus 31 C~~Cgh~w~~~v~~R~-~-~~~~CP~C 55 (55)
T PF14311_consen 31 CPKCGHEWKASVNDRT-R-RGKGCPYC 55 (55)
T ss_pred CCCCCCeeEccHhhhc-c-CCCCCCCC
Confidence 3467887755433322 2 33479988
No 167
>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=73.38 E-value=14 Score=20.63 Aligned_cols=36 Identities=19% Similarity=0.319 Sum_probs=25.0
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
...|+-|...+.--|.+ | +-.|+-.+ .+|..|++++
T Consensus 33 rS~C~~C~~~L~~~~lI---P----------i~S~l~lr-GrCr~C~~~I 68 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLI---P----------ILSYLLLR-GRCRYCGAPI 68 (92)
T ss_pred CCcCcCCCCcCcccccc---h----------HHHHHHhC-CCCcccCCCC
Confidence 35688888887655322 2 77887744 4899999876
No 168
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.13 E-value=3.4 Score=31.19 Aligned_cols=44 Identities=32% Similarity=0.550 Sum_probs=31.6
Q ss_pred cccccccccccCCeeeEecCCCC-cccHHHHHHHHhc-C----CCcCccCCCCC
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCH-LFHADCIERWLDC-N----QFTCPVCRSFF 98 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~w~~~-~----~~~CP~CR~~~ 98 (99)
.|+||-...+-. ....||| ..+.+|..+.... + ...||.||..+
T Consensus 2 ~c~ic~~s~~~~----~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~ 51 (669)
T KOG2231|consen 2 SCAICAFSPDFV----GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREV 51 (669)
T ss_pred CcceeecCcccc----ccccccccccchhhhhhhhhhcccccccccCcccccce
Confidence 489998876544 5558999 7999998876432 2 33579998754
No 169
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.79 E-value=1.3 Score=30.19 Aligned_cols=45 Identities=27% Similarity=0.619 Sum_probs=34.4
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
..+.|-||...+..++..- .|.|.|+..|...|....+ .||-||.
T Consensus 104 ~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~-~~~d~~~ 148 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGN-DCPDCRG 148 (324)
T ss_pred CccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhh-ccchhhc
Confidence 3457999998887663322 5999999999999988655 7888765
No 170
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=69.81 E-value=7.2 Score=22.06 Aligned_cols=33 Identities=24% Similarity=0.477 Sum_probs=22.3
Q ss_pred ccccccccccccccCCeeeEec--CCCCcccHHHHHHH
Q 037626 48 VEEICSICLMEFEKEDVVSRLT--RCCHLFHADCIERW 83 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~w 83 (99)
....|.||...... ..+.. .|+..||..|....
T Consensus 54 ~~~~C~iC~~~~G~---~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGA---CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCce---eEEcCCCCCCcCCCHHHHHHC
Confidence 35679999988221 12222 48889999998764
No 171
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.53 E-value=3 Score=25.16 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=16.6
Q ss_pred CCCcccccccccccccccCCeeeEecCCCCcc
Q 037626 44 EDSKVEEICSICLMEFEKEDVVSRLTRCCHLF 75 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f 75 (99)
.....+.+|.||+..--.+ .|||.-
T Consensus 60 aGv~ddatC~IC~KTKFAD-------G~GH~C 84 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFAD-------GCGHNC 84 (169)
T ss_pred cccCcCcchhhhhhccccc-------ccCccc
Confidence 5556778899999853322 477753
No 172
>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=67.80 E-value=2.8 Score=17.69 Aligned_cols=8 Identities=50% Similarity=1.111 Sum_probs=5.1
Q ss_pred cCccCCCC
Q 037626 90 TCPVCRSF 97 (99)
Q Consensus 90 ~CP~CR~~ 97 (99)
.||+|.+.
T Consensus 3 ~CPiC~~~ 10 (26)
T smart00734 3 QCPVCFRE 10 (26)
T ss_pred cCCCCcCc
Confidence 57777554
No 173
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=66.34 E-value=6.8 Score=26.90 Aligned_cols=48 Identities=19% Similarity=0.315 Sum_probs=28.1
Q ss_pred cccccccccccccccCCeeeEecCCC--CcccHHHHHHHHhcCCCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCC--HLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.....||+|-..-...- ++.-..=| |..|.-|-.+|--.+ ..||.|..
T Consensus 185 ~~~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVR-VKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccC-ccCCCCCC
Confidence 34567999988743220 00001122 456778888886633 48999954
No 174
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=65.94 E-value=22 Score=20.02 Aligned_cols=8 Identities=25% Similarity=0.181 Sum_probs=3.8
Q ss_pred CchhhhHH
Q 037626 1 MISLMYSQ 8 (99)
Q Consensus 1 ~~~~~~~~ 8 (99)
|+|-.+.+
T Consensus 1 MaSK~~ll 8 (95)
T PF07172_consen 1 MASKAFLL 8 (95)
T ss_pred CchhHHHH
Confidence 55554333
No 175
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=65.32 E-value=4.5 Score=26.72 Aligned_cols=25 Identities=20% Similarity=0.271 Sum_probs=17.4
Q ss_pred ccccccccccccCCeeeEecCCCCcc
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLF 75 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~f 75 (99)
..||+|.+++...+..... +.||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCC
Confidence 3699999999755443344 358988
No 176
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=65.20 E-value=4.6 Score=29.95 Aligned_cols=37 Identities=24% Similarity=0.514 Sum_probs=24.4
Q ss_pred cccccccccccccccC----C------eeeEecCCCCcccHHHHHHHH
Q 037626 47 KVEEICSICLMEFEKE----D------VVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~----~------~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
+....|+||.|.|..- + ..+.+ .=|-.||..|+.+-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~l-e~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYL-EFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeee-ccCceeeccccchHH
Confidence 4556799999998631 0 11122 258899999987653
No 177
>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=64.35 E-value=1.7 Score=20.56 Aligned_cols=27 Identities=26% Similarity=0.476 Sum_probs=15.2
Q ss_pred ecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 68 LTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 68 l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
...|||.|-..-- ..+.....||.|..
T Consensus 8 C~~Cg~~fe~~~~--~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 8 CEECGHEFEVLQS--ISEDDPVPCPECGS 34 (42)
T ss_pred eCCCCCEEEEEEE--cCCCCCCcCCCCCC
Confidence 3468888754321 11113347999977
No 178
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=62.44 E-value=11 Score=21.61 Aligned_cols=33 Identities=15% Similarity=0.304 Sum_probs=25.3
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
.|.||-+++..++......+ -..|.+|+..=..
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 59999999998887655543 4589999987543
No 179
>PRK01343 zinc-binding protein; Provisional
Probab=62.24 E-value=4.6 Score=20.60 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=6.8
Q ss_pred CcCccCCCCC
Q 037626 89 FTCPVCRSFF 98 (99)
Q Consensus 89 ~~CP~CR~~~ 98 (99)
..||+|++++
T Consensus 10 ~~CP~C~k~~ 19 (57)
T PRK01343 10 RPCPECGKPS 19 (57)
T ss_pred CcCCCCCCcC
Confidence 3688887754
No 180
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=61.60 E-value=0.96 Score=18.59 Aligned_cols=6 Identities=50% Similarity=1.602 Sum_probs=2.6
Q ss_pred CccCCC
Q 037626 91 CPVCRS 96 (99)
Q Consensus 91 CP~CR~ 96 (99)
||.|-+
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444433
No 181
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=60.39 E-value=12 Score=25.88 Aligned_cols=42 Identities=5% Similarity=-0.153 Sum_probs=29.6
Q ss_pred cccccccccccccCCeeeEecCCCCc-ccHHHHHHHHhcCCCcCccCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHL-FHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
..+|..|-+..-.. .+.+|||. |+.+|... . -..+||.|...
T Consensus 343 ~~~~~~~~~~~~st----~~~~~~~n~~~~~~a~~--s-~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLST----IWSGGNMNLSPGSLASA--S-ASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceeee----EeecCCcccChhhhhhc--c-cCCcccccccc
Confidence 34688887765544 56689995 99999872 2 33489999753
No 182
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=60.31 E-value=9.7 Score=21.61 Aligned_cols=26 Identities=27% Similarity=0.470 Sum_probs=14.9
Q ss_pred CCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 71 CCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 71 C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
||+--|.-=..++... ..||.|+.++
T Consensus 65 CGvC~~~LT~~EY~~~--~~Cp~C~spF 90 (105)
T COG4357 65 CGVCRKLLTRAEYGMC--GSCPYCQSPF 90 (105)
T ss_pred hhhhhhhhhHHHHhhc--CCCCCcCCCC
Confidence 5554444444444432 2699998875
No 183
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.00 E-value=5.7 Score=30.10 Aligned_cols=42 Identities=24% Similarity=0.520 Sum_probs=28.7
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
...|-+|..+-++...+-.+..|+-.||.+|..... + .||+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~~---~-~~~vC 695 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDYA---S-ISEVC 695 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhhhhhhh---c-cCccc
Confidence 346889988755333333445699999999876653 2 68988
No 184
>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=59.61 E-value=5.7 Score=17.18 Aligned_cols=28 Identities=21% Similarity=0.692 Sum_probs=17.1
Q ss_pred cccccccccccCCeeeEecCCCCcccHHH
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADC 79 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~C 79 (99)
.|.+|.+...... .-....|+-..|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4888877765543 323345776677666
No 185
>PF12773 DZR: Double zinc ribbon
Probab=57.34 E-value=6.5 Score=18.90 Aligned_cols=11 Identities=18% Similarity=0.588 Sum_probs=5.2
Q ss_pred ccccccccccc
Q 037626 50 EICSICLMEFE 60 (99)
Q Consensus 50 ~~C~IC~~~~~ 60 (99)
..|+-|-.++.
T Consensus 13 ~fC~~CG~~l~ 23 (50)
T PF12773_consen 13 KFCPHCGTPLP 23 (50)
T ss_pred cCChhhcCChh
Confidence 34555544444
No 186
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.29 E-value=6.9 Score=23.37 Aligned_cols=21 Identities=29% Similarity=0.765 Sum_probs=14.4
Q ss_pred cccHHHHHHHHhcCCCcCccCCCCC
Q 037626 74 LFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 74 ~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.||..|-..-+. .||.|..++
T Consensus 29 afcskcgeati~----qcp~csasi 49 (160)
T COG4306 29 AFCSKCGEATIT----QCPICSASI 49 (160)
T ss_pred HHHhhhchHHHh----cCCccCCcc
Confidence 477777766544 688887654
No 187
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=57.20 E-value=7.6 Score=23.30 Aligned_cols=22 Identities=32% Similarity=0.490 Sum_probs=13.5
Q ss_pred ccccccccccCCeeeEecCCCCcccH
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHA 77 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~ 77 (99)
=-||.+. .+++.+. .|||.|+.
T Consensus 60 lfi~qs~---~~rv~rc-ecghsf~d 81 (165)
T COG4647 60 LFICQSA---QKRVIRC-ECGHSFGD 81 (165)
T ss_pred EEEEecc---cccEEEE-eccccccC
Confidence 3456554 2345555 59999984
No 188
>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=57.18 E-value=9.8 Score=26.08 Aligned_cols=47 Identities=17% Similarity=0.325 Sum_probs=27.0
Q ss_pred ccccccccccccccCCeeeEe-cCCC--CcccHHHHHHHHhcCCCcCccCCC
Q 037626 48 VEEICSICLMEFEKEDVVSRL-TRCC--HLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l-~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
....||+|-..-.... ++.. ..=| +..|.-|-.+|--.+ ..||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVR-VKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccC-ccCCCCCC
Confidence 3457999988743220 0000 0112 446777888886633 48999954
No 189
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=57.15 E-value=5.3 Score=25.66 Aligned_cols=21 Identities=29% Similarity=0.789 Sum_probs=13.6
Q ss_pred HHHHHHHHh-cCCCcCccCCCCC
Q 037626 77 ADCIERWLD-CNQFTCPVCRSFF 98 (99)
Q Consensus 77 ~~Ci~~w~~-~~~~~CP~CR~~~ 98 (99)
..||++--. .++ -||+||-..
