Query 036238
Match_columns 106
No_of_seqs 221 out of 1258
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 10:48:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036238.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036238hhsearch_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 1.1E-19 2.4E-24 94.6 2.1 44 44-88 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.8 9.8E-19 2.1E-23 124.3 4.9 49 44-93 230-279 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.6 1.6E-16 3.4E-21 91.0 4.1 45 43-88 19-73 (73)
4 PHA02929 N1R/p28-like protein; 99.6 3.7E-16 7.9E-21 106.9 3.7 56 41-96 172-231 (238)
5 COG5243 HRD1 HRD ubiquitin lig 99.6 2E-15 4.4E-20 107.7 5.9 54 40-94 284-347 (491)
6 COG5540 RING-finger-containing 99.6 1.5E-15 3.3E-20 105.8 3.6 52 41-93 321-373 (374)
7 KOG0317 Predicted E3 ubiquitin 99.6 9.9E-15 2.1E-19 101.0 6.4 51 41-95 237-287 (293)
8 PF12861 zf-Apc11: Anaphase-pr 99.5 5E-15 1.1E-19 86.1 3.3 54 41-94 19-84 (85)
9 PLN03208 E3 ubiquitin-protein 99.5 3.3E-14 7.3E-19 94.1 4.7 53 37-93 12-80 (193)
10 PF13920 zf-C3HC4_3: Zinc fing 99.4 7.2E-14 1.6E-18 74.4 3.1 46 43-92 2-48 (50)
11 PHA02926 zinc finger-like prot 99.4 6.9E-14 1.5E-18 94.0 3.3 59 40-98 167-236 (242)
12 PF13923 zf-C3HC4_2: Zinc fing 99.4 1.4E-13 3E-18 69.7 2.7 39 46-87 1-39 (39)
13 cd00162 RING RING-finger (Real 99.4 3E-13 6.6E-18 69.5 3.4 44 45-91 1-45 (45)
14 KOG0802 E3 ubiquitin ligase [P 99.4 4.2E-13 9.2E-18 101.4 3.3 52 40-92 288-341 (543)
15 KOG1734 Predicted RING-contain 99.3 8.4E-13 1.8E-17 90.9 4.1 85 3-93 179-282 (328)
16 KOG0823 Predicted E3 ubiquitin 99.3 1.2E-12 2.5E-17 88.4 4.5 51 40-94 44-97 (230)
17 KOG0320 Predicted E3 ubiquitin 99.3 1.7E-12 3.6E-17 84.6 3.4 53 41-95 129-181 (187)
18 PF15227 zf-C3HC4_4: zinc fing 99.3 1.6E-12 3.6E-17 66.7 2.7 38 46-87 1-42 (42)
19 PF14634 zf-RING_5: zinc-RING 99.3 2.5E-12 5.5E-17 66.7 3.1 44 45-89 1-44 (44)
20 COG5194 APC11 Component of SCF 99.3 2E-12 4.3E-17 73.8 2.4 51 44-94 21-83 (88)
21 PF00097 zf-C3HC4: Zinc finger 99.2 5.3E-12 1.1E-16 64.4 2.3 39 46-87 1-41 (41)
22 smart00504 Ubox Modified RING 99.2 1.2E-11 2.6E-16 68.4 3.7 48 44-95 2-49 (63)
23 TIGR00599 rad18 DNA repair pro 99.2 1.2E-11 2.6E-16 90.1 2.5 58 38-99 21-78 (397)
24 smart00184 RING Ring finger. E 99.2 3.5E-11 7.5E-16 59.7 3.1 38 46-87 1-39 (39)
25 KOG1493 Anaphase-promoting com 99.1 6.1E-12 1.3E-16 71.2 -0.2 52 42-93 19-82 (84)
26 KOG2930 SCF ubiquitin ligase, 99.1 4E-11 8.7E-16 71.6 1.8 53 42-94 45-110 (114)
27 KOG0828 Predicted E3 ubiquitin 99.1 9.2E-11 2E-15 86.6 2.8 53 40-93 568-635 (636)
28 COG5574 PEX10 RING-finger-cont 99.0 4.3E-10 9.3E-15 77.3 3.2 50 41-94 213-264 (271)
29 KOG0287 Postreplication repair 98.9 2.2E-10 4.8E-15 81.4 0.5 57 40-100 20-76 (442)
30 PF13445 zf-RING_UBOX: RING-ty 98.9 1.2E-09 2.7E-14 56.2 2.3 34 46-81 1-35 (43)
31 smart00744 RINGv The RING-vari 98.9 2.4E-09 5.2E-14 56.6 2.8 42 45-88 1-49 (49)
32 PF04564 U-box: U-box domain; 98.8 2.9E-09 6.4E-14 60.8 2.5 52 42-97 3-55 (73)
33 KOG2164 Predicted E3 ubiquitin 98.8 2.9E-09 6.3E-14 78.9 2.4 48 43-94 186-238 (513)
34 COG5432 RAD18 RING-finger-cont 98.8 2.4E-09 5.1E-14 74.9 1.8 55 40-98 22-76 (391)
35 TIGR00570 cdk7 CDK-activating 98.8 5.8E-09 1.3E-13 73.8 3.6 55 42-97 2-59 (309)
36 PF11793 FANCL_C: FANCL C-term 98.7 1.5E-09 3.2E-14 61.6 -0.3 50 43-92 2-66 (70)
37 COG5219 Uncharacterized conser 98.7 4.4E-09 9.6E-14 82.8 1.9 55 39-93 1465-1524(1525)
38 KOG0804 Cytoplasmic Zn-finger 98.7 1.2E-08 2.5E-13 74.8 2.8 54 36-92 168-222 (493)
39 KOG4265 Predicted E3 ubiquitin 98.7 2.5E-08 5.5E-13 71.2 4.0 50 40-93 287-337 (349)
40 KOG2177 Predicted E3 ubiquitin 98.6 9.9E-09 2.2E-13 70.8 1.5 47 39-89 9-55 (386)
41 KOG4172 Predicted E3 ubiquitin 98.6 5.7E-09 1.2E-13 55.6 -0.3 46 44-93 8-55 (62)
42 KOG1039 Predicted E3 ubiquitin 98.6 2.8E-08 6.1E-13 71.5 2.9 57 41-97 159-226 (344)
43 PF14835 zf-RING_6: zf-RING of 98.6 5.7E-09 1.2E-13 57.6 -1.0 53 42-99 6-58 (65)
44 KOG0824 Predicted E3 ubiquitin 98.5 4.2E-08 9.1E-13 68.8 2.5 51 41-95 5-56 (324)
45 KOG0827 Predicted E3 ubiquitin 98.5 3.1E-08 6.8E-13 71.6 1.9 49 44-92 5-56 (465)
46 KOG1645 RING-finger-containing 98.4 3E-07 6.5E-12 66.9 3.1 49 42-90 3-54 (463)
47 KOG0311 Predicted E3 ubiquitin 98.3 6E-08 1.3E-12 69.3 -0.8 53 40-95 40-93 (381)
48 KOG0825 PHD Zn-finger protein 98.2 2.4E-07 5.2E-12 72.1 -0.2 52 45-97 125-176 (1134)
49 KOG0978 E3 ubiquitin ligase in 98.1 8.7E-07 1.9E-11 68.5 1.0 50 42-95 642-692 (698)
50 KOG4159 Predicted E3 ubiquitin 98.1 1.8E-06 3.9E-11 63.3 2.4 49 41-93 82-130 (398)
51 KOG1785 Tyrosine kinase negati 98.0 2.1E-06 4.5E-11 62.7 1.3 45 45-93 371-417 (563)
52 KOG0297 TNF receptor-associate 98.0 3.5E-06 7.5E-11 61.9 2.2 51 40-93 18-68 (391)
53 KOG1941 Acetylcholine receptor 98.0 1.8E-06 3.9E-11 62.8 0.7 48 41-89 363-413 (518)
54 KOG2879 Predicted E3 ubiquitin 98.0 3.9E-05 8.5E-10 53.5 7.2 55 38-95 234-290 (298)
55 KOG4445 Uncharacterized conser 98.0 2.9E-06 6.2E-11 59.8 1.4 53 42-95 114-189 (368)
56 PF11789 zf-Nse: Zinc-finger o 97.9 6.1E-06 1.3E-10 44.9 1.7 43 41-86 9-53 (57)
57 PF12906 RINGv: RING-variant d 97.7 3.6E-05 7.7E-10 40.2 2.4 40 46-87 1-47 (47)
58 PF14570 zf-RING_4: RING/Ubox 97.7 3.9E-05 8.4E-10 40.2 2.4 45 46-91 1-47 (48)
59 COG5152 Uncharacterized conser 97.6 2.9E-05 6.2E-10 52.0 1.9 47 42-92 195-241 (259)
60 PF05883 Baculo_RING: Baculovi 97.6 3.6E-05 7.9E-10 48.5 2.0 37 43-80 26-68 (134)
61 KOG3970 Predicted E3 ubiquitin 97.6 4.6E-05 9.9E-10 52.0 2.3 52 42-95 49-108 (299)
62 KOG1002 Nucleotide excision re 97.6 0.00011 2.3E-09 55.8 4.2 57 39-99 532-593 (791)
63 KOG1428 Inhibitor of type V ad 97.6 5.3E-05 1.1E-09 63.0 2.6 54 40-94 3483-3546(3738)
64 KOG2660 Locus-specific chromos 97.5 2.7E-05 5.9E-10 55.4 0.5 56 39-97 11-66 (331)
65 PHA03096 p28-like protein; Pro 97.5 5.4E-05 1.2E-09 53.5 1.8 46 44-89 179-231 (284)
66 PHA02862 5L protein; Provision 97.5 8.6E-05 1.9E-09 47.3 2.5 46 43-93 2-54 (156)
67 KOG4692 Predicted E3 ubiquitin 97.5 9.7E-05 2.1E-09 53.4 2.9 55 35-93 414-468 (489)
68 KOG1952 Transcription factor N 97.5 6.1E-05 1.3E-09 59.4 1.9 49 41-89 189-244 (950)
69 PHA02825 LAP/PHD finger-like p 97.5 0.00012 2.7E-09 47.3 3.0 51 40-94 5-61 (162)
70 PF10367 Vps39_2: Vacuolar sor 97.4 4.7E-05 1E-09 45.8 0.9 35 39-75 74-108 (109)
71 KOG0826 Predicted E3 ubiquitin 97.4 0.00042 9.2E-09 49.6 5.3 52 37-91 294-345 (357)
72 KOG1814 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 54.1 2.3 47 42-89 183-237 (445)
73 KOG1813 Predicted E3 ubiquitin 97.4 7.9E-05 1.7E-09 52.5 1.6 47 43-93 241-287 (313)
74 KOG3039 Uncharacterized conser 97.4 0.00021 4.5E-09 49.4 3.3 54 42-95 220-273 (303)
75 PF04641 Rtf2: Rtf2 RING-finge 97.2 0.00062 1.3E-08 47.6 4.3 54 40-94 110-163 (260)
76 KOG1571 Predicted E3 ubiquitin 97.1 0.00045 9.8E-09 49.9 2.7 47 39-92 301-347 (355)
77 COG5236 Uncharacterized conser 97.0 0.00093 2E-08 48.4 4.0 51 39-93 57-109 (493)
78 PF14447 Prok-RING_4: Prokaryo 97.0 0.00056 1.2E-08 36.7 2.1 48 43-96 7-54 (55)
79 KOG4739 Uncharacterized protei 97.0 0.00037 8E-09 47.8 1.7 50 45-98 5-54 (233)
80 KOG4185 Predicted E3 ubiquitin 96.9 0.00053 1.1E-08 48.5 2.1 48 43-91 3-54 (296)
81 KOG0801 Predicted E3 ubiquitin 96.8 0.00038 8.3E-09 45.3 0.6 31 40-71 174-204 (205)
82 PF08746 zf-RING-like: RING-li 96.8 0.00061 1.3E-08 34.9 1.0 41 46-87 1-43 (43)
83 KOG4275 Predicted E3 ubiquitin 96.8 0.00036 7.9E-09 49.3 0.1 41 43-91 300-341 (350)
84 KOG3268 Predicted E3 ubiquitin 96.8 0.0014 3E-08 43.4 2.8 32 64-95 189-231 (234)
85 PF14446 Prok-RING_1: Prokaryo 96.7 0.0018 3.9E-08 34.6 2.6 35 42-76 4-38 (54)
86 KOG2114 Vacuolar assembly/sort 96.6 0.001 2.2E-08 52.8 1.7 43 43-91 840-882 (933)
87 COG5175 MOT2 Transcriptional r 96.6 0.0015 3.3E-08 47.2 2.3 56 41-97 12-69 (480)
88 KOG1001 Helicase-like transcri 96.2 0.0018 3.9E-08 50.8 0.8 45 44-93 455-501 (674)
89 KOG2817 Predicted E3 ubiquitin 96.1 0.026 5.6E-07 41.5 6.4 48 41-89 332-382 (394)
90 KOG0827 Predicted E3 ubiquitin 96.1 0.00022 4.7E-09 52.1 -4.1 51 43-94 196-247 (465)
91 KOG1940 Zn-finger protein [Gen 96.1 0.0038 8.2E-08 44.0 2.1 46 43-89 158-204 (276)
92 COG5222 Uncharacterized conser 95.8 0.0052 1.1E-07 43.8 1.8 43 44-89 275-318 (427)
93 KOG2034 Vacuolar sorting prote 95.7 0.0052 1.1E-07 49.1 1.3 38 40-79 814-851 (911)
94 KOG0309 Conserved WD40 repeat- 95.4 0.0098 2.1E-07 47.1 2.1 40 45-86 1030-1069(1081)
95 PF03854 zf-P11: P-11 zinc fin 95.3 0.0056 1.2E-07 31.8 0.2 30 65-94 18-48 (50)
96 PF07800 DUF1644: Protein of u 95.3 0.022 4.8E-07 37.0 3.0 50 43-95 2-94 (162)
97 KOG2932 E3 ubiquitin ligase in 95.0 0.0089 1.9E-07 42.8 0.7 43 45-92 92-134 (389)
98 KOG1609 Protein involved in mR 95.0 0.023 5E-07 40.1 2.9 50 43-93 78-135 (323)
99 KOG1100 Predicted E3 ubiquitin 94.9 0.013 2.9E-07 39.7 1.3 40 46-93 161-201 (207)
100 KOG3002 Zn finger protein [Gen 94.8 0.026 5.7E-07 40.3 2.7 50 38-93 43-92 (299)
101 KOG3053 Uncharacterized conser 94.8 0.022 4.8E-07 39.8 2.2 60 38-98 15-88 (293)
102 KOG4367 Predicted Zn-finger pr 94.6 0.021 4.5E-07 42.9 1.8 36 41-80 2-37 (699)
103 PF05290 Baculo_IE-1: Baculovi 94.4 0.041 9E-07 34.8 2.5 53 42-96 79-136 (140)
104 KOG0298 DEAD box-containing he 94.3 0.015 3.2E-07 48.3 0.5 47 41-90 1151-1197(1394)
105 PF10272 Tmpp129: Putative tra 94.2 0.029 6.2E-07 41.1 1.8 29 65-93 311-352 (358)
106 COG5183 SSM4 Protein involved 94.1 0.045 9.8E-07 43.9 2.8 52 41-94 10-68 (1175)
107 COG5220 TFB3 Cdk activating ki 93.9 0.023 4.9E-07 39.5 0.7 48 42-89 9-61 (314)
108 KOG1812 Predicted E3 ubiquitin 93.3 0.032 7E-07 41.2 0.8 38 42-80 145-183 (384)
109 KOG3161 Predicted E3 ubiquitin 93.3 0.028 6E-07 44.0 0.4 44 42-89 10-54 (861)
110 COG5109 Uncharacterized conser 92.9 0.33 7.1E-06 35.1 5.2 47 41-88 334-383 (396)
111 KOG3800 Predicted E3 ubiquitin 92.9 0.1 2.2E-06 37.0 2.7 48 45-93 2-52 (300)
112 KOG3899 Uncharacterized conser 92.9 0.06 1.3E-06 38.4 1.5 29 65-93 325-366 (381)
113 KOG0825 PHD Zn-finger protein 92.4 0.11 2.4E-06 41.7 2.5 56 40-95 93-157 (1134)
114 KOG0802 E3 ubiquitin ligase [P 92.2 0.11 2.4E-06 40.0 2.2 50 40-97 476-525 (543)
115 KOG0269 WD40 repeat-containing 91.1 0.21 4.6E-06 39.8 2.8 42 43-86 779-820 (839)
116 PF07975 C1_4: TFIIH C1-like d 91.1 0.17 3.7E-06 26.8 1.6 43 46-88 2-50 (51)
117 KOG1815 Predicted E3 ubiquitin 91.1 0.13 2.8E-06 38.6 1.6 38 40-80 67-104 (444)
118 KOG3113 Uncharacterized conser 90.9 0.3 6.5E-06 34.2 3.1 51 42-94 110-160 (293)
119 PF10571 UPF0547: Uncharacteri 90.9 0.12 2.6E-06 23.5 0.8 23 45-69 2-24 (26)
120 KOG4362 Transcriptional regula 89.6 0.089 1.9E-06 41.4 -0.3 49 42-94 20-71 (684)
121 PF02891 zf-MIZ: MIZ/SP-RING z 89.3 0.42 9E-06 25.0 2.2 43 44-90 3-50 (50)
122 PF13901 DUF4206: Domain of un 89.2 0.33 7.2E-06 32.8 2.3 40 43-88 152-196 (202)
123 PF01363 FYVE: FYVE zinc finge 89.2 0.24 5.1E-06 27.3 1.3 38 41-78 7-44 (69)
124 PF14569 zf-UDP: Zinc-binding 89.2 0.57 1.2E-05 26.9 2.8 53 41-93 7-63 (80)
125 KOG4718 Non-SMC (structural ma 89.1 0.38 8.3E-06 32.8 2.4 50 42-94 180-229 (235)
126 KOG1812 Predicted E3 ubiquitin 88.7 0.25 5.5E-06 36.5 1.6 44 43-87 306-351 (384)
127 smart00249 PHD PHD zinc finger 87.7 0.42 9.1E-06 23.5 1.6 30 46-76 2-31 (47)
128 TIGR00622 ssl1 transcription f 87.3 1.2 2.7E-05 27.4 3.7 46 43-88 55-110 (112)
129 PF00628 PHD: PHD-finger; Int 87.2 0.4 8.8E-06 24.7 1.4 43 45-88 1-49 (51)
130 KOG3005 GIY-YIG type nuclease 86.7 0.53 1.2E-05 33.2 2.1 48 44-91 183-242 (276)
131 PLN02189 cellulose synthase 85.2 1.1 2.5E-05 37.1 3.5 53 40-92 31-87 (1040)
132 KOG3579 Predicted E3 ubiquitin 85.0 0.43 9.2E-06 34.1 0.9 37 43-80 268-305 (352)
133 cd00065 FYVE FYVE domain; Zinc 84.6 0.81 1.8E-05 24.1 1.7 37 43-79 2-38 (57)
134 PLN02638 cellulose synthase A 84.5 2 4.3E-05 35.9 4.5 53 40-92 14-70 (1079)
135 smart00132 LIM Zinc-binding do 84.4 1.2 2.6E-05 21.0 2.2 37 46-92 2-38 (39)
136 PLN02436 cellulose synthase A 84.0 1.4 3E-05 36.8 3.5 53 40-92 33-89 (1094)
137 KOG3842 Adaptor protein Pellin 83.7 2 4.3E-05 31.3 3.8 53 41-94 339-416 (429)
138 PF00412 LIM: LIM domain; Int 83.6 1.2 2.5E-05 23.3 2.1 39 46-94 1-39 (58)
139 PF07191 zinc-ribbons_6: zinc- 83.4 0.11 2.4E-06 29.3 -2.0 40 44-92 2-41 (70)
140 KOG2066 Vacuolar assembly/sort 83.1 0.36 7.8E-06 38.7 -0.1 45 41-87 782-830 (846)
141 smart00064 FYVE Protein presen 82.9 1.2 2.7E-05 24.3 2.1 37 43-79 10-46 (68)
142 KOG1829 Uncharacterized conser 82.8 0.41 8.8E-06 37.3 0.1 43 43-89 511-558 (580)
143 PF04710 Pellino: Pellino; In 82.6 0.4 8.6E-06 35.6 0.0 36 58-97 303-344 (416)
144 KOG3039 Uncharacterized conser 81.8 1.5 3.2E-05 30.8 2.5 36 40-79 40-75 (303)