T Consensus 97 ktCIrkn~~~~gn-pCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGN-PCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCC-CCCccccce
Confidence 567776433 233 699999764
No 190
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=56.34 E-value=3.4 Score=17.77 Aligned_cols=9 Identities=67% Similarity=1.346 Sum_probs=3.5
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
+||.|.+.+
T Consensus 1 ~CP~C~s~l 9 (28)
T PF03119_consen 1 TCPVCGSKL 9 (28)
T ss_dssp B-TTT--BE
T ss_pred CcCCCCCEe
Confidence 377776543
No 191
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=56.02 E-value=7.9 Score=27.15 Aligned_cols=17 Identities=24% Similarity=0.634 Sum_probs=12.1
Q ss_pred CCccccccccccccccc
Q 037626 45 DSKVEEICSICLMEFEK 61 (99)
Q Consensus 45 ~~~~~~~C~IC~~~~~~ 61 (99)
++..++-||+|-+....
T Consensus 11 dedl~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 11 DEDLGELCPVCGDKVSG 27 (475)
T ss_pred ccccccccccccCcccc
Confidence 44556679999988653
No 192
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=55.30 E-value=9.1 Score=17.82 Aligned_cols=35 Identities=20% Similarity=0.305 Sum_probs=24.0
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHH
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW 83 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w 83 (99)
...|.+|.+.+...........|+=..|..|.+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~v 45 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEKV 45 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhhc
Confidence 34699999988653212234468888999998763
No 193
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=55.18 E-value=0.75 Score=23.20 Aligned_cols=33 Identities=30% Similarity=0.570 Sum_probs=18.1
Q ss_pred cccc--cccccccCCee----eEecCCCCcccHHHHHHH
Q 037626 51 ICSI--CLMEFEKEDVV----SRLTRCCHLFHADCIERW 83 (99)
Q Consensus 51 ~C~I--C~~~~~~~~~~----~~l~~C~H~fh~~Ci~~w 83 (99)
.|+- |-..+..++.. ...+.|++.||..|-..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 5766 77766543321 244469999999998776
No 194
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=54.97 E-value=9.3 Score=20.67 Aligned_cols=32 Identities=25% Similarity=0.405 Sum_probs=20.9
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHH
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~ 82 (99)
..|.+|.......-.- ....|.-.||..|...
T Consensus 37 ~~C~~C~~~~Ga~i~C-~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKGGACIGC-SHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCCCeEEEE-eCCCCCcEEChHHHcc
Confidence 3599998773222111 2236889999999876
No 195
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=54.97 E-value=22 Score=28.65 Aligned_cols=38 Identities=21% Similarity=0.425 Sum_probs=28.0
Q ss_pred CCCccccccccccccccc-CCeeeEecCCCCcccHHHHH
Q 037626 44 EDSKVEEICSICLMEFEK-EDVVSRLTRCCHLFHADCIE 81 (99)
Q Consensus 44 ~~~~~~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~ 81 (99)
...+++..|.||++--.. .+.....-.|+=..|.+|..
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 666778899999996443 34444555788889999986
No 196
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=54.24 E-value=3.5 Score=22.32 Aligned_cols=19 Identities=32% Similarity=0.685 Sum_probs=14.4
Q ss_pred cHHHHHHHHhcCCCcCccC
Q 037626 76 HADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 76 h~~Ci~~w~~~~~~~CP~C 94 (99)
|.+|-++|+.++-.+|..|
T Consensus 3 C~~C~~~~F~~KiGRC~rC 21 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRC 21 (77)
T ss_pred hhhHHHHHHHHHhccHHHH
Confidence 6678888887666678777
No 197
>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=54.16 E-value=3.7 Score=20.54 Aligned_cols=7 Identities=57% Similarity=1.725 Sum_probs=2.2
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
+||+|.+
T Consensus 26 tCP~C~a 32 (54)
T PF09237_consen 26 TCPICGA 32 (54)
T ss_dssp E-TTT--
T ss_pred CCCcchh
Confidence 4555543
No 198
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=54.04 E-value=8.8 Score=21.81 Aligned_cols=24 Identities=13% Similarity=0.116 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHhhhhhhh
Q 037626 6 YSQSRLFTAAIFFFSCILIPLLET 29 (99)
Q Consensus 6 ~~~~~l~~~~~~~~~~~~~~~~~~ 29 (99)
.+++.+++++++++.++..+++..
T Consensus 17 ~~FA~L~i~~FiILLIi~~~IW~~ 40 (121)
T PF10669_consen 17 MFFAFLFIVVFIILLIITKSIWHD 40 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Confidence 455666666666666665555543
No 199
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=53.89 E-value=7.4 Score=25.99 Aligned_cols=41 Identities=22% Similarity=0.351 Sum_probs=29.8
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCcc
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPV 93 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~ 93 (99)
..|||=..++.+| .+-..|||+|-++=+...+... ...||+
T Consensus 177 ~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 3588877777766 2233899999999999988742 235886
No 200
>PRK05978 hypothetical protein; Provisional
Probab=53.61 E-value=7.3 Score=23.85 Aligned_cols=26 Identities=31% Similarity=0.671 Sum_probs=16.1
Q ss_pred EecCCC--CcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 67 RLTRCC--HLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 67 ~l~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+.|.|| +.|. .+++.+. +||.|-.++
T Consensus 35 rCP~CG~G~LF~-----g~Lkv~~-~C~~CG~~~ 62 (148)
T PRK05978 35 RCPACGEGKLFR-----AFLKPVD-HCAACGEDF 62 (148)
T ss_pred cCCCCCCCcccc-----cccccCC-CccccCCcc
Confidence 455664 6674 5666454 788886653
No 201
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=53.48 E-value=10 Score=17.94 Aligned_cols=9 Identities=33% Similarity=0.966 Sum_probs=5.8
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||.|..++
T Consensus 19 ~Cp~C~~PL 27 (41)
T PF06677_consen 19 HCPDCGTPL 27 (41)
T ss_pred ccCCCCCee
Confidence 677776554
No 202
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=53.43 E-value=4.7 Score=19.61 Aligned_cols=27 Identities=33% Similarity=0.516 Sum_probs=13.9
Q ss_pred ecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 68 LTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 68 l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
...|||.|-..- ..-......||.|..
T Consensus 8 C~~Cg~~fe~~~--~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 8 CTACGHRFEVLQ--KMSDDPLATCPECGG 34 (52)
T ss_pred eCCCCCEeEEEE--ecCCCCCCCCCCCCC
Confidence 346888775321 111112336999875
No 203
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=52.48 E-value=7 Score=25.88 Aligned_cols=42 Identities=24% Similarity=0.311 Sum_probs=29.7
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC-CCcCcc
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN-QFTCPV 93 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~-~~~CP~ 93 (99)
+..|+|=+.++..+ .....|+|.|-.+-|...++.. ...||.
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 44699988887655 1223899999999999988732 125764
No 204
>PRK04023 DNA polymerase II large subunit; Validated
Probab=51.83 E-value=9.9 Score=30.34 Aligned_cols=44 Identities=18% Similarity=0.188 Sum_probs=28.3
Q ss_pred cccccccccccccccCCeeeEecCCCC-----cccHHHHHHHHhcCCCcCccCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCH-----LFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H-----~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
.....|+=|-..... ...+.||. .||..|-.. . ....||-|...
T Consensus 624 Vg~RfCpsCG~~t~~----frCP~CG~~Te~i~fCP~CG~~--~-~~y~CPKCG~E 672 (1121)
T PRK04023 624 IGRRKCPSCGKETFY----RRCPFCGTHTEPVYRCPRCGIE--V-EEDECEKCGRE 672 (1121)
T ss_pred ccCccCCCCCCcCCc----ccCCCCCCCCCcceeCccccCc--C-CCCcCCCCCCC
Confidence 334578888877433 26777983 589999332 2 23469999764
No 205
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=51.54 E-value=15 Score=24.46 Aligned_cols=32 Identities=16% Similarity=0.287 Sum_probs=21.9
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHH
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCI 80 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci 80 (99)
......|+.|-. .....-..+.||+.+|.+=-
T Consensus 306 ~~tS~~C~~cg~---~~~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 306 YYTSKTCPCCGH---LSGRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred CCCcccccccCC---ccceeEECCCCCCeehhhHH
Confidence 344467999998 22334466789999998743
No 206
>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=51.34 E-value=21 Score=24.13 Aligned_cols=43 Identities=33% Similarity=0.499 Sum_probs=22.9
Q ss_pred ccccccccccccCCeeeEecCCC-CcccHHHHHHH-HhcCCCcCcc
Q 037626 50 EICSICLMEFEKEDVVSRLTRCC-HLFHADCIERW-LDCNQFTCPV 93 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~-H~fh~~Ci~~w-~~~~~~~CP~ 93 (99)
..|.||++--..+..-..++-=. =.=|++|.+.| +..++ .||-
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ-~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQ-DCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcC-CCCc
Confidence 35777777543332211122111 13689999999 33355 7884
No 207
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=50.76 E-value=14 Score=16.66 Aligned_cols=10 Identities=30% Similarity=0.786 Sum_probs=5.1
Q ss_pred cccccccccc
Q 037626 51 ICSICLMEFE 60 (99)
Q Consensus 51 ~C~IC~~~~~ 60 (99)
.|+-|-..+.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 3555555443
No 208
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=50.75 E-value=7.3 Score=16.14 Aligned_cols=9 Identities=44% Similarity=1.342 Sum_probs=6.0
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||.|.+.+
T Consensus 4 ~C~~CgR~F 12 (25)
T PF13913_consen 4 PCPICGRKF 12 (25)
T ss_pred cCCCCCCEE
Confidence 588886654
No 209
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=50.72 E-value=8.2 Score=17.31 Aligned_cols=7 Identities=43% Similarity=1.611 Sum_probs=4.4
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
.||+|.+
T Consensus 20 ~CP~Cg~ 26 (34)
T cd00729 20 KCPICGA 26 (34)
T ss_pred cCcCCCC
Confidence 5777754
No 210
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=50.70 E-value=29 Score=19.65 Aligned_cols=34 Identities=12% Similarity=0.141 Sum_probs=26.4
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
-.|.||-+++..++.....+ .-..|.+|+.+-..
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 46999999999998875443 55689999987554
No 211
>PF14353 CpXC: CpXC protein
Probab=50.09 E-value=15 Score=21.45 Aligned_cols=12 Identities=50% Similarity=0.816 Sum_probs=7.5
Q ss_pred cccccccccccC
Q 037626 51 ICSICLMEFEKE 62 (99)
Q Consensus 51 ~C~IC~~~~~~~ 62 (99)
+||-|...+...
T Consensus 3 tCP~C~~~~~~~ 14 (128)
T PF14353_consen 3 TCPHCGHEFEFE 14 (128)
T ss_pred CCCCCCCeeEEE
Confidence 477777666543
No 212
>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=49.75 E-value=9.1 Score=16.92 Aligned_cols=7 Identities=57% Similarity=1.621 Sum_probs=4.8
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
.||+|..
T Consensus 19 ~CP~Cg~ 25 (33)
T cd00350 19 VCPVCGA 25 (33)
T ss_pred cCcCCCC
Confidence 6777754
No 213
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=49.66 E-value=14 Score=26.83 Aligned_cols=36 Identities=17% Similarity=0.469 Sum_probs=23.8
Q ss_pred ccccccccccc-ccCCeeeEecCCCCcccHHHHHHHH
Q 037626 49 EEICSICLMEF-EKEDVVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 49 ~~~C~IC~~~~-~~~~~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
+..|.+|+.-. ...+++...-.|+--||+.|-+...
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i 204 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLI 204 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCC
Confidence 44699999543 3334444555788889999976543
No 214
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=49.53 E-value=19 Score=17.44 Aligned_cols=31 Identities=23% Similarity=0.371 Sum_probs=23.6
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC 86 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~ 86 (99)
.|.||-++-.++ ... -|+..|.+|-.+..+.