145 PF13719 zinc_ribbon_5: zinc-r 81.6 0.8 1.7E-05 22.3 0.9 26 45-70 4-36 (37)
146 PLN02915 cellulose synthase A 81.3 2.5 5.4E-05 35.3 4.0 53 40-92 12-68 (1044)
147 PF13717 zinc_ribbon_4: zinc-r 81.1 1.2 2.7E-05 21.6 1.5 26 45-70 4-36 (36)
148 PF06844 DUF1244: Protein of u 79.8 1.1 2.5E-05 24.9 1.2 11 69-79 12-22 (68)
149 KOG2068 MOT2 transcription fac 79.1 2.6 5.7E-05 30.6 3.2 50 44-94 250-300 (327)
150 KOG2807 RNA polymerase II tran 78.6 2.8 6E-05 30.6 3.1 48 41-89 328-375 (378)
151 PF04710 Pellino: Pellino; In 78.2 0.68 1.5E-05 34.4 0.0 51 43-94 328-403 (416)
152 PF06906 DUF1272: Protein of u 77.8 6.5 0.00014 21.2 3.7 46 45-95 7-55 (57)
153 smart00647 IBR In Between Ring 76.2 0.82 1.8E-05 24.4 -0.0 21 57-77 38-58 (64)
154 PF02318 FYVE_2: FYVE-type zin 76.0 2.3 4.9E-05 26.2 1.9 46 42-88 53-101 (118)
155 PRK05978 hypothetical protein; 75.0 2.7 5.9E-05 27.1 2.1 31 63-98 37-69 (148)
156 PLN02195 cellulose synthase A 74.6 4.5 9.8E-05 33.6 3.7 51 42-92 5-59 (977)
157 PF11023 DUF2614: Protein of u 74.4 2.8 6E-05 25.8 1.9 18 78-95 82-99 (114)
158 PLN02400 cellulose synthase 74.4 3.1 6.7E-05 34.8 2.7 53 40-92 33-89 (1085)
159 KOG3842 Adaptor protein Pellin 73.3 2.3 4.9E-05 31.0 1.5 47 44-96 291-356 (429)
160 PF06750 DiS_P_DiS: Bacterial 73.0 15 0.00033 21.6 4.8 38 44-94 34-71 (92)
161 PF07649 C1_3: C1-like domain; 71.0 3.9 8.5E-05 18.7 1.6 29 45-74 2-30 (30)
162 KOG2113 Predicted RNA binding 70.7 7 0.00015 28.5 3.5 48 38-91 338-386 (394)
163 KOG0824 Predicted E3 ubiquitin 70.6 2.6 5.7E-05 30.3 1.4 53 41-96 103-155 (324)
164 PF04423 Rad50_zn_hook: Rad50 69.7 1.3 2.9E-05 23.3 -0.2 12 82-93 21-32 (54)
165 COG4357 Zinc finger domain con 68.1 5 0.00011 24.1 2.0 29 65-94 65-93 (105)
166 COG3813 Uncharacterized protei 67.3 4.5 9.9E-05 23.0 1.6 51 46-99 8-59 (84)
167 PF04216 FdhE: Protein involve 67.2 3.8 8.2E-05 29.0 1.6 45 43-90 172-220 (290)
168 KOG2979 Protein involved in DN 66.4 3.9 8.4E-05 28.8 1.5 42 43-87 176-219 (262)
169 PF14311 DUF4379: Domain of un 64.6 4.5 9.9E-05 21.2 1.3 23 64-87 33-55 (55)
170 PF01102 Glycophorin_A: Glycop 64.4 6.8 0.00015 24.5 2.2 23 2-24 74-96 (122)
171 PF07282 OrfB_Zn_ribbon: Putat 63.8 8.4 0.00018 21.0 2.3 32 42-73 27-60 (69)
172 PF10497 zf-4CXXC_R1: Zinc-fin 63.6 9.5 0.00021 23.1 2.7 24 66-89 37-69 (105)
173 PRK11088 rrmA 23S rRNA methylt 63.4 5.1 0.00011 27.9 1.7 25 44-69 3-27 (272)
174 PF13832 zf-HC5HC2H_2: PHD-zin 63.2 4.8 0.0001 24.1 1.4 35 42-77 54-88 (110)
175 PF09723 Zn-ribbon_8: Zinc rib 62.4 1.9 4E-05 21.6 -0.5 25 64-89 10-34 (42)
176 PF08274 PhnA_Zn_Ribbon: PhnA 61.3 5.6 0.00012 18.6 1.1 24 45-68 4-28 (30)
177 KOG3799 Rab3 effector RIM1 and 61.1 2.9 6.3E-05 26.7 0.1 27 38-71 60-86 (169)
178 PF13771 zf-HC5HC2H: PHD-like 60.1 4.3 9.4E-05 23.3 0.7 34 42-76 35-68 (90)
179 PF14169 YdjO: Cold-inducible 57.0 7.7 0.00017 21.1 1.3 14 81-94 39-52 (59)
180 PF10146 zf-C4H2: Zinc finger- 56.1 11 0.00025 26.0 2.3 30 69-98 196-225 (230)
181 COG3492 Uncharacterized protei 55.6 5.9 0.00013 23.5 0.8 13 68-80 42-54 (104)
182 KOG2041 WD40 repeat protein [G 54.7 13 0.00028 30.4 2.7 29 62-94 1159-1187(1189)
183 TIGR00686 phnA alkylphosphonat 54.5 8.7 0.00019 23.5 1.4 26 44-69 3-29 (109)
184 COG5627 MMS21 DNA repair prote 54.4 6.7 0.00014 27.4 1.0 41 43-86 189-231 (275)
185 PRK03564 formate dehydrogenase 53.6 20 0.00043 26.0 3.3 46 42-89 186-234 (309)
186 KOG4451 Uncharacterized conser 51.7 13 0.00028 26.0 2.0 30 69-98 251-280 (286)
187 PF05715 zf-piccolo: Piccolo Z 51.5 14 0.00029 20.2 1.7 12 81-92 2-13 (61)
188 PF09538 FYDLN_acid: Protein o 49.8 16 0.00035 22.3 2.1 11 84-94 29-39 (108)
189 PF06937 EURL: EURL protein; 49.3 17 0.00036 25.9 2.3 17 69-85 57-74 (285)
190 cd04718 BAH_plant_2 BAH, or Br 48.9 7.2 0.00016 25.2 0.4 27 69-95 2-32 (148)
191 cd00729 rubredoxin_SM Rubredox 48.1 12 0.00026 17.8 1.1 8 82-89 19-26 (34)
192 PF06677 Auto_anti-p27: Sjogre 48.0 13 0.00028 18.6 1.2 20 74-93 10-29 (41)
193 PF09943 DUF2175: Uncharacteri 47.9 17 0.00038 21.9 2.0 34 44-79 3-36 (101)
194 PRK01343 zinc-binding protein; 47.6 12 0.00025 20.3 1.1 12 81-92 9-20 (57)
195 smart00734 ZnF_Rad18 Rad18-lik 47.2 10 0.00022 16.9 0.7 10 83-92 3-12 (26)
196 PF03107 C1_2: C1 domain; Int 46.5 12 0.00026 17.1 0.9 28 45-73 2-29 (30)
197 KOG1729 FYVE finger containing 45.7 5.6 0.00012 28.5 -0.4 37 44-81 215-251 (288)
198 KOG3726 Uncharacterized conser 45.7 8.4 0.00018 30.8 0.5 59 43-105 654-715 (717)
199 PF04277 OAD_gamma: Oxaloaceta 45.3 54 0.0012 18.2 4.2 17 2-18 16-32 (79)
200 KOG1818 Membrane trafficking a 44.6 12 0.00027 29.7 1.2 43 37-79 159-201 (634)
201 PF09889 DUF2116: Uncharacteri 43.4 17 0.00038 19.7 1.4 15 80-94 2-16 (59)
202 KOG2231 Predicted E3 ubiquitin 41.9 31 0.00067 27.7 3.0 47 45-95 2-55 (669)
203 KOG1819 FYVE finger-containing 41.6 12 0.00025 29.3 0.7 34 42-75 900-933 (990)
204 PRK10220 hypothetical protein; 41.5 22 0.00047 21.8 1.7 11 44-54 4-14 (111)
205 PRK00418 DNA gyrase inhibitor; 41.4 14 0.00031 20.3 0.8 11 82-92 7-17 (62)
206 KOG1538 Uncharacterized conser 41.1 13 0.00028 30.1 0.9 34 59-92 1044-1077(1081)
207 COG4647 AcxC Acetone carboxyla 41.0 17 0.00037 23.1 1.2 22 46-71 60-81 (165)
208 COG1545 Predicted nucleic-acid 40.9 16 0.00034 23.2 1.1 22 62-91 32-53 (140)
209 COG1645 Uncharacterized Zn-fin 39.7 20 0.00043 22.7 1.4 25 43-67 28-52 (131)
210 PF15353 HECA: Headcase protei 39.4 19 0.00041 22.0 1.2 15 65-79 40-54 (107)
211 COG4847 Uncharacterized protei 39.3 39 0.00085 20.2 2.5 36 43-80 6-41 (103)
212 COG0675 Transposase and inacti 39.0 26 0.00057 24.5 2.1 31 40-73 306-336 (364)
213 PLN02248 cellulose synthase-li 39.0 34 0.00075 29.2 3.0 29 64-92 149-177 (1135)
214 cd00350 rubredoxin_like Rubred 38.8 22 0.00047 16.6 1.2 9 81-89 17-25 (33)
215 PF06679 DUF1180: Protein of u 38.4 49 0.0011 21.7 3.1 18 3-20 105-122 (163)
216 PF01485 IBR: IBR domain; Int 37.6 3.5 7.7E-05 21.8 -2.0 33 45-77 20-58 (64)
217 COG2835 Uncharacterized conser 37.1 16 0.00035 19.9 0.6 11 83-93 10-20 (60)
218 KOG2071 mRNA cleavage and poly 37.0 17 0.00037 28.6 0.9 37 41-78 511-557 (579)
219 PF12669 P12: Virus attachment 36.8 59 0.0013 17.4 2.8 12 2-13 3-14 (58)
220 COG3809 Uncharacterized protei 36.7 13 0.00029 21.4 0.3 10 45-54 3-12 (88)
221 PF03966 Trm112p: Trm112p-like 36.3 33 0.00071 18.7 1.8 9 61-69 55-63 (68)