T Consensus 1 ~CiiC~~~~~~G----I~I-~~~fIC~~CE~~iv~~ 31 (46)
T PF10764_consen 1 KCIICGKEKEEG----IHI-YGKFICSDCEKEIVNT 31 (46)
T ss_pred CeEeCCCcCCCC----EEE-ECeEehHHHHHHhccC
Confidence 388998887665 444 7888999998887654
No 215
>PLN02248 cellulose synthase-like protein
Probab=49.19 E-value=15 Score=29.63 Aligned_cols=28 Identities=21% Similarity=0.510 Sum_probs=23.2
Q ss_pred CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 70 RCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 70 ~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.|++..|++|...-++. ...||-|++++
T Consensus 149 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 176 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKS-GGICPGCKEPY 176 (1135)
T ss_pred cccchhHHhHhhhhhhc-CCCCCCCcccc
Confidence 57889999999998885 44899998864
No 216
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=48.87 E-value=1.1 Score=19.84 Aligned_cols=7 Identities=29% Similarity=0.733 Sum_probs=1.8
Q ss_pred ccccccc
Q 037626 52 CSICLME 58 (99)
Q Consensus 52 C~IC~~~ 58 (99)
|+-|-.+
T Consensus 6 C~~CG~~ 12 (32)
T PF09297_consen 6 CGRCGAP 12 (32)
T ss_dssp -TTT--B
T ss_pred cCcCCcc
Confidence 4444444
No 217
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=48.51 E-value=11 Score=22.57 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=14.7
Q ss_pred ccccccccccccCCeeeEecCCCCc
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHL 74 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~ 74 (99)
..|+.|-.++...+.-...|.|||.
T Consensus 29 ~hCp~Cg~PLF~KdG~v~CPvC~~~ 53 (131)
T COG1645 29 KHCPKCGTPLFRKDGEVFCPVCGYR 53 (131)
T ss_pred hhCcccCCcceeeCCeEECCCCCce
Confidence 3577777766544444455566653
No 218
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=47.61 E-value=12 Score=19.15 Aligned_cols=27 Identities=19% Similarity=0.493 Sum_probs=18.9
Q ss_pred ccccccccccccCCeeeEecCCCCccc-HHHHHHHHhc
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFH-ADCIERWLDC 86 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh-~~Ci~~w~~~ 86 (99)
..|++|-.++.++ -.|| .+|-+.|.++
T Consensus 4 kHC~~CG~~Ip~~----------~~fCS~~C~~~~~k~ 31 (59)
T PF09889_consen 4 KHCPVCGKPIPPD----------ESFCSPKCREEYRKR 31 (59)
T ss_pred CcCCcCCCcCCcc----------hhhhCHHHHHHHHHH
Confidence 4599998776544 2377 5888888764
No 219
>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=46.84 E-value=12 Score=21.00 Aligned_cols=36 Identities=17% Similarity=0.460 Sum_probs=24.8
Q ss_pred cccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 49 EEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 49 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
...|-||-.... +=||.||..|... ...|.+|-..+
T Consensus 44 ~~~C~~CK~~v~---------q~g~~YCq~CAYk-----kGiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVH---------QPGAKYCQTCAYK-----KGICAMCGKKI 79 (90)
T ss_pred Cccccccccccc---------cCCCccChhhhcc-----cCcccccCCee
Confidence 346888876643 2377899999653 34799997654
No 220
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=46.77 E-value=56 Score=22.36 Aligned_cols=49 Identities=18% Similarity=0.294 Sum_probs=26.1
Q ss_pred cccccccccccccccCCeeeEecCCC--CcccHHHHHHHHhcCCCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCC--HLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~--H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
+.-..||+|-......-....-..=| -.-|.-|..+|...+. .|-.|.+
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~-KC~nC~~ 233 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRV-KCSNCEQ 233 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHH-Hhccccc
Confidence 34456999988744321000000111 1247789999976443 5766643
No 221
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=46.77 E-value=7.8 Score=18.56 Aligned_cols=6 Identities=33% Similarity=1.054 Sum_probs=2.6
Q ss_pred cCccCC
Q 037626 90 TCPVCR 95 (99)
Q Consensus 90 ~CP~CR 95 (99)
.||.|.
T Consensus 21 rC~~CG 26 (44)
T smart00659 21 RCRECG 26 (44)
T ss_pred ECCCCC
Confidence 344443
No 222
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=46.40 E-value=18 Score=18.55 Aligned_cols=17 Identities=18% Similarity=0.524 Sum_probs=11.2
Q ss_pred cccccccccccccccCC
Q 037626 47 KVEEICSICLMEFEKED 63 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~ 63 (99)
++...||+|..++..+.
T Consensus 37 ~~~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 37 EEEPVCPLCKSPMVSGT 53 (59)
T ss_pred CCCccCCCcCCccccce
Confidence 34456888888776653
No 223
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=46.35 E-value=21 Score=27.88 Aligned_cols=27 Identities=33% Similarity=0.605 Sum_probs=18.0
Q ss_pred EecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 67 RLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 67 ~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..+.|.|.-|..=|.. .+.||+|...+
T Consensus 1158 lC~~CkH~a~~~EIs~-----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1158 LCPRCKHRAHQHEISK-----YNCCPLCHSME 1184 (1189)
T ss_pred Eccccccccccccccc-----cccCccccChh
Confidence 4457888877665543 34799997653
No 224
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=46.30 E-value=3.8 Score=27.79 Aligned_cols=35 Identities=34% Similarity=0.765 Sum_probs=25.4
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHhc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDC 86 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~ 86 (99)
.|.+|++++..+...... .|.-.||..|+..|+..
T Consensus 216 vC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTT 250 (288)
T ss_pred ecHHHHHHHhcccccchh-hcccccccccccccccc
Confidence 799999999753332222 35558999999999875
No 225
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=45.31 E-value=22 Score=21.42 Aligned_cols=10 Identities=50% Similarity=1.178 Sum_probs=7.7
Q ss_pred CcCccCCCCC
Q 037626 89 FTCPVCRSFF 98 (99)
Q Consensus 89 ~~CP~CR~~~ 98 (99)
+.||.|...+
T Consensus 124 f~Cp~Cg~~l 133 (147)
T smart00531 124 FTCPRCGEEL 133 (147)
T ss_pred EECCCCCCEE
Confidence 6799998764
No 226
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=45.02 E-value=32 Score=21.40 Aligned_cols=16 Identities=13% Similarity=0.218 Sum_probs=7.3
Q ss_pred HHHHHHHhhhhhhhHH
Q 037626 16 IFFFSCILIPLLETKR 31 (99)
Q Consensus 16 ~~~~~~~~~~~~~~~~ 31 (99)
.+...+++++..+.++
T Consensus 106 ~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 106 ALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHhhcc
Confidence 3334444445555444
No 227
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=44.70 E-value=48 Score=19.84 Aligned_cols=28 Identities=18% Similarity=0.061 Sum_probs=16.9
Q ss_pred CchhhhHHHHHHHHHHHHHHHHhhhhhh
Q 037626 1 MISLMYSQSRLFTAAIFFFSCILIPLLE 28 (99)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 28 (99)
|+-++|+...+++++.+.....-..+..
T Consensus 1 M~ylly~~~~~~~i~~t~lf~~R~r~~~ 28 (128)
T PF09435_consen 1 MAYLLYSLTFFVLIIGTLLFFTRHRWLP 28 (128)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6777777777666666654444444433
No 228
>PF14369 zf-RING_3: zinc-finger
Probab=44.56 E-value=11 Score=17.00 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=5.7
Q ss_pred CccCCCCCC
Q 037626 91 CPVCRSFFL 99 (99)
Q Consensus 91 CP~CR~~~~ 99 (99)
||.|...+|
T Consensus 24 CP~C~~gFv 32 (35)
T PF14369_consen 24 CPRCHGGFV 32 (35)
T ss_pred CcCCCCcEe
Confidence 777766543
No 229
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=44.55 E-value=14 Score=29.02 Aligned_cols=35 Identities=17% Similarity=0.303 Sum_probs=24.7
Q ss_pred ccccccccccccCCe---ee--EecCCCCcccHHHHHHHH
Q 037626 50 EICSICLMEFEKEDV---VS--RLTRCCHLFHADCIERWL 84 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~---~~--~l~~C~H~fh~~Ci~~w~ 84 (99)
+.|..|..+|..-.+ .+ ..-.||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 569999999953211 11 244799999999987654
No 230
>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=43.22 E-value=19 Score=23.68 Aligned_cols=21 Identities=24% Similarity=0.653 Sum_probs=14.8
Q ss_pred ccHHHHHHHHhcCCCcCccCCC
Q 037626 75 FHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 75 fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
-|.+|-+.- .++-..||+|++
T Consensus 196 ~C~sC~qqI-HRNAPiCPlCK~ 216 (230)
T PF10146_consen 196 TCQSCHQQI-HRNAPICPLCKA 216 (230)
T ss_pred hhHhHHHHH-hcCCCCCccccc
Confidence 567776664 336668999975
No 231
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=43.10 E-value=14 Score=21.45 Aligned_cols=26 Identities=19% Similarity=0.361 Sum_probs=16.0
Q ss_pred cccccccccccCC-eeeEecCCCCccc
Q 037626 51 ICSICLMEFEKED-VVSRLTRCCHLFH 76 (99)
Q Consensus 51 ~C~IC~~~~~~~~-~~~~l~~C~H~fh 76 (99)
.||-|..++.-.+ ..-+.|.|+|-+-
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccc
Confidence 4888988875332 2335566777553
No 232
>PF09337 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR015416 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 an H2C2-type zinc finger that binds to histone upstream activating sequence (UAS) elements found in histone gene promoters []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=42.05 E-value=20 Score=16.65 Aligned_cols=6 Identities=50% Similarity=1.780 Sum_probs=4.3
Q ss_pred cCccCC
Q 037626 90 TCPVCR 95 (99)
Q Consensus 90 ~CP~CR 95 (99)
+||.|+
T Consensus 34 ~C~~Cq 39 (39)
T PF09337_consen 34 SCPQCQ 39 (39)
T ss_pred cCcccC
Confidence 677775
No 233
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=40.50 E-value=25 Score=20.29 Aligned_cols=35 Identities=20% Similarity=0.370 Sum_probs=19.8
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHH----HHHHhc
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCI----ERWLDC 86 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci----~~w~~~ 86 (99)
......|.=|-.... .--.|+|.+|..|- ++|+.+
T Consensus 39 G~~~~~C~~Cg~~~~------~~~SCk~R~CP~C~~~~~~~W~~~ 77 (111)
T PF14319_consen 39 GFHRYRCEDCGHEKI------VYNSCKNRHCPSCQAKATEQWIEK 77 (111)
T ss_pred CcceeecCCCCceEE------ecCcccCcCCCCCCChHHHHHHHH
Confidence 334445766655421 11258888888873 567654
No 234
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.08 E-value=10 Score=18.63 Aligned_cols=9 Identities=56% Similarity=1.401 Sum_probs=4.5
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
-||.|.+++
T Consensus 14 ICpvCqRPF 22 (54)
T COG4338 14 ICPVCQRPF 22 (54)
T ss_pred hhhhhcCch
Confidence 355555443
No 235
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=39.81 E-value=21 Score=21.51 Aligned_cols=22 Identities=23% Similarity=0.664 Sum_probs=14.2
Q ss_pred EecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 67 RLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 67 ~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
+..+|||.|+- .+..||.|..+
T Consensus 31 kC~~CG~v~~P---------Pr~~Cp~C~~~ 52 (140)
T COG1545 31 KCKKCGRVYFP---------PRAYCPKCGSE 52 (140)
T ss_pred EcCCCCeEEcC---------CcccCCCCCCC
Confidence 45578888753 23368888664
No 236
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=39.74 E-value=16 Score=16.65 Aligned_cols=29 Identities=14% Similarity=0.336 Sum_probs=16.4
Q ss_pred EecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 67 RLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 67 ~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
..+.||++||..=-- -.....|..|..++
T Consensus 3 ~C~~Cg~~Yh~~~~p---P~~~~~Cd~cg~~L 31 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNP---PKVEGVCDNCGGEL 31 (36)
T ss_dssp EETTTTEEEETTTB-----SSTTBCTTTTEBE
T ss_pred CcCCCCCccccccCC---CCCCCccCCCCCee
Confidence 456799999843211 11223688886654
No 237
>PRK00420 hypothetical protein; Validated
Probab=39.57 E-value=22 Score=20.75 Aligned_cols=24 Identities=13% Similarity=0.200 Sum_probs=14.1
Q ss_pred cccccccccccc-CCeeeEecCCCC
Q 037626 50 EICSICLMEFEK-EDVVSRLTRCCH 73 (99)
Q Consensus 50 ~~C~IC~~~~~~-~~~~~~l~~C~H 73 (99)
..||.|-.++.. .+.....|.||.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCC
Confidence 458888877653 333334555664
No 238
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=39.50 E-value=10 Score=18.01 Aligned_cols=10 Identities=30% Similarity=0.810 Sum_probs=6.4
Q ss_pred CcCccCCCCC
Q 037626 89 FTCPVCRSFF 98 (99)
Q Consensus 89 ~~CP~CR~~~ 98 (99)
.+||.|..++
T Consensus 22 ~~Cp~CG~~~ 31 (46)
T PRK00398 22 VRCPYCGYRI 31 (46)
T ss_pred eECCCCCCeE
Confidence 3677776654
No 239
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=39.24 E-value=50 Score=17.02 Aligned_cols=46 Identities=20% Similarity=0.474 Sum_probs=27.4
Q ss_pred ccccccccccccCCeeeE--ecCCCCcccHHHHHHHHhcCCCcCccCC
Q 037626 50 EICSICLMEFEKEDVVSR--LTRCCHLFHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~--l~~C~H~fh~~Ci~~w~~~~~~~CP~CR 95 (99)
..|.-|-..+...+.... .|+||..-=..|..--...+..+||.|-
T Consensus 10 ~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 10 PVCTSCGREIAPGETAVKFPCPNCGEVEIYRCAKCRKLGNPYRCPKCG 57 (61)
T ss_pred ceeccCCCEeccCCceeEeeCCCCCceeeehhhhHHHcCCceECCCcC
Confidence 357777777755554433 4588865444554443333455799984
No 240
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=39.02 E-value=10 Score=22.11 Aligned_cols=31 Identities=26% Similarity=0.621 Sum_probs=20.1
Q ss_pred eEecCCCC---cccHHHHHHHHhcCC---CcCccCCCC
Q 037626 66 SRLTRCCH---LFHADCIERWLDCNQ---FTCPVCRSF 97 (99)
Q Consensus 66 ~~l~~C~H---~fh~~Ci~~w~~~~~---~~CP~CR~~ 97 (99)
.+.|.||| .||..-+++-=+ ++ .+||.|...