222 smart00531 TFIIE Transcription 36.2 35 0.00075 21.7 2.2 14 82-95 124-137 (147)
223 TIGR02300 FYDLN_acid conserved 35.7 36 0.00077 21.5 2.1 9 84-92 29-37 (129)
224 smart00834 CxxC_CXXC_SSSS Puta 35.0 12 0.00026 18.0 -0.1 11 81-91 26-36 (41)
225 PF10083 DUF2321: Uncharacteri 34.9 22 0.00048 23.2 1.1 44 48-94 9-52 (158)
226 PRK00420 hypothetical protein; 34.8 32 0.0007 21.1 1.8 11 44-54 24-34 (112)
227 PF02699 YajC: Preprotein tran 34.7 29 0.00062 19.9 1.5 9 4-12 10-18 (82)
228 PF06676 DUF1178: Protein of u 34.4 15 0.00031 23.8 0.2 23 65-92 10-43 (148)
229 PF05191 ADK_lid: Adenylate ki 34.2 23 0.00049 17.1 0.8 28 62-91 4-31 (36)
230 KOG4021 Mitochondrial ribosoma 34.1 8.6 0.00019 26.1 -0.9 22 71-92 97-119 (239)
231 PF09237 GAGA: GAGA factor; I 33.9 11 0.00023 20.0 -0.4 9 83-91 26-34 (54)
232 KOG4430 Topoisomerase I-bindin 33.9 16 0.00035 28.5 0.4 57 40-96 257-313 (553)
233 PRK11827 hypothetical protein; 33.7 14 0.00031 20.1 0.1 19 76-94 3-21 (60)
234 PF12773 DZR: Double zinc ribb 33.4 38 0.00082 17.0 1.7 11 82-92 30-40 (50)
235 PF08882 Acetone_carb_G: Aceto 33.2 27 0.00058 21.5 1.2 13 58-71 23-35 (112)
236 PF06170 DUF983: Protein of un 32.9 25 0.00053 20.5 1.0 24 76-99 3-26 (86)
237 KOG1244 Predicted transcriptio 32.9 9.5 0.00021 27.3 -0.9 46 44-90 282-331 (336)
238 PF14319 Zn_Tnp_IS91: Transpos 32.1 37 0.00081 20.6 1.7 9 65-73 58-66 (111)
239 PF13453 zf-TFIIB: Transcripti 32.0 22 0.00048 17.4 0.6 12 83-94 1-12 (41)
240 TIGR02098 MJ0042_CXXC MJ0042 f 31.8 47 0.001 15.7 1.8 10 45-54 4-13 (38)
241 TIGR01367 pyrE_Therm orotate p 31.6 27 0.00059 23.2 1.2 17 81-97 169-185 (187)
242 PRK13130 H/ACA RNA-protein com 30.8 46 0.00099 17.8 1.7 18 81-98 17-34 (56)
243 smart00109 C1 Protein kinase C 30.6 44 0.00094 16.2 1.6 34 43-76 11-44 (49)
244 TIGR02605 CxxC_CxxC_SSSS putat 30.5 15 0.00033 18.8 -0.2 25 64-89 10-34 (52)
245 PF03119 DNA_ligase_ZBD: NAD-d 30.1 18 0.00039 16.4 0.1 11 83-93 1-11 (28)
246 TIGR00165 S18 ribosomal protei 29.9 16 0.00035 20.5 -0.1 14 80-93 4-17 (70)
247 smart00659 RPOLCX RNA polymera 29.2 49 0.0011 16.7 1.6 8 84-91 22-29 (44)
248 PF03884 DUF329: Domain of unk 29.1 16 0.00034 19.7 -0.3 11 83-93 4-14 (57)
249 KOG1245 Chromatin remodeling c 29.1 20 0.00044 31.2 0.3 51 40-91 1105-1159(1404)
250 COG1996 RPC10 DNA-directed RNA 28.3 37 0.00079 17.7 1.0 12 43-54 6-17 (49)
251 KOG0955 PHD finger protein BR1 28.2 43 0.00093 28.5 1.9 38 38-75 214-252 (1051)
252 PF13913 zf-C2HC_2: zinc-finge 28.0 22 0.00048 15.5 0.2 11 83-93 4-14 (25)
253 PF10235 Cript: Microtubule-as 27.3 42 0.00091 19.8 1.3 39 43-94 44-82 (90)
254 PF00130 C1_1: Phorbol esters/ 27.1 50 0.0011 16.7 1.5 36 41-76 9-45 (53)
255 PF10013 DUF2256: Uncharacteri 26.9 39 0.00085 17.0 1.0 12 81-92 8-19 (42)
256 COG3357 Predicted transcriptio 26.4 34 0.00074 20.3 0.8 26 64-93 63-88 (97)
257 COG4068 Uncharacterized protei 26.4 47 0.001 18.1 1.3 15 81-95 8-22 (64)
258 PRK06266 transcription initiat 25.7 1.1E+02 0.0025 20.1 3.3 17 78-94 133-149 (178)
259 PF05502 Dynactin_p62: Dynacti 25.4 28 0.00061 26.8 0.4 13 43-55 26-38 (483)
260 PF14353 CpXC: CpXC protein 25.1 73 0.0016 19.5 2.2 12 82-93 39-50 (128)
261 COG2824 PhnA Uncharacterized Z 25.1 47 0.001 20.3 1.3 10 45-54 5-14 (112)
262 KOG0957 PHD finger protein [Ge 25.0 30 0.00065 27.1 0.5 48 39-87 540-595 (707)
263 KOG4323 Polycomb-like PHD Zn-f 24.8 67 0.0015 24.7 2.3 49 43-91 168-225 (464)
264 PF03672 UPF0154: Uncharacteri 24.6 1.3E+02 0.0028 16.6 2.8 18 2-19 8-25 (64)
265 PF13314 DUF4083: Domain of un 24.5 1.3E+02 0.0028 16.3 3.0 13 13-25 24-36 (58)
266 PF13894 zf-C2H2_4: C2H2-type 24.4 28 0.0006 13.9 0.1 8 84-91 3-10 (24)
267 PRK11595 DNA utilization prote 24.3 67 0.0015 21.8 2.1 22 69-90 22-43 (227)
268 KOG4443 Putative transcription 24.3 40 0.00087 27.1 1.1 48 43-90 18-71 (694)
269 COG4280 Predicted membrane pro 24.2 79 0.0017 21.8 2.3 22 2-23 69-90 (236)
270 KOG4218 Nuclear hormone recept 24.0 32 0.00068 25.6 0.4 22 41-63 13-34 (475)
271 PTZ00303 phosphatidylinositol 23.7 57 0.0012 27.3 1.8 35 44-78 461-500 (1374)
272 TIGR00627 tfb4 transcription f 23.5 47 0.001 23.7 1.2 9 82-90 270-278 (279)
273 PF14991 MLANA: Protein melan- 23.4 27 0.00058 21.6 0.0 18 2-19 34-51 (118)
274 PRK02919 oxaloacetate decarbox 23.1 1.6E+02 0.0036 16.9 4.4 21 1-21 21-41 (82)
275 cd00730 rubredoxin Rubredoxin; 23.1 44 0.00096 17.4 0.8 11 80-90 33-43 (50)
276 COG4827 Predicted transporter 22.8 51 0.0011 22.8 1.2 12 42-53 110-121 (239)
277 PF11682 DUF3279: Protein of u 22.6 58 0.0013 20.5 1.4 22 65-95 103-124 (128)
278 KOG4577 Transcription factor L 22.3 19 0.00041 26.0 -0.9 40 43-92 92-131 (383)
279 PF05605 zf-Di19: Drought indu 22.3 62 0.0013 16.7 1.3 6 84-89 34-39 (54)
280 PF15330 SIT: SHP2-interacting 22.2 2E+02 0.0042 17.5 4.1 6 16-21 21-26 (107)
281 PHA00626 hypothetical protein 22.0 67 0.0014 17.3 1.3 17 60-76 24-40 (59)
282 PF13248 zf-ribbon_3: zinc-rib 22.0 73 0.0016 13.8 1.3 8 82-89 17-24 (26)
283 COG1862 YajC Preprotein transl 21.8 58 0.0013 19.5 1.2 7 5-11 18-24 (97)
284 PF09356 Phage_BR0599: Phage c 21.2 97 0.0021 17.6 2.0 24 53-77 41-64 (80)
285 KOG1356 Putative transcription 20.9 89 0.0019 26.0 2.4 37 40-78 226-262 (889)
286 KOG1512 PHD Zn-finger protein 20.6 43 0.00094 24.3 0.6 32 43-75 314-345 (381)
287 PF05568 ASFV_J13L: African sw 20.4 1.1E+02 0.0024 19.9 2.3 18 4-21 41-58 (189)
288 COG4338 Uncharacterized protei 20.2 38 0.00083 17.7 0.2 11 82-92 13-23 (54)
289 COG5151 SSL1 RNA polymerase II 20.1 2.2E+02 0.0047 21.1 4.0 49 41-89 360-418 (421)
290 KOG2462 C2H2-type Zn-finger pr 20.1 21 0.00045 25.5 -1.1 53 41-97 159-231 (279)
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=1.1e-19 Score=94.61 Aligned_cols=44 Identities=41% Similarity=1.102 Sum_probs=40.1
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr 88 (106)
++|+||++++..++.+..++ |||.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 47999999999888999998 999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=9.8e-19 Score=124.35 Aligned_cols=49 Identities=41% Similarity=1.098 Sum_probs=45.3
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCC-CcccCCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHST-CPLCRANVPF 93 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-CP~Cr~~~~~ 93 (106)
+.|+||+|+|+.++.+++|| |+|.||..||+.|+.+.++ ||+|++++..