T Consensus 75 ~kCpkCghe~m~Y~T~QlRSADE-GQTVFYTC~kC~~k 111 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQLRSADE-GQTVFYTCPKCKYK 111 (116)
T ss_pred ccCcccCCchhhhhhhhcccccC-CceEEEEcCcccee
Confidence 36678998 488776665433 33 369999653
No 241
>PRK11595 DNA utilization protein GntX; Provisional
Probab=38.39 E-value=28 Score=22.49 Aligned_cols=8 Identities=38% Similarity=1.086 Sum_probs=4.2
Q ss_pred cccccccc
Q 037626 52 CSICLMEF 59 (99)
Q Consensus 52 C~IC~~~~ 59 (99)
|.+|-..+
T Consensus 8 C~~C~~~~ 15 (227)
T PRK11595 8 CWLCRMPL 15 (227)
T ss_pred CccCCCcc
Confidence 55555443
No 242
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=38.37 E-value=10 Score=20.45 Aligned_cols=27 Identities=22% Similarity=0.315 Sum_probs=0.0
Q ss_pred cccccccccccCCeeeEecCCCCcccH
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHA 77 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~ 77 (99)
+|.+|-..+.+.+.+..-+.=.|.|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~ 27 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI 27 (100)
T ss_dssp ---------------------------
T ss_pred Ccccccccccccccccccccccccccc
Confidence 488888887766554433334455443
No 243
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=38.26 E-value=32 Score=16.48 Aligned_cols=35 Identities=17% Similarity=0.359 Sum_probs=22.0
Q ss_pred cccccccccccccc-CCeeeEecCCCCcccHHHHHH
Q 037626 48 VEEICSICLMEFEK-EDVVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 48 ~~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~ 82 (99)
....|.+|.+.+-. .........|+-..|.+|++.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 34569999999821 122224557999999999765
No 244
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=38.10 E-value=78 Score=17.95 Aligned_cols=16 Identities=13% Similarity=0.152 Sum_probs=6.7
Q ss_pred HHHHHHHHHHhhhhhh
Q 037626 13 TAAIFFFSCILIPLLE 28 (99)
Q Consensus 13 ~~~~~~~~~~~~~~~~ 28 (99)
+..+.++++++++-.+
T Consensus 16 vl~~~ifyFli~RPQr 31 (97)
T COG1862 16 VLIFAIFYFLIIRPQR 31 (97)
T ss_pred HHHHHHHHHhhcCHHH
Confidence 3344444444444333
No 245
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=37.96 E-value=47 Score=17.08 Aligned_cols=43 Identities=23% Similarity=0.601 Sum_probs=24.8
Q ss_pred ccccccccccccCCeee--EecCCCCc---ccHHHHHHHHhcCCCcCccCC
Q 037626 50 EICSICLMEFEKEDVVS--RLTRCCHL---FHADCIERWLDCNQFTCPVCR 95 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~--~l~~C~H~---fh~~Ci~~w~~~~~~~CP~CR 95 (99)
..|.-|-..+.+.+... ..|+||.. -|..|-+ ..+..+||.|-
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CRk---~~~~Y~CP~CG 55 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRK---QSNPYTCPKCG 55 (59)
T ss_pred ccccCCCCcccCCCccCEeeCCCCCCeeEeechhHHh---cCCceECCCCC
Confidence 35777777776554222 34688876 2444433 22445799985
No 246
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=37.95 E-value=18 Score=17.84 Aligned_cols=10 Identities=40% Similarity=1.112 Sum_probs=6.9
Q ss_pred CCcCccCCCC
Q 037626 88 QFTCPVCRSF 97 (99)
Q Consensus 88 ~~~CP~CR~~ 97 (99)
..+||+|..+
T Consensus 34 ~w~CP~C~a~ 43 (50)
T cd00730 34 DWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCc
Confidence 3479999753
No 247
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=37.56 E-value=21 Score=16.68 Aligned_cols=34 Identities=18% Similarity=0.385 Sum_probs=23.1
Q ss_pred cccccccccccccC-CeeeEecCCCCcccHHHHHH
Q 037626 49 EEICSICLMEFEKE-DVVSRLTRCCHLFHADCIER 82 (99)
Q Consensus 49 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~ 82 (99)
...|.+|.+.+... ........|+=..|..|.+.
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 34599999987652 12223446888899999765
No 248
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=37.40 E-value=24 Score=23.38 Aligned_cols=21 Identities=24% Similarity=0.667 Sum_probs=13.6
Q ss_pred ccHHHHHHHHhcCCCcCccCCC
Q 037626 75 FHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 75 fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.|.+|-.+--+ +...||+|+.
T Consensus 251 ~ClsChqqIHR-NAPiCPlCKa 271 (286)
T KOG4451|consen 251 VCLSCHQQIHR-NAPICPLCKA 271 (286)
T ss_pred HHHHHHHHHhc-CCCCCcchhh
Confidence 45566555433 5668999975
No 249
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=37.36 E-value=9.8 Score=25.68 Aligned_cols=52 Identities=21% Similarity=0.436 Sum_probs=26.2
Q ss_pred cccccccccccccccCCe----eeE-ecCCCCcccHHHH-HHHHhcC---------CCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDV----VSR-LTRCCHLFHADCI-ERWLDCN---------QFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~----~~~-l~~C~H~fh~~Ci-~~w~~~~---------~~~CP~CR~~~ 98 (99)
.....|.+|-..|..--- ++. .++|.-.+|..=. +.|+.++ .+.||.|++.|
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchh
Confidence 334568888777653110 000 1123333333332 4687642 35799997754
No 250
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=37.32 E-value=26 Score=25.34 Aligned_cols=31 Identities=32% Similarity=0.702 Sum_probs=20.0
Q ss_pred cccccccccccCCee---eEecCCCCcccHHHHHH
Q 037626 51 ICSICLMEFEKEDVV---SRLTRCCHLFHADCIER 82 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~---~~l~~C~H~fh~~Ci~~ 82 (99)
.|.||.. |+..... ...--|||.-|.+|.-+
T Consensus 130 ~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 130 MCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred CccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 5788855 5433221 22336899999999765
No 251
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=37.17 E-value=28 Score=18.02 Aligned_cols=8 Identities=13% Similarity=0.476 Sum_probs=3.5
Q ss_pred ecCCCCcc
Q 037626 68 LTRCCHLF 75 (99)
Q Consensus 68 l~~C~H~f 75 (99)
.+.|||.|
T Consensus 56 Cp~c~r~Y 63 (68)
T PF03966_consen 56 CPECGREY 63 (68)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCEE
Confidence 33444443
No 252
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=36.93 E-value=8.3 Score=15.01 Aligned_cols=7 Identities=43% Similarity=1.564 Sum_probs=3.9
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
.||.|.+
T Consensus 2 ~C~~C~~ 8 (23)
T PF00096_consen 2 KCPICGK 8 (23)
T ss_dssp EETTTTE
T ss_pred CCCCCCC
Confidence 3666654
No 253
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=36.47 E-value=12 Score=16.82 Aligned_cols=9 Identities=33% Similarity=0.866 Sum_probs=5.1
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||.|.+++
T Consensus 6 ~C~nC~R~v 14 (33)
T PF08209_consen 6 ECPNCGRPV 14 (33)
T ss_dssp E-TTTSSEE
T ss_pred ECCCCcCCc
Confidence 578886543
No 254
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=36.45 E-value=16 Score=17.57 Aligned_cols=6 Identities=50% Similarity=1.198 Sum_probs=5.0
Q ss_pred CCCCcc
Q 037626 70 RCCHLF 75 (99)
Q Consensus 70 ~C~H~f 75 (99)
.|||.|
T Consensus 32 ~Cg~tf 37 (47)
T PF04606_consen 32 ECGHTF 37 (47)
T ss_pred cCCCEE
Confidence 599987
No 255
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.19 E-value=14 Score=20.16 Aligned_cols=12 Identities=33% Similarity=0.830 Sum_probs=8.1
Q ss_pred cccccccccccC
Q 037626 51 ICSICLMEFEKE 62 (99)
Q Consensus 51 ~C~IC~~~~~~~ 62 (99)
.||||--++...
T Consensus 3 lCP~C~v~l~~~ 14 (88)
T COG3809 3 LCPICGVELVMS 14 (88)
T ss_pred ccCcCCceeeee
Confidence 488887776544
No 256
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=35.67 E-value=10 Score=21.92 Aligned_cols=28 Identities=29% Similarity=0.680 Sum_probs=17.4
Q ss_pred cccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
.|+.|.++|.-.+. ++..|.+|..+|-.
T Consensus 5 ~cp~c~sEytYed~-------~~~~cpec~~ew~~ 32 (112)
T COG2824 5 PCPKCNSEYTYEDG-------GQLICPECAHEWNE 32 (112)
T ss_pred CCCccCCceEEecC-------ceEeCchhcccccc
Confidence 48999888754432 23356666667753
No 257
>PRK10220 hypothetical protein; Provisional
Probab=35.08 E-value=27 Score=20.27 Aligned_cols=26 Identities=27% Similarity=0.545 Sum_probs=16.0
Q ss_pred cccccccccccCC-eeeEecCCCCccc
Q 037626 51 ICSICLMEFEKED-VVSRLTRCCHLFH 76 (99)
Q Consensus 51 ~C~IC~~~~~~~~-~~~~l~~C~H~fh 76 (99)
.||-|..++.-.+ ..-+.+.|+|-+-
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcCC
Confidence 5888888875332 2335566777553
No 258
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=35.03 E-value=10 Score=17.68 Aligned_cols=12 Identities=33% Similarity=0.653 Sum_probs=6.6
Q ss_pred cccccccccccc
Q 037626 47 KVEEICSICLME 58 (99)
Q Consensus 47 ~~~~~C~IC~~~ 58 (99)
.+++.|+||.++
T Consensus 27 se~~~C~IC~d~ 38 (41)
T PF02132_consen 27 SEEDPCEICSDP 38 (41)
T ss_dssp ESSSS-HHHH-T
T ss_pred CCCCcCcCCCCC
Confidence 345568888776
No 259
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=34.72 E-value=54 Score=18.16 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=24.9
Q ss_pred HHHHHhcCCCCCCCCCcccccccccccc---cccCCeeeEecCCCCccc
Q 037626 31 RAIYKAMGYQPEAEDSKVEEICSICLME---FEKEDVVSRLTRCCHLFH 76 (99)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~C~IC~~~---~~~~~~~~~l~~C~H~fh 76 (99)
++..+.....++....-.+..|+-|.+. |.....++....||...+
T Consensus 17 ~~khK~k~Lv~~PnS~Fm~VkCp~C~n~q~VFShA~t~V~C~~Cg~~L~ 65 (85)
T PTZ00083 17 ARKHKLKRLVQGPNSYFMDVKCPGCSQITTVFSHAQTVVLCGGCSSQLC 65 (85)
T ss_pred HhhhhceeEecCCCCeEEEEECCCCCCeeEEEecCceEEEccccCCEee
Confidence 3333334444455555566678888775 334444444455666554
No 260
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=34.26 E-value=24 Score=25.78 Aligned_cols=15 Identities=27% Similarity=0.525 Sum_probs=9.6
Q ss_pred ccccccccccccccC
Q 037626 48 VEEICSICLMEFEKE 62 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~ 62 (99)
+...|+-|++++...
T Consensus 25 ~~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSS 39 (483)
T ss_pred ceeECccccccCChh
Confidence 344688888776544
No 261
>PF15353 HECA: Headcase protein family homologue
Probab=33.71 E-value=31 Score=19.91 Aligned_cols=15 Identities=33% Similarity=0.955 Sum_probs=12.5
Q ss_pred CCCcccHHHHHHHHh
Q 037626 71 CCHLFHADCIERWLD 85 (99)
Q Consensus 71 C~H~fh~~Ci~~w~~ 85 (99)
.|+..|.+|.+.|=.
T Consensus 40 ~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 40 FGQYMHRECFEKWED 54 (107)
T ss_pred CCCchHHHHHHHHHH
Confidence 478899999999943
No 262
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=33.31 E-value=11 Score=27.88 Aligned_cols=51 Identities=14% Similarity=0.208 Sum_probs=39.0
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
.....|.+|+..............+.|.++..++..|-.... .||.+++.+
T Consensus 258 ~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~-v~~~~~tk~ 308 (553)
T KOG4430|consen 258 ENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVES-VCPLRVTKV 308 (553)
T ss_pred hcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhh-hhhcccccc
Confidence 334579999998876665555557889999999999987555 799887754
No 263
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=32.74 E-value=24 Score=15.44 Aligned_cols=24 Identities=29% Similarity=0.564 Sum_probs=7.5
Q ss_pred cccccccccccCC-eeeEecCCCCc
Q 037626 51 ICSICLMEFEKED-VVSRLTRCCHL 74 (99)
Q Consensus 51 ~C~IC~~~~~~~~-~~~~l~~C~H~ 74 (99)
.|+-|..++.-.| .+-+.+.|+|.
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 4666766653221 22244556653
No 264
>KOG2079 consensus Vacuolar assembly/sorting protein VPS8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.64 E-value=27 Score=28.24 Aligned_cols=38 Identities=16% Similarity=0.111 Sum_probs=26.3
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHHh
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~ 85 (99)
....|.+|.+.+-.....-....|||.-|.+|...-.+
T Consensus 1132 ht~~c~~c~q~~~~h~~~~~Fl~wgh~qh~qc~~~~d~ 1169 (1206)
T KOG2079|consen 1132 HTDDCEICGQKIWAHLDPLLFLAWGHVQHHQCMISVDL 1169 (1206)
T ss_pred cCcchHhhhhhhhccCcchheeeccchhhHHHHHHHhh
Confidence 34569999999853322222335999999999887654
No 265
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=32.55 E-value=21 Score=17.48 Aligned_cols=11 Identities=27% Similarity=0.570 Sum_probs=7.5
Q ss_pred ccccccccccc
Q 037626 50 EICSICLMEFE 60 (99)
Q Consensus 50 ~~C~IC~~~~~ 60 (99)
..||.|.+.++
T Consensus 3 f~CP~C~~~~~ 13 (54)
T PF05605_consen 3 FTCPYCGKGFS 13 (54)
T ss_pred cCCCCCCCccC
Confidence 46888887544
No 266
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=32.16 E-value=49 Score=22.61 Aligned_cols=29 Identities=14% Similarity=0.369 Sum_probs=13.9
Q ss_pred cccccccccccCC---eeeEecCCCCcccHHH
Q 037626 51 ICSICLMEFEKED---VVSRLTRCCHLFHADC 79 (99)
Q Consensus 51 ~C~IC~~~~~~~~---~~~~l~~C~H~fh~~C 79 (99)
.|+-|-+-+-..+ ...+++.|+|.+..+-
T Consensus 30 KCp~c~~~~y~~eL~~n~~vcp~c~~h~ri~A 61 (294)
T COG0777 30 KCPSCGEMLYRKELESNLKVCPKCGHHMRISA 61 (294)
T ss_pred ECCCccceeeHHHHHhhhhcccccCcccccCH
Confidence 4666655443221 2334555666655443
No 267
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=31.93 E-value=81 Score=18.39 Aligned_cols=7 Identities=29% Similarity=0.553 Sum_probs=2.8
Q ss_pred ccHHHHH
Q 037626 75 FHADCIE 81 (99)
Q Consensus 75 fh~~Ci~ 81 (99)
|.+.-+.
T Consensus 74 v~r~AI~ 80 (113)
T PRK06531 74 FELAAIK 80 (113)
T ss_pred EEhhHhh
Confidence 4444343
No 268
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=31.65 E-value=16 Score=13.82 Aligned_cols=7 Identities=43% Similarity=1.559 Sum_probs=2.6
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
.||.|..
T Consensus 2 ~C~~C~~ 8 (24)
T PF13894_consen 2 QCPICGK 8 (24)
T ss_dssp E-SSTS-
T ss_pred CCcCCCC
Confidence 3566544
No 269
>KOG1705 consensus Uncharacterized conserved protein, contains CXXC motifs [Function unknown]
Probab=31.58 E-value=36 Score=19.13 Aligned_cols=24 Identities=21% Similarity=0.384 Sum_probs=16.2
Q ss_pred ccccccccccccccCCeeeEecCC
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRC 71 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C 71 (99)
-+..|+||-+...+...+++.-.|
T Consensus 26 CDgkC~ICDS~VRP~tlVRiC~eC 49 (110)
T KOG1705|consen 26 CDGKCVICDSYVRPCTLVRICDEC 49 (110)
T ss_pred cCCcccccccccccceeeeeehhc
Confidence 456799998887766555544444
No 270
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=31.56 E-value=9.1 Score=25.90 Aligned_cols=11 Identities=27% Similarity=0.588 Sum_probs=5.4
Q ss_pred CCcccHHHHHH
Q 037626 72 CHLFHADCIER 82 (99)
Q Consensus 72 ~H~fh~~Ci~~ 82 (99)
+|.||..|-.+
T Consensus 110 ~~RFCg~CG~~ 120 (279)
T COG2816 110 SHRFCGRCGTK 120 (279)
T ss_pred hCcCCCCCCCc
Confidence 34555555444
No 271
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=31.44 E-value=94 Score=16.94 Aligned_cols=6 Identities=33% Similarity=0.772 Sum_probs=2.3
Q ss_pred HHHHhh
Q 037626 19 FSCILI 24 (99)
Q Consensus 19 ~~~~~~ 24 (99)
++++.+
T Consensus 16 ~yf~~~ 21 (84)
T TIGR00739 16 FYFLII 21 (84)
T ss_pred HHHhee
Confidence 333333
No 272
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=31.21 E-value=22 Score=16.17 Aligned_cols=8 Identities=63% Similarity=1.335 Sum_probs=5.0
Q ss_pred cCccCCCC
Q 037626 90 TCPVCRSF 97 (99)
Q Consensus 90 ~CP~CR~~ 97 (99)
.||.|+..
T Consensus 10 ~C~~C~~~ 17 (36)
T PF11781_consen 10 PCPVCGSR 17 (36)
T ss_pred cCCCCCCe
Confidence 47777653
No 273
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=31.19 E-value=30 Score=17.81 Aligned_cols=21 Identities=29% Similarity=0.594 Sum_probs=16.3
Q ss_pred ccccccccCCeeeEecCCCCc
Q 037626 54 ICLMEFEKEDVVSRLTRCCHL 74 (99)
Q Consensus 54 IC~~~~~~~~~~~~l~~C~H~ 74 (99)
|=++++.+++.+.+.|.|+-.
T Consensus 33 IsLeDl~~GE~VArCPSCSLi 53 (67)
T COG5216 33 ISLEDLRNGEVVARCPSCSLI 53 (67)
T ss_pred EEHHHhhCCceEEEcCCceEE
Confidence 667777888888888888743
No 274
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=30.77 E-value=30 Score=26.35 Aligned_cols=27 Identities=30% Similarity=0.977 Sum_probs=20.7
Q ss_pred CCCCcccHHHHHHHHhcC----CCcCccCCC
Q 037626 70 RCCHLFHADCIERWLDCN----QFTCPVCRS 96 (99)
Q Consensus 70 ~C~H~fh~~Ci~~w~~~~----~~~CP~CR~ 96 (99)
.|+-.+|..|...|+... --.||-||.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 688999999999998641 125888874
No 275
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=30.60 E-value=45 Score=22.53 Aligned_cols=50 Identities=22% Similarity=0.346 Sum_probs=25.6
Q ss_pred CcccccccccccccccCCeeeEecCCCCcccHHHHHHH---HhcCCCcCccCCCCCC
Q 037626 46 SKVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERW---LDCNQFTCPVCRSFFL 99 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w---~~~~~~~CP~CR~~~~ 99 (99)
...+.-|.-|.+.+..+ +...|.-..-..=+... +...+..|..|.+|++
T Consensus 180 vk~eLyClrChD~mgip----iCgaC~rpIeervi~amgKhWHveHFvCa~CekPFl 232 (332)
T KOG2272|consen 180 VKGELYCLRCHDKMGIP----ICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFL 232 (332)
T ss_pred hccceeccccccccCCc----ccccccCchHHHHHHHhccccchhheeehhcCCccc
Confidence 34455677777777665 33334333333333221 1124556777776664
No 276
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.47 E-value=91 Score=19.57 Aligned_cols=12 Identities=33% Similarity=1.007 Sum_probs=9.0
Q ss_pred CCCcCccCCCCC
Q 037626 87 NQFTCPVCRSFF 98 (99)
Q Consensus 87 ~~~~CP~CR~~~ 98 (99)
..+.||.|...+
T Consensus 135 ~~F~Cp~Cg~~L 146 (178)
T PRK06266 135 YGFRCPQCGEML 146 (178)
T ss_pred cCCcCCCCCCCC
Confidence 456899998765
No 277
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=30.34 E-value=22 Score=26.88 Aligned_cols=35 Identities=23% Similarity=0.519 Sum_probs=26.3
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
.+|-.|...|..-..-...-.||-+||..|-..-+
T Consensus 166 ~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~ 200 (634)
T KOG1818|consen 166 EECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSL 200 (634)
T ss_pred cccceeeeeeeeccccccccccchhhccCcccccc
Confidence 68999999997654333444799999999976543
No 278
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=30.30 E-value=26 Score=17.02 Aligned_cols=8 Identities=50% Similarity=1.568 Sum_probs=4.6
Q ss_pred CcCccCCC
Q 037626 89 FTCPVCRS 96 (99)
Q Consensus 89 ~~CP~CR~ 96 (99)
-+||.|..