T Consensus 230 ~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 58999999999999999999 9999999999999998755 9999998764
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=99.65 E-value=1.6e-16 Score=90.99 Aligned_cols=45 Identities=44% Similarity=1.047 Sum_probs=35.4
Q ss_pred cccccccccccccC----------CCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238 43 SADCAVCLSKISSA----------EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88 (106)
Q Consensus 43 ~~~C~ICl~~~~~~----------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr 88 (106)
++.|+||++.+.++ -.+...+ |||.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44699999999432 2334445 999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.61 E-value=3.7e-16 Score=106.86 Aligned_cols=56 Identities=32% Similarity=0.758 Sum_probs=44.7
Q ss_pred CccccccccccccccCC----CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAE----PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP 96 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 96 (106)
..+.+|+||++.+.+++ ...+++.|+|.||..||.+|++.+.+||+||.++....+
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~ 231 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIK 231 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEee
Confidence 44678999999987543 123444599999999999999999999999999876443
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=2e-15 Score=107.67 Aligned_cols=54 Identities=33% Similarity=0.838 Sum_probs=44.7
Q ss_pred CCcccccccccccc-ccC---------CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 40 LGISADCAVCLSKI-SSA---------EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 40 ~~~~~~C~ICl~~~-~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
..++..|.|||+++ ..+ .....+| |||+||.+|++.|++++++||+||.|+-.+
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 46677899999994 332 2456788 999999999999999999999999996543
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=1.5e-15 Score=105.78 Aligned_cols=52 Identities=40% Similarity=1.085 Sum_probs=47.6
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPF 93 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 93 (106)
....+|+|||+.|...++++++| |+|.||..|+.+|+. .+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34568999999999999999999 999999999999999 58889999999976
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=9.9e-15 Score=100.98 Aligned_cols=51 Identities=31% Similarity=0.720 Sum_probs=44.3
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
.....|.+||+...++ ..+| |||+||..||..|...+..||+||..+.+..
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 4456799999997554 7788 9999999999999999999999999987653
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.54 E-value=5e-15 Score=86.09 Aligned_cols=54 Identities=31% Similarity=0.728 Sum_probs=41.5
Q ss_pred Ccccccccccccccc---------CCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCCC
Q 036238 41 GISADCAVCLSKISS---------AEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPFC 94 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 94 (106)
.+++.|.||+..|.. ++...+...|+|.||..||.+|+.+ +..||+||+++..+
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 347789999998863 1223334469999999999999986 46799999998654
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.49 E-value=3.3e-14 Score=94.08 Aligned_cols=53 Identities=30% Similarity=0.713 Sum_probs=42.5
Q ss_pred CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----------------CCCCcccCCCCCC
Q 036238 37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----------------HSTCPLCRANVPF 93 (106)
Q Consensus 37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~ 93 (106)
..+..++.+|+||++.+.++ ++++ |||.||..||.+|+.. ...||+||.++..
T Consensus 12 ~~~~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 12 LVDSGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred eccCCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 34455678999999998654 6676 9999999999999852 3479999999864
No 10
>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=99.45 E-value=7.2e-14 Score=74.40 Aligned_cols=46 Identities=28% Similarity=0.820 Sum_probs=39.3
Q ss_pred cccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
+..|.||++... .+..+| |||. ||..|+.+|+..+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 568999999853 468888 9999 999999999999999999999885
No 11
>PHA02926 zinc finger-like protein; Provisional
Probab=99.44 E-value=6.9e-14 Score=93.98 Aligned_cols=59 Identities=24% Similarity=0.666 Sum_probs=45.0
Q ss_pred CCccccccccccccccC-----CCeeEeCCCCccccHhhHHHHHhCC------CCCcccCCCCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSA-----EPLQVLPTCHHGFHAHCIDAWLVLH------STCPLCRANVPFCSPQR 98 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~Fh~~Ci~~wl~~~------~~CP~Cr~~~~~~~~~~ 98 (106)
.+.+.+|+||||..-.+ ....+++.|+|.||..||..|...+ .+||+||..+....|++
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr 236 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK 236 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence 35578899999986322 2334565699999999999999853 45999999998766654
No 12
>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=99.41 E-value=1.4e-13 Score=69.68 Aligned_cols=39 Identities=38% Similarity=1.118 Sum_probs=32.3
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C 87 (106)
|+||++.+.+ .++.++ |||.||.+|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999864 345676 99999999999999998899997
No 13
>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=99.40 E-value=3e-13 Score=69.45 Aligned_cols=44 Identities=48% Similarity=1.197 Sum_probs=36.6
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANV 91 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 91 (106)
+|+||++.+. +.....+ |||.||..|+..|++. +..||+||.++
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 3445555 9999999999999997 77899999864
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=4.2e-13 Score=101.44 Aligned_cols=52 Identities=33% Similarity=0.767 Sum_probs=44.6
Q ss_pred CCccccccccccccccCCC--eeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKISSAEP--LQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~--~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
...+..|+||+|.+..+.. ...++ |+|+||..|++.|++++++||+||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3447789999999986544 67788 9999999999999999999999999554
No 15
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=8.4e-13 Score=90.89 Aligned_cols=85 Identities=31% Similarity=0.634 Sum_probs=60.7
Q ss_pred HHHHHHHHHH----------HHHHHHHhhhccccCCCCccccCCCCCCCccccccccccccccCC-------CeeEeCCC
Q 036238 3 IALIVLYYSI----------HLCSKRMAQSNDRHHGNKEKSSRGSLSLGISADCAVCLSKISSAE-------PLQVLPTC 65 (106)
Q Consensus 3 ~~~i~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~-------~~~~l~~C 65 (106)
.|+.++||++ .+|+..++. ..+....+..+... .++..|+||-..+...+ +...+. |
T Consensus 179 ~gi~~lfyglYyGvlgRdfa~icsd~mAs----~iGfYs~~glPtkh-l~d~vCaVCg~~~~~s~~eegvienty~Ls-C 252 (328)
T KOG1734|consen 179 FGISFLFYGLYYGVLGRDFAEICSDYMAS----TIGFYSPSGLPTKH-LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-C 252 (328)
T ss_pred hhHHHHHHHHHHHhhhhHHHHHHHHHHHH----HhcccCCCCCCCCC-CCcchhHhhcchheeecchhhhhhhheeee-c
Confidence 4555666664 677888877 34444444444443 34558999998876544 566776 9
Q ss_pred CccccHhhHHHHHh--CCCCCcccCCCCCC
Q 036238 66 HHGFHAHCIDAWLV--LHSTCPLCRANVPF 93 (106)
Q Consensus 66 ~H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~ 93 (106)
+|+||+.||+.|-. ++++||.|+..+..
T Consensus 253 nHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 253 NHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred ccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 99999999999986 57899999887753
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.2e-12 Score=88.37 Aligned_cols=51 Identities=33% Similarity=0.677 Sum_probs=41.4
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPFC 94 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 94 (106)
.....+|.|||+.-+++ +++. |||.||..||.+|+.. ++.||+|+..+..+
T Consensus 44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 45677899999996543 6665 9999999999999986 44599999988643
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.7e-12 Score=84.55 Aligned_cols=53 Identities=28% Similarity=0.632 Sum_probs=42.9
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
+....|+|||+.+..... +.+ +|||+||..||+.-++....||+|++.+..+.
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccc-ccc-ccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 445679999999975433 334 59999999999999999999999999776543
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.30 E-value=1.6e-12 Score=66.74 Aligned_cols=38 Identities=32% Similarity=0.851 Sum_probs=29.2
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~C 87 (106)
|+||++.|.++ +.++ |||.|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999765 7887 99999999999999863 359987
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.29 E-value=2.5e-12 Score=66.67 Aligned_cols=44 Identities=27% Similarity=0.709 Sum_probs=37.7
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
.|+||++.+.+.....+++ |||+||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999996556777787 9999999999998866778999985
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.28 E-value=2e-12 Score=73.78 Aligned_cols=51 Identities=37% Similarity=0.739 Sum_probs=39.5
Q ss_pred cccccccccccc------------CCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 44 ADCAVCLSKISS------------AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 44 ~~C~ICl~~~~~------------~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
+.|+||...+.+ ++..+....|+|.||..||.+||..+..||++|+++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 578888776532 223334445999999999999999999999999998653
No 21
>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=99.23 E-value=5.3e-12 Score=64.35 Aligned_cols=39 Identities=38% Similarity=1.078 Sum_probs=32.7
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHh--CCCCCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV--LHSTCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~--~~~~CP~C 87 (106)
|+||++.+.++ ..+++ |||.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998654 24676 999999999999999 46679987
No 22
>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=99.23 E-value=1.2e-11 Score=68.43 Aligned_cols=48 Identities=21% Similarity=0.477 Sum_probs=41.8
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
..|+||++.+.++ ++++ |||+|+..||.+|+..+.+||+|+.++....