T Consensus 35 w~CP~C~a 42 (47)
T PF00301_consen 35 WVCPVCGA 42 (47)
T ss_dssp -B-TTTSS
T ss_pred CcCcCCCC
Confidence 37888865
No 279
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.74 E-value=30 Score=16.50 Aligned_cols=9 Identities=56% Similarity=1.309 Sum_probs=6.0
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||+|..++
T Consensus 10 ~C~~C~rpf 18 (42)
T PF10013_consen 10 ICPVCGRPF 18 (42)
T ss_pred cCcccCCcc
Confidence 577776654
No 280
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=29.48 E-value=60 Score=19.90 Aligned_cols=12 Identities=42% Similarity=1.096 Sum_probs=8.7
Q ss_pred CCCcCccCCCCC
Q 037626 87 NQFTCPVCRSFF 98 (99)
Q Consensus 87 ~~~~CP~CR~~~ 98 (99)
..+.||.|..++
T Consensus 127 ~~F~Cp~Cg~~L 138 (158)
T TIGR00373 127 LNFTCPRCGAML 138 (158)
T ss_pred cCCcCCCCCCEe
Confidence 356899997754
No 281
>PF15486 DUF4644: Domain of unknown function (DUF4644)
Probab=29.09 E-value=13 Score=22.64 Aligned_cols=15 Identities=27% Similarity=0.966 Sum_probs=9.5
Q ss_pred HHHhcCCCcCccCCC
Q 037626 82 RWLDCNQFTCPVCRS 96 (99)
Q Consensus 82 ~w~~~~~~~CP~CR~ 96 (99)
.|.......||.|++
T Consensus 147 swga~ee~~cPlckr 161 (161)
T PF15486_consen 147 SWGASEESMCPLCKR 161 (161)
T ss_pred CCccccccccccccC
Confidence 454444557999974
No 282
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=28.39 E-value=41 Score=17.04 Aligned_cols=24 Identities=17% Similarity=0.247 Sum_probs=13.0
Q ss_pred ccccccccccCCeeeEecCCCCcccHH
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHAD 78 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~ 78 (99)
|..|... ++.+-..+.||+.+|.+
T Consensus 1 C~~C~~~---~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST---NSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTC---SSSEEEETTTS-EEETT
T ss_pred CCCCCCc---CCceEEeCCCCcccccC
Confidence 4455544 12333556799999875
No 283
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=28.23 E-value=15 Score=15.16 Aligned_cols=9 Identities=33% Similarity=1.147 Sum_probs=5.7
Q ss_pred CcCccCCCC
Q 037626 89 FTCPVCRSF 97 (99)
Q Consensus 89 ~~CP~CR~~ 97 (99)
..||.|.+.
T Consensus 15 ~~C~~C~k~ 23 (26)
T PF13465_consen 15 YKCPYCGKS 23 (26)
T ss_dssp EEESSSSEE
T ss_pred CCCCCCcCe
Confidence 357777654
No 284
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=28.12 E-value=86 Score=21.95 Aligned_cols=46 Identities=22% Similarity=0.332 Sum_probs=29.4
Q ss_pred ccccccccccccCC----------eeeEecCCCCcccHHHHHHHHhcCCCcCccCCC
Q 037626 50 EICSICLMEFEKED----------VVSRLTRCCHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 50 ~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
..|-.|+.+|-.+. ..-....|...||.+|-.---++=+ .||.|..
T Consensus 363 ~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh-~C~gCe~ 418 (421)
T COG5151 363 THCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH-FCIGCEL 418 (421)
T ss_pred ccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHh-hCCCCcC
Confidence 46999999875331 1123446888999999554333223 6998864
No 285
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=27.67 E-value=86 Score=15.39 Aligned_cols=11 Identities=9% Similarity=0.096 Sum_probs=4.8
Q ss_pred CchhhhHHHHH
Q 037626 1 MISLMYSQSRL 11 (99)
Q Consensus 1 ~~~~~~~~~~l 11 (99)
|+.++-+...+
T Consensus 1 Ma~ilKFvY~m 11 (54)
T PF07127_consen 1 MAKILKFVYAM 11 (54)
T ss_pred CccchhhHHHH
Confidence 44444444333
No 286
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=27.64 E-value=79 Score=18.16 Aligned_cols=23 Identities=26% Similarity=0.359 Sum_probs=9.5
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhh
Q 037626 4 LMYSQSRLFTAAIFFFSCILIPL 26 (99)
Q Consensus 4 ~~~~~~~l~~~~~~~~~~~~~~~ 26 (99)
++++.+.+.+....+.....++.
T Consensus 68 ~lf~~~i~~ll~~~~~l~~~is~ 90 (115)
T PF10066_consen 68 LLFYLGILFLLVIIFSLYVRISR 90 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444443333333
No 287
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=27.50 E-value=66 Score=20.26 Aligned_cols=12 Identities=25% Similarity=0.778 Sum_probs=9.6
Q ss_pred CCCcCccCCCCC
Q 037626 87 NQFTCPVCRSFF 98 (99)
Q Consensus 87 ~~~~CP~CR~~~ 98 (99)
++..||+|-.++
T Consensus 153 GRP~CPlCg~Pl 164 (171)
T PF11290_consen 153 GRPPCPLCGEPL 164 (171)
T ss_pred CCCCCCCCCCCC
Confidence 566899998875
No 288
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=27.45 E-value=25 Score=17.52 Aligned_cols=9 Identities=33% Similarity=0.342 Sum_probs=6.6
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
-||.||+..
T Consensus 39 ycp~~~kht 47 (53)
T PRK00595 39 YDPVLRKHV 47 (53)
T ss_pred cCCCCCCEE
Confidence 588888754
No 289
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=27.28 E-value=41 Score=16.59 Aligned_cols=11 Identities=36% Similarity=0.549 Sum_probs=6.5
Q ss_pred ccccccccccc
Q 037626 50 EICSICLMEFE 60 (99)
Q Consensus 50 ~~C~IC~~~~~ 60 (99)
..|..|-.+++
T Consensus 7 Y~C~~Cg~~~~ 17 (49)
T COG1996 7 YKCARCGREVE 17 (49)
T ss_pred EEhhhcCCeee
Confidence 45666666654
No 290
>PLN00209 ribosomal protein S27; Provisional
Probab=26.85 E-value=83 Score=17.47 Aligned_cols=43 Identities=14% Similarity=0.199 Sum_probs=22.7
Q ss_pred HHhcCCCCCCCCCcccccccccccc---cccCCeeeEecCCCCccc
Q 037626 34 YKAMGYQPEAEDSKVEEICSICLME---FEKEDVVSRLTRCCHLFH 76 (99)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~C~IC~~~---~~~~~~~~~l~~C~H~fh 76 (99)
.+.....++....-.+..|+-|... |.....++....||...+
T Consensus 21 hK~k~Lv~~PnS~Fm~VkCp~C~n~q~VFShA~t~V~C~~Cg~~L~ 66 (86)
T PLN00209 21 HKLKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCGSCQTVLC 66 (86)
T ss_pred hhceeeecCCCCEEEEEECCCCCCeeEEEecCceEEEccccCCEee
Confidence 3333444455555556678888765 333444444445665543
No 291
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=26.83 E-value=28 Score=20.31 Aligned_cols=18 Identities=33% Similarity=0.658 Sum_probs=11.3
Q ss_pred eeEecCCCCcccHHHHHHHH
Q 037626 65 VSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 65 ~~~l~~C~H~fh~~Ci~~w~ 84 (99)
+.+. .|||.|+. --++|.
T Consensus 24 ~vkc-~CGh~f~d-~r~NwK 41 (112)
T PF08882_consen 24 VVKC-DCGHEFCD-ARENWK 41 (112)
T ss_pred eeec-cCCCeecC-hhcChh
Confidence 4455 69999984 334453
No 292
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=26.67 E-value=1.8e+02 Score=20.96 Aligned_cols=23 Identities=26% Similarity=0.387 Sum_probs=11.8
Q ss_pred cccccccccccCCeeeEecCCCCcc
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLF 75 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~f 75 (99)
.|+-|-.-.. ++. ...+.|||.-
T Consensus 223 ~C~~Cd~l~~-~~~-a~CpRC~~~L 245 (419)
T PRK15103 223 SCSCCTAILP-ADQ-PVCPRCHTKG 245 (419)
T ss_pred cCCCCCCCCC-CCC-CCCCCCCCcC
Confidence 3777765432 221 2455677654
No 293
>TIGR01023 rpmG_bact ribosomal protein L33, bacterial type. This model describes bacterial ribosomal protein L33 and its chloroplast and mitochondrial equivalents.
Probab=26.45 E-value=27 Score=17.49 Aligned_cols=9 Identities=56% Similarity=1.364 Sum_probs=6.7
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
-||.||+..
T Consensus 40 ycp~~~kht 48 (54)
T TIGR01023 40 YCPVCRKHV 48 (54)
T ss_pred cCCCCCCeE
Confidence 589998754
No 294
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=26.44 E-value=30 Score=26.82 Aligned_cols=29 Identities=28% Similarity=0.655 Sum_probs=16.7
Q ss_pred ecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 68 LTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 68 l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
.+.|.-.||.+=.+--.. ++..||.||.+
T Consensus 1047 Cp~C~~~F~~eDFEl~vL-qKGHCPFCrTS 1075 (1081)
T KOG1538|consen 1047 CPSCFQMFHSEDFELLVL-QKGHCPFCRTS 1075 (1081)
T ss_pred CchHHhhhccchhhHHHH-hcCCCCccccc
Confidence 345555666554443333 33379999975
No 295
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=26.15 E-value=73 Score=20.15 Aligned_cols=13 Identities=23% Similarity=0.695 Sum_probs=9.9
Q ss_pred cCCCcCccCCCCC
Q 037626 86 CNQFTCPVCRSFF 98 (99)
Q Consensus 86 ~~~~~CP~CR~~~ 98 (99)
.++..||+|-.++
T Consensus 154 AGRP~CPlCg~Pl 166 (177)
T TIGR03847 154 AGRPPCPLCGRPI 166 (177)
T ss_pred CCCCCCCCCCCCC
Confidence 3666899998765
No 296
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.04 E-value=30 Score=19.45 Aligned_cols=24 Identities=29% Similarity=0.735 Sum_probs=14.2
Q ss_pred CCCCcccHHHHHHHHhcCCCcCccCCCCC
Q 037626 70 RCCHLFHADCIERWLDCNQFTCPVCRSFF 98 (99)
Q Consensus 70 ~C~H~fh~~Ci~~w~~~~~~~CP~CR~~~ 98 (99)
+||-.|-.+= ++ ..+.||.|+..+
T Consensus 63 kCGfef~~~~----ik-~pSRCP~CKSE~ 86 (97)
T COG3357 63 KCGFEFRDDK----IK-KPSRCPKCKSEW 86 (97)
T ss_pred ccCccccccc----cC-CcccCCcchhhc
Confidence 6777774421 12 234799998764
No 297
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=25.93 E-value=1e+02 Score=21.21 Aligned_cols=15 Identities=20% Similarity=0.390 Sum_probs=5.7
Q ss_pred HHHHHHHhhhhhhhH
Q 037626 16 IFFFSCILIPLLETK 30 (99)
Q Consensus 16 ~~~~~~~~~~~~~~~ 30 (99)
+++..+|+..+++.|
T Consensus 268 IVLIMvIIYLILRYR 282 (299)
T PF02009_consen 268 IVLIMVIIYLILRYR 282 (299)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333334433
No 298
>CHL00104 rpl33 ribosomal protein L33
Probab=25.84 E-value=30 Score=18.17 Aligned_cols=9 Identities=33% Similarity=0.862 Sum_probs=6.8
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
-||.||...
T Consensus 51 ycp~c~kHt 59 (66)
T CHL00104 51 FCPYCYKHT 59 (66)
T ss_pred cCCCCCCEe
Confidence 599998754
No 299
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=25.45 E-value=84 Score=20.74 Aligned_cols=22 Identities=36% Similarity=0.833 Sum_probs=13.7
Q ss_pred CCC---cccHHHHHHHHhcCCCcCccCCC
Q 037626 71 CCH---LFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 71 C~H---~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
||| +|-..=+..-+. .||.||+
T Consensus 173 CgHC~~tFLfnt~tnaLA----rCPHCrK 197 (275)
T KOG4684|consen 173 CGHCNETFLFNTLTNALA----RCPHCRK 197 (275)
T ss_pred ecCccceeehhhHHHHHh----cCCcccc
Confidence 776 465444444333 7999986
No 300
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=25.40 E-value=1.6e+02 Score=17.64 Aligned_cols=23 Identities=13% Similarity=0.182 Sum_probs=8.0
Q ss_pred HHHHhhhhhhhHHHHHHhcCCCC
Q 037626 19 FSCILIPLLETKRAIYKAMGYQP 41 (99)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~ 41 (99)
...+.+...+.|+...+...++.