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4699999999765 6677 9999999999999999889999999886543
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.17 E-value=1.2e-11 Score=90.11 Aligned_cols=58 Identities=28% Similarity=0.553 Sum_probs=47.2
Q ss_pred CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238 38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA 99 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 99 (106)
........|+||++.|..+ ++++ |||.||..||..|+.....||+||.++.......+
T Consensus 21 ~~Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N 78 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSN 78 (397)
T ss_pred cccccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccCccc
Confidence 3456677899999999755 5677 99999999999999988889999999876544433
No 24
>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=99.16 E-value=3.5e-11 Score=59.66 Aligned_cols=38 Identities=45% Similarity=1.149 Sum_probs=32.1
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHh-CCCCCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~C 87 (106)
|+||++.. .....++ |||.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 4557787 999999999999998 56679987
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=6.1e-12 Score=71.24 Aligned_cols=52 Identities=35% Similarity=0.797 Sum_probs=38.9
Q ss_pred cccccccccccccc---------CCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCCC
Q 036238 42 ISADCAVCLSKISS---------AEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVPF 93 (106)
Q Consensus 42 ~~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 93 (106)
.++.|.||.-+|.. ++...++..|.|.||..||.+|+.. +..||+||+.+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 34489999988853 2223333359999999999999985 4469999998864
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=4e-11 Score=71.58 Aligned_cols=53 Identities=36% Similarity=0.761 Sum_probs=41.5
Q ss_pred ccccccccccccc-------------cCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 42 ISADCAVCLSKIS-------------SAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 42 ~~~~C~ICl~~~~-------------~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
..+.|+||..-+- .++..+....|+|.||..||.+|+++++.||+|.+++...
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ 110 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence 3567999986542 2334455556999999999999999999999999988653
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.05 E-value=9.2e-11 Score=86.58 Aligned_cols=53 Identities=32% Similarity=0.877 Sum_probs=41.8
Q ss_pred CCccccccccccccccC--------------CCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238 40 LGISADCAVCLSKISSA--------------EPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVPF 93 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~--------------~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 93 (106)
.....+|+|||.++.-. .....+| |.|+||..|++.|+. .+-.||.||.++++
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 45566899999986421 1234567 999999999999999 46689999999875
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=4.3e-10 Score=77.34 Aligned_cols=50 Identities=32% Similarity=0.612 Sum_probs=41.5
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHH-HHhCCCC-CcccCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA-WLVLHST-CPLCRANVPFC 94 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~ 94 (106)
..+..|+||++.... ...++ |||+||..||.. |-.++.. ||+||+...++
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 447789999999654 46777 999999999999 9887766 99999987654
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.92 E-value=2.2e-10 Score=81.37 Aligned_cols=57 Identities=25% Similarity=0.596 Sum_probs=48.4
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRAG 100 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~ 100 (106)
..+...|.||.+.|..+ +++| |+|.||.-||+.+|..+..||.|+.++.+.....+.
T Consensus 20 lD~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~ 76 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNR 76 (442)
T ss_pred hHHHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhhhhh
Confidence 34556799999999765 7888 999999999999999999999999999876655443
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.88 E-value=1.2e-09 Score=56.16 Aligned_cols=34 Identities=35% Similarity=0.770 Sum_probs=21.5
Q ss_pred ccccccccccCC-CeeEeCCCCccccHhhHHHHHhCC
Q 036238 46 CAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLH 81 (106)
Q Consensus 46 C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~ 81 (106)
|+||.+ |..++ ..++|+ |||+|+.+|+++++.++
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence 899999 76544 567788 99999999999999853
No 31
>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=98.85 E-value=2.4e-09 Score=56.64 Aligned_cols=42 Identities=26% Similarity=0.771 Sum_probs=33.0
Q ss_pred cccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCR 88 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr 88 (106)
.|.||++ ...++...+.| |. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 33445666788 85 89999999999975 44799995
No 32
>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=98.81 E-value=2.9e-09 Score=60.77 Aligned_cols=52 Identities=19% Similarity=0.321 Sum_probs=40.4
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 97 (106)
+...|+|+.+.|.++ +++| +||.|...+|+.|+.+ +.+||++++++......
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence 567899999999766 7888 9999999999999999 88999999998865443
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=2.9e-09 Score=78.94 Aligned_cols=48 Identities=27% Similarity=0.671 Sum_probs=38.4
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-----CCCcccCCCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-----STCPLCRANVPFC 94 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~ 94 (106)
+..||||++....+ ..+. |||+||..||..++... ..||+||..+..+
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 67899999985433 4454 99999999999988753 4699999988763
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.78 E-value=2.4e-09 Score=74.89 Aligned_cols=55 Identities=27% Similarity=0.510 Sum_probs=45.3
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 98 (106)
...-..|-||-+.|..+ ..++ |||.||.-||+..|..+..||+||.+..+.....
T Consensus 22 LDs~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~ 76 (391)
T COG5432 22 LDSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRG 76 (391)
T ss_pred chhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhhccc
Confidence 34556799999998755 5666 9999999999999999999999999887654433
No 35
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.78 E-value=5.8e-09 Score=73.76 Aligned_cols=55 Identities=22% Similarity=0.475 Sum_probs=39.8
Q ss_pred ccccccccccc-cccCC-CeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238 42 ISADCAVCLSK-ISSAE-PLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 42 ~~~~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 97 (106)
++..||+|... +..++ ...+.+ |||.||.+|+...+.. ...||.|+.++......
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 34689999995 33333 334445 9999999999996544 56799999988765533
No 36
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.74 E-value=1.5e-09 Score=61.59 Aligned_cols=50 Identities=28% Similarity=0.805 Sum_probs=23.9
Q ss_pred cccccccccccccCC--CeeEeC--CCCccccHhhHHHHHhC---C--------CCCcccCCCCC
Q 036238 43 SADCAVCLSKISSAE--PLQVLP--TCHHGFHAHCIDAWLVL---H--------STCPLCRANVP 92 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~--~~~~l~--~C~H~Fh~~Ci~~wl~~---~--------~~CP~Cr~~~~ 92 (106)
+.+|.||++.+.+++ ...+.+ .|++.||..|+.+|+.. . .+||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999865222 223333 69999999999999973 1 14999999875
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.73 E-value=4.4e-09 Score=82.80 Aligned_cols=55 Identities=33% Similarity=0.863 Sum_probs=42.3
Q ss_pred CCCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238 39 SLGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF 93 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 93 (106)
..++..+|+||...+.. .-+....+.|.|.||..|+.+|+.. +++||+||..+++
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 45677899999987651 1133344579999999999999986 5679999988765
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.68 E-value=1.2e-08 Score=74.80 Aligned_cols=54 Identities=31% Similarity=0.797 Sum_probs=42.1
Q ss_pred CCCCCCccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 36 GSLSLGISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 36 ~~~~~~~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
+.....+-.+|+||||.+.... .+.... |.|.||-.|+..| ...+||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 4445566778999999997554 334445 9999999999999 5578999998666
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=2.5e-08 Score=71.23 Aligned_cols=50 Identities=28% Similarity=0.662 Sum_probs=42.4
Q ss_pred CCccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
.++..+|.|||.+- ..+.++| |.|. .|.+|.+.-.-+.+.||+||+++..
T Consensus 287 ~~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 287 SESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred ccCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 35577899999985 4568999 9998 9999999877678899999999864
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=9.9e-09 Score=70.77 Aligned_cols=47 Identities=30% Similarity=0.709 Sum_probs=40.3
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
...+...|+||++.|..+ .++| |||.||..|+..+......||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 445677899999999876 7787 9999999999999885567999994
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=5.7e-09 Score=55.63 Aligned_cols=46 Identities=26% Similarity=0.574 Sum_probs=34.6
Q ss_pred ccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHh-CCCCCcccCCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLV-LHSTCPLCRANVPF 93 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 93 (106)
++|.||+|.-. ..++-. |||. .|..|-.+-++ .+..||+||+++..
T Consensus 8 dECTICye~pv---dsVlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPV---DSVLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcc---hHHHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 78999998733 334444 9998 89999555444 68899999998753
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.8e-08 Score=71.45 Aligned_cols=57 Identities=30% Similarity=0.890 Sum_probs=44.0
Q ss_pred CccccccccccccccCC----CeeEeCCCCccccHhhHHHHHh--C-----CCCCcccCCCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAE----PLQVLPTCHHGFHAHCIDAWLV--L-----HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~--~-----~~~CP~Cr~~~~~~~~~ 97 (106)
..+.+|.||++...... ...++|+|.|.||..||+.|-. + .+.||.||.+.....+.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS 226 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS 226 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence 55778999999876432 1345677999999999999994 3 46799999987765544
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.57 E-value=5.7e-09 Score=57.57 Aligned_cols=53 Identities=25% Similarity=0.531 Sum_probs=24.7
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA 99 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 99 (106)
....|++|.+.+..+ +.+..|.|+||..||..-+. ..||+|+.|.-....+.+
T Consensus 6 ~lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~N 58 (65)
T PF14835_consen 6 ELLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQIN 58 (65)
T ss_dssp HTTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----
T ss_pred HhcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhh
Confidence 345799999998644 44446999999999988544 459999988765554444
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=4.2e-08 Score=68.79 Aligned_cols=51 Identities=24% Similarity=0.456 Sum_probs=41.3
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS 95 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 95 (106)
....+|+||+....- .+.++ |+|.||.-||+.-... +.+||+||.++.+.-
T Consensus 5 ~~~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 5 TKKKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred ccCCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 345689999998643 37777 9999999999998776 556999999998643
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.1e-08 Score=71.56 Aligned_cols=49 Identities=29% Similarity=0.825 Sum_probs=34.7
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRANVP 92 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~ 92 (106)
..|.||.+-+.....+.-...|||+||..|+..|++. +++||+|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 4799994444333333333349999999999999997 357999983333
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=3e-07 Score=66.92 Aligned_cols=49 Identities=33% Similarity=0.785 Sum_probs=36.9
Q ss_pred ccccccccccccccC-CCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCC
Q 036238 42 ISADCAVCLSKISSA-EPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRAN 90 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~ 90 (106)
...+|+||++.++-+ +.-...+.|||.|..+||++|+.+ ...||.|...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 356899999998743 333333459999999999999974 3459999654
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=6e-08 Score=69.30 Aligned_cols=53 Identities=28% Similarity=0.560 Sum_probs=42.8
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS 95 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 95 (106)
...+..|+|||+-+... +.++.|.|.||.+||..-+.. ++.||.||+.+..+.
T Consensus 40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 34567899999998643 555579999999999998875 778999999887643
No 48
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.21 E-value=2.4e-07 Score=72.05 Aligned_cols=52 Identities=21% Similarity=0.408 Sum_probs=40.6
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 97 (106)
.|++|+..+.+.....-.+ |+|.||..||..|-+..++||+||..|....+.
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 4777777776554444444 999999999999999999999999988755443
No 49
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=8.7e-07 Score=68.53 Aligned_cols=50 Identities=22% Similarity=0.523 Sum_probs=39.1
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCS 95 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 95 (106)
.-..|+.|-..+.+ .++. .|||+||..|+..-+.. .+.||.|..+|....
T Consensus 642 ~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 34569999876543 3555 49999999999998875 678999999987543
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.8e-06 Score=63.35 Aligned_cols=49 Identities=33% Similarity=0.718 Sum_probs=42.8
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
..+.+|.||+..+..+ +.+| |||.||..||.+-+.++..||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 5678899999988654 6677 99999999999988888889999999986
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.01 E-value=2.1e-06 Score=62.71 Aligned_cols=45 Identities=29% Similarity=0.792 Sum_probs=37.7
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF 93 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 93 (106)
-|-||-|. +..+.+-| |||..|..|+..|-.. .++||.||..+..
T Consensus 371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 49999876 45678888 9999999999999754 6789999998764
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.00 E-value=3.5e-06 Score=61.94 Aligned_cols=51 Identities=29% Similarity=0.639 Sum_probs=42.7
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
...+..|++|+..+.++... +. |||.||..|+..|+..+..||.|+..+..
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred CcccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccch
Confidence 46677899999999866332 34 99999999999999999999999887754
No 53
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.99 E-value=1.8e-06 Score=62.84 Aligned_cols=48 Identities=38% Similarity=0.787 Sum_probs=39.8
Q ss_pred Cccccccccccccc-cCCCeeEeCCCCccccHhhHHHHHhCC--CCCcccCC
Q 036238 41 GISADCAVCLSKIS-SAEPLQVLPTCHHGFHAHCIDAWLVLH--STCPLCRA 89 (106)
Q Consensus 41 ~~~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~ 89 (106)
+.+.-|..|-+.+. .++..-.+| |.|+||..|+...+.++ ++||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 44556999999987 455777888 99999999999999874 57999984
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=3.9e-05 Score=53.52 Aligned_cols=55 Identities=27% Similarity=0.451 Sum_probs=40.6
Q ss_pred CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCCCC
Q 036238 38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPFCS 95 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 95 (106)
.....+.+|++|-+.-.. +..+.+ |||+||.-||..-... ..+||.|-.+..+-+
T Consensus 234 s~~t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred ccccCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 334567789999887443 334454 9999999999987764 468999988877433
No 55
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.98 E-value=2.9e-06 Score=59.84 Aligned_cols=53 Identities=26% Similarity=0.712 Sum_probs=43.2
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----------------------CCCCcccCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----------------------HSTCPLCRANVPFCS 95 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~~ 95 (106)
....|.|||--|.+++....++ |.|.||..|+.+++.. +..||+||..+....
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 4557999999999888888887 9999999999988731 224999999887543
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.91 E-value=6.1e-06 Score=44.88 Aligned_cols=43 Identities=23% Similarity=0.553 Sum_probs=27.2
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcc
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPL 86 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~ 86 (106)
.....|+|.+..|+++ +... .|||.|-.+.|.+|+++ ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4456899999999754 3334 49999999999999954 345998
No 57
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.69 E-value=3.6e-05 Score=40.22 Aligned_cols=40 Identities=28% Similarity=0.860 Sum_probs=27.0
Q ss_pred ccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~C 87 (106)
|-||++.-.+++ ..+.| |+ -..|.+|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999866544 45566 65 37899999999984 5679887
No 58
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.68 E-value=3.9e-05 Score=40.16 Aligned_cols=45 Identities=22% Similarity=0.601 Sum_probs=22.3
Q ss_pred ccccccccccCCCeeEeC-CCCccccHhhHHHHHhC-CCCCcccCCCC
Q 036238 46 CAVCLSKISSAEPLQVLP-TCHHGFHAHCIDAWLVL-HSTCPLCRANV 91 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~-~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 91 (106)
|++|.+++...+. ...| .||+.++..|...-++. +..||-||++.
T Consensus 1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999853332 3333 48999999999987763 77899999875
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.63 E-value=2.9e-05 Score=52.03 Aligned_cols=47 Identities=23% Similarity=0.450 Sum_probs=38.4
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
....|.||-++|..+ +++. |||.||..|...-++....|-+|-+...
T Consensus 195 IPF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 195 IPFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred Cceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhhc
Confidence 345799999999755 5554 9999999999888888899999976543
No 60
>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=97.61 E-value=3.6e-05 Score=48.49 Aligned_cols=37 Identities=19% Similarity=0.528 Sum_probs=30.3
Q ss_pred cccccccccccccCCCeeEeCCCC------ccccHhhHHHHHhC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCH------HGFHAHCIDAWLVL 80 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~------H~Fh~~Ci~~wl~~ 80 (106)
..+|.||++.+.+.+.++.++ || |.||.+|+.+|-..
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhh
Confidence 568999999998755667776 66 89999999999543
No 61
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=4.6e-05 Score=52.00 Aligned_cols=52 Identities=21% Similarity=0.556 Sum_probs=42.0
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRANVPFCS 95 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~~ 95 (106)
....|..|-..+..++.++.. |-|.||..|+.+|.-+ .-.||-|..++.+..
T Consensus 49 Y~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 345699999999888776654 9999999999999864 335999999887643
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.56 E-value=0.00011 Score=55.76 Aligned_cols=57 Identities=23% Similarity=0.529 Sum_probs=42.6
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-----CCCCcccCCCCCCCCCCCC
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-----HSTCPLCRANVPFCSPQRA 99 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~~~~~~ 99 (106)
...++.+|.+|.++-++. +... |.|.||..|+.+++.. +-+||.|-.++.-...+.+
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~a 593 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPA 593 (791)
T ss_pred cccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchh
Confidence 335566899999985433 5554 9999999999998863 5689999888876554443
No 63
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.55 E-value=5.3e-05 Score=63.00 Aligned_cols=54 Identities=28% Similarity=0.634 Sum_probs=41.8
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----------CCCcccCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----------STCPLCRANVPFC 94 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----------~~CP~Cr~~~~~~ 94 (106)
...++.|-||+.+--...+.+.+. |+|+||..|.+.-+++. -+||+|+.++...
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 345678999998755555677786 99999999999877652 2599999988753
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.51 E-value=2.7e-05 Score=55.45 Aligned_cols=56 Identities=25% Similarity=0.523 Sum_probs=44.0
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 97 (106)
......+|.+|-..|.+.. .+. .|-|.||.+||.+.+..+..||+|...+....|.
T Consensus 11 ~~n~~itC~LC~GYliDAT--TI~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl 66 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDAT--TIT-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPL 66 (331)
T ss_pred hcccceehhhccceeecch--hHH-HHHHHHHHHHHHHHHHHhccCCccceeccCcccc
Confidence 3455668999998887542 233 4999999999999999999999998877665543
No 65
>PHA03096 p28-like protein; Provisional
Probab=97.50 E-value=5.4e-05 Score=53.51 Aligned_cols=46 Identities=28% Similarity=0.620 Sum_probs=33.7
Q ss_pred ccccccccccccC----CCeeEeCCCCccccHhhHHHHHhC---CCCCcccCC
Q 036238 44 ADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCRA 89 (106)
Q Consensus 44 ~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~ 89 (106)
..|.||++..... ..-.+++.|.|.|+..|++.|... ..+||.||.
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 6799999986532 244467789999999999999975 334555544
No 66
>PHA02862 5L protein; Provisional
Probab=97.49 E-value=8.6e-05 Score=47.32 Aligned_cols=46 Identities=22% Similarity=0.564 Sum_probs=34.5
Q ss_pred cccccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPF 93 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 93 (106)
++.|-||+++-++ . .-| |. ..-|.+|+.+|++. +..||+|+.++..
T Consensus 2 ~diCWIC~~~~~e--~--~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDE--R--NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCC--C--ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 4689999998432 2 244 54 56999999999985 5569999987753
No 67
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=9.7e-05 Score=53.44 Aligned_cols=55 Identities=22% Similarity=0.404 Sum_probs=45.1
Q ss_pred CCCCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 35 RGSLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 35 ~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
..+....++..|+||... +...+..| |+|.-|..||.+-+.+.+.|=.|+..+..