T Consensus 58 ~~gImlsyvRSKK~E~s~DPyh~ 80 (129)
T PF02060_consen 58 TVGIMLSYVRSKKREHSHDPYHQ 80 (129)
T ss_dssp HHHHHHHHHHHHHH-----TTTT
T ss_pred HHHHHHHHHHHhhhccccChHHH
Confidence 33344444444554444444443
No 301
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=25.39 E-value=44 Score=25.87 Aligned_cols=38 Identities=24% Similarity=0.482 Sum_probs=24.3
Q ss_pred CcccccccccccccccCC-eeeEec-----CCCCcccHHHHHHH
Q 037626 46 SKVEEICSICLMEFEKED-VVSRLT-----RCCHLFHADCIERW 83 (99)
Q Consensus 46 ~~~~~~C~IC~~~~~~~~-~~~~l~-----~C~H~fh~~Ci~~w 83 (99)
+.-...|-||.|.=++.+ .....+ .|...||-.|.++.
T Consensus 114 dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~ 157 (900)
T KOG0956|consen 114 DRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRA 157 (900)
T ss_pred hhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhh
Confidence 344567999999854432 111222 46678999999875
No 302
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=25.17 E-value=76 Score=13.81 Aligned_cols=22 Identities=32% Similarity=0.472 Sum_probs=11.0
Q ss_pred CchhhhHHHHHHHHHHHHHHHH
Q 037626 1 MISLMYSQSRLFTAAIFFFSCI 22 (99)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~~ 22 (99)
|=++.|.+..+....++++...
T Consensus 1 MEa~vY~~ll~~tlgilffAI~ 22 (29)
T PF01405_consen 1 MEALVYTFLLIGTLGILFFAIF 22 (29)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH
T ss_pred CchhHHHHHHHHHHHHHHhhhh
Confidence 3345565555555555555443
No 303
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.91 E-value=1e+02 Score=21.97 Aligned_cols=50 Identities=14% Similarity=0.227 Sum_probs=32.8
Q ss_pred CCcccccccccccccccC-------------------------CeeeEecCCCCcccHHHHHHHHhcCCCcCccC
Q 037626 45 DSKVEEICSICLMEFEKE-------------------------DVVSRLTRCCHLFHADCIERWLDCNQFTCPVC 94 (99)
Q Consensus 45 ~~~~~~~C~IC~~~~~~~-------------------------~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~C 94 (99)
..+.+..|++|.+.+.+- +....+.+=||++...-+.+|-+.+...||.=
T Consensus 300 ~~~~~~~CpvC~~~f~~ia~~LPfah~~~S~Lvc~isge~md~~N~P~lfpnG~Vyg~~~L~s~~~~~~i~dP~~ 374 (389)
T KOG0396|consen 300 SDNNPNNCPVCCEAFKPIAQALPFAHHAQSRLVCSISGELMDDDNPPHLFPNGYVYGTKALESLNEDDGIGDPRT 374 (389)
T ss_pred cCCCCCCCCCcccccchhhhcCCchhhhhhHHHhhccccccCCCCCcccccCceeehhHHHHhhcccCCCcCCCC
Confidence 334444799999887531 11223445789999999999977554567764
No 304
>KOG3475 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=24.85 E-value=36 Score=18.81 Aligned_cols=25 Identities=24% Similarity=0.456 Sum_probs=17.9
Q ss_pred CCcccHHHHHHHHhcCCCcCccCCC
Q 037626 72 CHLFHADCIERWLDCNQFTCPVCRS 96 (99)
Q Consensus 72 ~H~fh~~Ci~~w~~~~~~~CP~CR~ 96 (99)
.|..|..|-.+-+..++.+|..|--
T Consensus 15 shtlC~RCG~~syH~QKstC~~CGY 39 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQKSTCSSCGY 39 (92)
T ss_pred chHHHHHhCchhhhhhcccccccCC
Confidence 4778888887766655558888743
No 305
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=24.84 E-value=1.5e+02 Score=17.01 Aligned_cols=8 Identities=13% Similarity=0.260 Sum_probs=3.7
Q ss_pred ccHHHHHH
Q 037626 75 FHADCIER 82 (99)
Q Consensus 75 fh~~Ci~~ 82 (99)
|.+.-+.+
T Consensus 89 ~~r~aI~~ 96 (106)
T PRK05585 89 IQKSAIAA 96 (106)
T ss_pred EEhHHhhh
Confidence 44444444
No 306
>PHA03030 hypothetical protein; Provisional
Probab=24.69 E-value=79 Score=18.21 Aligned_cols=18 Identities=22% Similarity=0.296 Sum_probs=8.1
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 037626 4 LMYSQSRLFTAAIFFFSC 21 (99)
Q Consensus 4 ~~~~~~~l~~~~~~~~~~ 21 (99)
++|...++++++++|++.
T Consensus 4 i~~ili~lfifl~iffYI 21 (122)
T PHA03030 4 IFLILIFLFIFLFIFFYI 21 (122)
T ss_pred ehHHHHHHHHHHHHHHHh
Confidence 344444444444444443
No 307
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.60 E-value=33 Score=18.33 Aligned_cols=6 Identities=33% Similarity=0.932 Sum_probs=5.2
Q ss_pred CCCCcc
Q 037626 70 RCCHLF 75 (99)
Q Consensus 70 ~C~H~f 75 (99)
.|||.|
T Consensus 34 eCg~tF 39 (72)
T PRK09678 34 NCSATF 39 (72)
T ss_pred CCCCEE
Confidence 799988
No 308
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=24.50 E-value=1.9e+02 Score=19.08 Aligned_cols=9 Identities=0% Similarity=0.143 Sum_probs=3.6
Q ss_pred hhHHHHHHH
Q 037626 5 MYSQSRLFT 13 (99)
Q Consensus 5 ~~~~~~l~~ 13 (99)
++|+.++++
T Consensus 43 lWyfviilv 51 (243)
T PF15468_consen 43 LWYFVIILV 51 (243)
T ss_pred HHHHHHHHH
Confidence 344444333
No 309
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=24.50 E-value=53 Score=19.65 Aligned_cols=9 Identities=33% Similarity=0.862 Sum_probs=6.3
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
.||.|+.-+
T Consensus 112 ~C~~C~tGi 120 (128)
T PF11682_consen 112 YCPKCGTGI 120 (128)
T ss_pred ecCCCCCcc
Confidence 688887643
No 310
>PHA02942 putative transposase; Provisional
Probab=24.49 E-value=78 Score=22.41 Aligned_cols=33 Identities=15% Similarity=0.170 Sum_probs=22.1
Q ss_pred cccccccccccccc-CCeeeEecCCCCcccHHHH
Q 037626 48 VEEICSICLMEFEK-EDVVSRLTRCCHLFHADCI 80 (99)
Q Consensus 48 ~~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci 80 (99)
....|+.|-..... .+..-..+.|||..|.+=.
T Consensus 324 TSq~Cs~CG~~~~~l~~r~f~C~~CG~~~drD~n 357 (383)
T PHA02942 324 SSVSCPKCGHKMVEIAHRYFHCPSCGYENDRDVI 357 (383)
T ss_pred CCccCCCCCCccCcCCCCEEECCCCCCEeCcHHH
Confidence 44679999876532 2334456689999887754
No 311
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=24.43 E-value=39 Score=19.05 Aligned_cols=46 Identities=26% Similarity=0.539 Sum_probs=11.0
Q ss_pred ccccccccccccCCe-eeEecCCCCcccHHHHHHHHhc---CCCcCccCCCC
Q 037626 50 EICSICLMEFEKEDV-VSRLTRCCHLFHADCIERWLDC---NQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~w~~~---~~~~CP~CR~~ 97 (99)
+.|++|.+.+...+. .... .=||.|- .|....+.- +-..|++|...
T Consensus 15 E~C~~C~~~i~~~~~~~~~C-~~GH~w~-RC~lT~l~i~~~~~r~C~~C~~~ 64 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQC-ENGHVWP-RCALTFLPIQTPGVRVCPVCGRR 64 (99)
T ss_dssp --------------SSEEE--TTS-EEE-B-SSS-SBS-SS-EEE-TTT--E
T ss_pred ccccccccccccCCcCEeEC-CCCCEEe-eeeeeeeeeccCCeeEcCCCCCE
Confidence 679999998764432 2222 2378874 444333321 22368888754
No 312
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=24.13 E-value=52 Score=19.70 Aligned_cols=28 Identities=14% Similarity=0.122 Sum_probs=15.4
Q ss_pred ccccccccccc-CCeeeEecCCCCcccHH
Q 037626 51 ICSICLMEFEK-EDVVSRLTRCCHLFHAD 78 (99)
Q Consensus 51 ~C~IC~~~~~~-~~~~~~l~~C~H~fh~~ 78 (99)
.|+-|-..|-. .....+.|.||..|...
T Consensus 11 ~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 11 ICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cCCCcCccccccCCCCccCCCcCCccCcc
Confidence 47777666542 12234556677666544
No 313
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=23.89 E-value=28 Score=20.08 Aligned_cols=28 Identities=18% Similarity=0.375 Sum_probs=14.5
Q ss_pred ccccccccccc-CCeeeEecCCCCcccHH
Q 037626 51 ICSICLMEFEK-EDVVSRLTRCCHLFHAD 78 (99)
Q Consensus 51 ~C~IC~~~~~~-~~~~~~l~~C~H~fh~~ 78 (99)
.|+-|-..|-. +...++.|.||..|...
T Consensus 11 ~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 46666665532 11223456666666544
No 314
>smart00714 LITAF Possible membrane-associated motif in LPS-induced tumor necrosis factor alpha factor (LITAF), also known as PIG7, and other animal proteins.
Probab=23.87 E-value=19 Score=18.56 Aligned_cols=8 Identities=50% Similarity=1.398 Sum_probs=6.4
Q ss_pred cCccCCCC
Q 037626 90 TCPVCRSF 97 (99)
Q Consensus 90 ~CP~CR~~ 97 (99)
.||.|++.
T Consensus 54 ~Cp~C~~~ 61 (67)
T smart00714 54 YCPNCGAF 61 (67)
T ss_pred ECCCCCCE
Confidence 69999764
No 315
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=23.84 E-value=34 Score=16.87 Aligned_cols=8 Identities=38% Similarity=1.111 Sum_probs=6.1
Q ss_pred cCccCCCC
Q 037626 90 TCPVCRSF 97 (99)
Q Consensus 90 ~CP~CR~~ 97 (99)
-||.||+.
T Consensus 36 ycp~c~kh 43 (50)
T PRK00504 36 FCPRCNKH 43 (50)
T ss_pred cCCCCCCe
Confidence 58888864
No 316
>smart00355 ZnF_C2H2 zinc finger.
Probab=23.75 E-value=40 Score=12.69 Aligned_cols=8 Identities=38% Similarity=1.153 Sum_probs=4.3
Q ss_pred cCccCCCC
Q 037626 90 TCPVCRSF 97 (99)
Q Consensus 90 ~CP~CR~~ 97 (99)
.|+.|...
T Consensus 2 ~C~~C~~~ 9 (26)
T smart00355 2 RCPECGKV 9 (26)
T ss_pred CCCCCcch
Confidence 46666543
No 317
>PF10601 zf-LITAF-like: LITAF-like zinc ribbon domain; InterPro: IPR006629 Members of this family display a conserved zinc ribbon structure [] with the motif C-XX-C- separated from the more C-terminal HX-C(P)X-C-X4-G-R motif by a variable region of usually 25-30 (hydrophobic) residues. Although it belongs to one of the zinc finger's fold groups (zinc ribbon), this particular domain was first identified in LPS-induced tumour necrosis alpha factor (LITAF) which is produced in mammalian cells after being challenged with lipopolysaccharide (LPS). The hydrophobic region probably inserts into the membrane rather than traversing it. Such an insertion brings together the N- and C-terminal C-XX-C motifs to form a compact Zn2+-binding structure [].
Probab=23.74 E-value=15 Score=19.22 Aligned_cols=14 Identities=21% Similarity=0.574 Sum_probs=9.5
Q ss_pred cccccccccccccc
Q 037626 48 VEEICSICLMEFEK 61 (99)
Q Consensus 48 ~~~~C~IC~~~~~~ 61 (99)
....|+-|......
T Consensus 6 ~~~~CP~C~~~~~T 19 (73)
T PF10601_consen 6 VRIYCPYCQQQVQT 19 (73)
T ss_pred eeeECCCCCCEEEE
Confidence 34568888887543
No 318
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=23.62 E-value=15 Score=15.26 Aligned_cols=7 Identities=43% Similarity=1.250 Sum_probs=3.3
Q ss_pred cCccCCC
Q 037626 90 TCPVCRS 96 (99)
Q Consensus 90 ~CP~CR~ 96 (99)
.||.|-+
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 3555543
No 319
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=23.60 E-value=76 Score=14.90 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=13.1
Q ss_pred ccccccccccCCeeeEecCCCCcccHH
Q 037626 52 CSICLMEFEKEDVVSRLTRCCHLFHAD 78 (99)
Q Consensus 52 C~IC~~~~~~~~~~~~l~~C~H~fh~~ 78 (99)
|..|...- .+-..+.|+|.+|..
T Consensus 2 C~~C~~~~----~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIE----NLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcC----CeEEecCCCCcccCC
Confidence 55565432 144556788888743
No 320
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=23.54 E-value=40 Score=26.55 Aligned_cols=35 Identities=26% Similarity=0.586 Sum_probs=26.1
Q ss_pred ccccccccccccccCCeeeEecCCCCcccHHHHHHHH
Q 037626 48 VEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWL 84 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~ 84 (99)
....|..|.....+- .-+.+.||+.+|..|++.|.
T Consensus 228 ~~~mC~~C~~tlfn~--hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFNI--HWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccce--eEEccccCCeeeecchhhcc
Confidence 345688887765432 33566899999999999995
No 321
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=23.37 E-value=29 Score=17.18 Aligned_cols=9 Identities=56% Similarity=1.279 Sum_probs=6.5
Q ss_pred cCccCCCCC
Q 037626 90 TCPVCRSFF 98 (99)
Q Consensus 90 ~CP~CR~~~ 98 (99)
-||.||+..
T Consensus 36 ycp~~~kht 44 (50)
T COG0267 36 YCPVCRKHT 44 (50)
T ss_pred cCcccccEE
Confidence 588888754
No 322
>PF03660 PHF5: PHF5-like protein; InterPro: IPR005345 Phf5 is a member of a novel murine multigene family that is highly conserved during evolution and belongs to the superfamily of PHD-finger proteins. At least one example, from Mus musculus (Mouse), may act as a chromatin-associated protein []. The Schizosaccharomyces pombe (Fission yeast) ini1 gene is essential, required for splicing []. It is localised in the nucleus, but not detected in the nucleolus and can be complemented by human ini1 []. The proteins of this family contain five CXXC motifs.; PDB: 2K0A_A.
Probab=22.84 E-value=20 Score=20.59 Aligned_cols=20 Identities=20% Similarity=0.253 Sum_probs=6.2
Q ss_pred ccccccccccccccCCeeeE
Q 037626 48 VEEICSICLMEFEKEDVVSR 67 (99)
Q Consensus 48 ~~~~C~IC~~~~~~~~~~~~ 67 (99)
-+..|+||-+...+...+++
T Consensus 26 CdGkCpiCDS~Vrp~~~VrI 45 (106)
T PF03660_consen 26 CDGKCPICDSYVRPCTKVRI 45 (106)
T ss_dssp GTT--TTT-------EE-EE
T ss_pred cCCcccccCCccCCcceEEE
Confidence 35679999877666544443
No 323
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=22.50 E-value=51 Score=20.76 Aligned_cols=32 Identities=19% Similarity=0.486 Sum_probs=17.3
Q ss_pred cccccccccc--CCeeeEecCCCCcccHHHHHHH
Q 037626 52 CSICLMEFEK--EDVVSRLTRCCHLFHADCIERW 83 (99)
Q Consensus 52 C~IC~~~~~~--~~~~~~l~~C~H~fh~~Ci~~w 83 (99)
|..|...-.+ ...++..-.|.-.||..||..-
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~R 35 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPR 35 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCc
Confidence 5566432222 1233344467788888888543
No 324
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=21.84 E-value=80 Score=20.39 Aligned_cols=23 Identities=17% Similarity=0.302 Sum_probs=16.1
Q ss_pred CCCCCcccccccccccccccCCe
Q 037626 42 EAEDSKVEEICSICLMEFEKEDV 64 (99)
Q Consensus 42 ~~~~~~~~~~C~IC~~~~~~~~~ 64 (99)
.-....+++.|.||.++-.+...
T Consensus 59 ~C~~~te~d~C~ICsd~~Rd~~~ 81 (198)
T COG0353 59 VCGNLTESDPCDICSDESRDKSQ 81 (198)
T ss_pred ccCCcCCCCcCcCcCCcccCCce
Confidence 34445566689999998877643
No 325
>CHL00031 psbT photosystem II protein T
Probab=21.77 E-value=98 Score=13.87 Aligned_cols=23 Identities=30% Similarity=0.486 Sum_probs=11.4
Q ss_pred CchhhhHHHHHHHHHHHHHHHHh
Q 037626 1 MISLMYSQSRLFTAAIFFFSCIL 23 (99)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~~~ 23 (99)
|=++.|.+..+....++++.+.+
T Consensus 1 MEalvYtfll~~tlgilFFAI~F 23 (33)
T CHL00031 1 MEALVYTFLLVSTLGIIFFAIFF 23 (33)
T ss_pred CchhHHHHHHHHHHHHHHHhhee
Confidence 34555555555554444444433
No 326
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=21.71 E-value=98 Score=25.60 Aligned_cols=27 Identities=22% Similarity=0.386 Sum_probs=22.7
Q ss_pred chhhhHHHHHHHHHHHHHHHHhhhhhh
Q 037626 2 ISLMYSQSRLFTAAIFFFSCILIPLLE 28 (99)
Q Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~~~~~ 28 (99)
.|.+|+.++++++-+++.+++..-+.+
T Consensus 1656 ~sp~yfvsfvltaqfvlvnvvvavlmk 1682 (1956)
T KOG2302|consen 1656 VSPLYFVSFVLTAQFVLVNVVVAVLMK 1682 (1956)
T ss_pred ccchhhhhhhhhhhhHHHHHHHHHHHH
Confidence 578999999999999998887776665
No 327
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=21.69 E-value=35 Score=28.62 Aligned_cols=19 Identities=32% Similarity=0.677 Sum_probs=15.3
Q ss_pred EecCCCCcccHHHHHHHHh
Q 037626 67 RLTRCCHLFHADCIERWLD 85 (99)
Q Consensus 67 ~l~~C~H~fh~~Ci~~w~~ 85 (99)
+...|||.||.+|++...-
T Consensus 877 R~~~C~Hsl~rD~L~ffgf 895 (1598)
T KOG0230|consen 877 RVASCGHSLHRDCLRFFGF 895 (1598)
T ss_pred cccCCcchhhhhhhhhccc
Confidence 3446999999999988754
No 328
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=21.31 E-value=37 Score=17.18 Aligned_cols=8 Identities=38% Similarity=1.032 Sum_probs=5.5
Q ss_pred cccccccc
Q 037626 51 ICSICLME 58 (99)
Q Consensus 51 ~C~IC~~~ 58 (99)
.||+|...
T Consensus 6 ~CP~CgnK 13 (55)
T PF14205_consen 6 LCPICGNK 13 (55)
T ss_pred ECCCCCCc
Confidence 48888755
No 329
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=21.30 E-value=8.1 Score=27.75 Aligned_cols=25 Identities=20% Similarity=0.433 Sum_probs=12.9
Q ss_pred cccccccccccCCeeeEecCCCCcccHHH
Q 037626 51 ICSICLMEFEKEDVVSRLTRCCHLFHADC 79 (99)
Q Consensus 51 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~C 79 (99)
.|..|-+.+.+. ++-.+|-.||-.|
T Consensus 336 kC~~Cg~~I~d~----iLrA~GkayHp~C 360 (468)
T KOG1701|consen 336 KCNKCGEPIMDR----ILRALGKAYHPGC 360 (468)
T ss_pred HHhhhhhHHHHH----HHHhcccccCCCc
Confidence 466666555443 3334555555444
No 330
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=21.15 E-value=1.5e+02 Score=18.24 Aligned_cols=22 Identities=41% Similarity=0.850 Sum_probs=14.7
Q ss_pred CCCcccHHHHHHHHh----------cCCCcCccCCCC
Q 037626 71 CCHLFHADCIERWLD----------CNQFTCPVCRSF 97 (99)
Q Consensus 71 C~H~fh~~Ci~~w~~----------~~~~~CP~CR~~ 97 (99)
+||.| +.|+. .+..+||+|-..
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 57887 45664 244589999653
No 331
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=21.12 E-value=99 Score=13.65 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=11.0
Q ss_pred CchhhhHHHHHHHHHHHHHHHH
Q 037626 1 MISLMYSQSRLFTAAIFFFSCI 22 (99)
Q Consensus 1 ~~~~~~~~~~l~~~~~~~~~~~ 22 (99)
|=++.|.+.......++++.+.
T Consensus 1 MEal~Ytfll~~tlgiiFFAIf 22 (31)
T PRK11875 1 MESFAYILILTLALVTLFFAIA 22 (31)
T ss_pred ChhHHHHHHHHHHHHHHHHhhh
Confidence 3455555555555444444443
No 332
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=20.97 E-value=36 Score=28.39 Aligned_cols=49 Identities=27% Similarity=0.659 Sum_probs=34.2
Q ss_pred cccccccccccccccCCeeeEecCCCCcccHHHHHHHHhcC---CCcCccCCC
Q 037626 47 KVEEICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCN---QFTCPVCRS 96 (99)
Q Consensus 47 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~---~~~CP~CR~ 96 (99)
.....|.+|....+..+.+ ....|.-.||..|++.-+..- .=.||-||.
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~-lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~ 1157 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKML-LCDECLSGFHLFCLRPALSSVPPGDWMCPSCRK 1157 (1404)
T ss_pred cchhhhhhhhhcccchhhh-hhHhhhhhHHHHhhhhhhccCCcCCccCCccch
Confidence 3445699999987664333 233577789999999877642 226999985
No 333
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=20.97 E-value=1.1e+02 Score=20.83 Aligned_cols=9 Identities=22% Similarity=0.526 Sum_probs=4.6
Q ss_pred ccccccccc
Q 037626 51 ICSICLMEF 59 (99)
Q Consensus 51 ~C~IC~~~~ 59 (99)
.|+-|.+.+
T Consensus 29 ~c~~c~~~~ 37 (292)
T PRK05654 29 KCPSCGQVL 37 (292)
T ss_pred ECCCccchh
Confidence 455555543
No 334
>PF15616 TerY-C: TerY-C metal binding domain
Probab=20.66 E-value=31 Score=20.73 Aligned_cols=37 Identities=27% Similarity=0.505 Sum_probs=25.1
Q ss_pred ccccccccccccCCeeeEecCCCCcccHHHHHHHHhcCCCcCccCCCC
Q 037626 50 EICSICLMEFEKEDVVSRLTRCCHLFHADCIERWLDCNQFTCPVCRSF 97 (99)
Q Consensus 50 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w~~~~~~~CP~CR~~ 97 (99)
..||=|-..+.-. .. .||++||.+= ....+||-|.+.
T Consensus 78 PgCP~CGn~~~fa----~C-~CGkl~Ci~g------~~~~~CPwCg~~ 114 (131)
T PF15616_consen 78 PGCPHCGNQYAFA----VC-GCGKLFCIDG------EGEVTCPWCGNE 114 (131)
T ss_pred CCCCCCcChhcEE----Ee-cCCCEEEeCC------CCCEECCCCCCe
Confidence 5699998875433 45 6999998432 234589999764
Done!