T Consensus 414 ~~~lp~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 414 NKDLPDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cCCCCCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 344455677789999776 45667888 99999999999999999999999987763
No 68
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.46 E-value=6.1e-05 Score=59.37 Aligned_cols=49 Identities=29% Similarity=0.769 Sum_probs=36.8
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC-------CCCcccCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH-------STCPLCRA 89 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~-------~~CP~Cr~ 89 (106)
....+|.||.+.+.....+-....|-|+||..||++|.... =.||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 45678999999987654443333477999999999999751 14999973
No 69
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.46 E-value=0.00012 Score=47.31 Aligned_cols=51 Identities=16% Similarity=0.497 Sum_probs=36.4
Q ss_pred CCccccccccccccccCCCeeEeC-CCCc---cccHhhHHHHHhC--CCCCcccCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLP-TCHH---GFHAHCIDAWLVL--HSTCPLCRANVPFC 94 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~-~C~H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 94 (106)
+..+..|-||.++-.+ . ..| .|.. ..|.+|+++|+.. ...|++|+.++...
T Consensus 5 s~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4556789999988432 2 234 2444 5799999999986 45699999887643
No 70
>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=97.44 E-value=4.7e-05 Score=45.85 Aligned_cols=35 Identities=31% Similarity=0.690 Sum_probs=28.4
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHH
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCID 75 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 75 (106)
...++..|++|-..+.. ....+-| |||+||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 34556789999999976 4667778 99999999975
No 71
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.00042 Score=49.57 Aligned_cols=52 Identities=27% Similarity=0.383 Sum_probs=39.0
Q ss_pred CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238 37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
.....+...|++|+..-.++ .++..=|-+||..|+-.++.+.+.||+=-.|.
T Consensus 294 e~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 294 ELLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 33445566799999997654 22322699999999999999999999865443
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.0001 Score=54.06 Aligned_cols=47 Identities=23% Similarity=0.655 Sum_probs=37.9
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRA 89 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~ 89 (106)
.-..|.||++..........+| |+|+||..|+..+... .-.||-+.-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4557999999987667888998 9999999999999863 234877644
No 73
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=7.9e-05 Score=52.50 Aligned_cols=47 Identities=19% Similarity=0.324 Sum_probs=39.6
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
...|-||...|..+ +++. |+|.||..|...-++....|++|-++...
T Consensus 241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccc
Confidence 45699999999765 5665 99999999999888888999999887654
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.36 E-value=0.00021 Score=49.39 Aligned_cols=54 Identities=15% Similarity=0.231 Sum_probs=47.0
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
..+.|++|.+.+.+......+..|||+|+.+|.++.+.....||+|-.++....
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 566799999999988777777669999999999998888889999999987653
No 75
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.19 E-value=0.00062 Score=47.57 Aligned_cols=54 Identities=15% Similarity=0.235 Sum_probs=42.8
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
......|||...+|......+.+..|||+|...++..- .....||+|-.++...
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence 45566799999999766666666559999999999995 3356799999988743
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00045 Score=49.89 Aligned_cols=47 Identities=28% Similarity=0.596 Sum_probs=33.4
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
.....+.|.||+++.. ....+| |||.-+ |..- .+...+||+||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~~---~~~fvp-cGh~cc--ct~c-s~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPK---SAVFVP-CGHVCC--CTLC-SKHLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCcc---ceeeec-CCcEEE--chHH-HhhCCCCchhHHHHH
Confidence 3455667999999854 468888 999855 5443 234556999998765
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.04 E-value=0.00093 Score=48.42 Aligned_cols=51 Identities=24% Similarity=0.565 Sum_probs=38.3
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHH--HhCCCCCcccCCCCCC
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW--LVLHSTCPLCRANVPF 93 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w--l~~~~~CP~Cr~~~~~ 93 (106)
..++...|.||-+.++ ....+| |+|..|.-|..+- |-....||+||..+..
T Consensus 57 tDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 57 TDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred cccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 3455567999998864 447788 9999999996543 3357789999998764
No 78
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.02 E-value=0.00056 Score=36.68 Aligned_cols=48 Identities=27% Similarity=0.539 Sum_probs=33.9
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP 96 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 96 (106)
...|..|...- ..-.++| |||..+..|...+ +-+.||.|-.++....+
T Consensus 7 ~~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred ceeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCcccCCCC
Confidence 33455555442 2346777 9999999998854 56789999999876543
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.00 E-value=0.00037 Score=47.85 Aligned_cols=50 Identities=28% Similarity=0.691 Sum_probs=34.9
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 98 (106)
-|.-|...-. ++...++. |+|+||..|...- ....||+|++++.......
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~ 54 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNR 54 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeeeccc
Confidence 4666655433 56666775 9999999997642 2348999999976654443
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.00053 Score=48.46 Aligned_cols=48 Identities=29% Similarity=0.638 Sum_probs=37.8
Q ss_pred cccccccccccccCC---CeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCC
Q 036238 43 SADCAVCLSKISSAE---PLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANV 91 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~---~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~ 91 (106)
...|-||-++|...+ .++.+. |||.|+..|+..-+... ..||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 357999999998542 344554 99999999999877763 4599999986
No 81
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00038 Score=45.30 Aligned_cols=31 Identities=23% Similarity=0.672 Sum_probs=27.5
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccH
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHA 71 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~ 71 (106)
..+..+|.||||+++.++.+..+| |-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 355668999999999999999999 9999986
No 82
>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=96.79 E-value=0.00061 Score=34.88 Aligned_cols=41 Identities=22% Similarity=0.672 Sum_probs=22.4
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC--CCccc
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS--TCPLC 87 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~CP~C 87 (106)
|.+|.+....+..-... +|+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777776655322212 4888999999999998754 69987
No 83
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.77 E-value=0.00036 Score=49.28 Aligned_cols=41 Identities=27% Similarity=0.679 Sum_probs=31.8
Q ss_pred cccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
..-|.|||+. +...+.|+ |||. -|..|-.. -+.||+||+-+
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence 5569999998 35568898 9996 78888554 35899999855
No 84
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.76 E-value=0.0014 Score=43.44 Aligned_cols=32 Identities=28% Similarity=0.800 Sum_probs=25.9
Q ss_pred CCCccccHhhHHHHHhC----C-------CCCcccCCCCCCCC
Q 036238 64 TCHHGFHAHCIDAWLVL----H-------STCPLCRANVPFCS 95 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~----~-------~~CP~Cr~~~~~~~ 95 (106)
.||.-||.-|+..|++. . ..||+|..|+.-+.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 59999999999999973 1 14999999886543
No 85
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.72 E-value=0.0018 Score=34.64 Aligned_cols=35 Identities=26% Similarity=0.664 Sum_probs=30.5
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA 76 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~ 76 (106)
....|++|-+.|.+++.+++.|.||-.+|..|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34579999999998889999999999999999654
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.62 E-value=0.001 Score=52.79 Aligned_cols=43 Identities=23% Similarity=0.759 Sum_probs=33.0
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
...|..|-..++-| .+.-. |||.||.+|+. .....||.|+...
T Consensus 840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence 45899998888644 33333 99999999998 4567899998743
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.60 E-value=0.0015 Score=47.23 Aligned_cols=56 Identities=16% Similarity=0.399 Sum_probs=39.0
Q ss_pred CccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 97 (106)
.+++.|+.|+|++...+ ...-.| ||-..|.-|...--+. +..||.||+.......+
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 34445999999987554 334455 9988888886653333 66799999988765543
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.19 E-value=0.0018 Score=50.83 Aligned_cols=45 Identities=24% Similarity=0.668 Sum_probs=36.8
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL--HSTCPLCRANVPF 93 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 93 (106)
..|.||++ .+...+.+ |+|.||.+|+..-+.. ...||.||..+..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 79999999 25667777 9999999999998875 3359999987654
No 89
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.13 E-value=0.026 Score=41.52 Aligned_cols=48 Identities=21% Similarity=0.349 Sum_probs=39.0
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC---CCCcccCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH---STCPLCRA 89 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~ 89 (106)
-....|||=.+.-.+..+++.+. |||+...+-+.+-.+.. ..||+|-.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 34567999998888777888998 99999999999976653 36999943
No 90
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.00022 Score=52.10 Aligned_cols=51 Identities=20% Similarity=0.578 Sum_probs=42.3
Q ss_pred cccccccccccccC-CCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 43 SADCAVCLSKISSA-EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 43 ~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
...|+||.+.+... +.+..+- |||.+|..|+++|+.....||.|++.++..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45699999988754 4555564 999999999999999999999999988643
No 91
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.11 E-value=0.0038 Score=44.00 Aligned_cols=46 Identities=26% Similarity=0.646 Sum_probs=37.3
Q ss_pred cccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 43 SADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
...|+||.+.+.... .+..++ |||.-|..|++.....+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 334999999876543 455666 9999999999998887888999977
No 92
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.84 E-value=0.0052 Score=43.82 Aligned_cols=43 Identities=28% Similarity=0.675 Sum_probs=34.4
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRA 89 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~ 89 (106)
..|+.|...+..+ ..+|.|+|.||.+||..-|.. ...||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799998887655 344669999999999987765 567999944
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.66 E-value=0.0052 Score=49.09 Aligned_cols=38 Identities=29% Similarity=0.662 Sum_probs=30.0
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV 79 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 79 (106)
.+.++.|.+|...+... +-.+-| |||.||.+|+.+-..
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHHH
Confidence 46677899999988753 455566 999999999988663
No 94
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.44 E-value=0.0098 Score=47.14 Aligned_cols=40 Identities=28% Similarity=0.636 Sum_probs=28.2
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcc
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPL 86 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~ 86 (106)
.|+||--.+... ...-. .|+|+-|.+|...|+.....||.
T Consensus 1030 ~C~~C~l~V~gs-s~~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGS-SNFCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeecc-chhhc-cccccccHHHHHHHHhcCCcCCC
Confidence 366665444321 22223 49999999999999999999884
No 95
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.27 E-value=0.0056 Score=31.84 Aligned_cols=30 Identities=27% Similarity=0.695 Sum_probs=21.9
Q ss_pred CC-ccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 65 CH-HGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 65 C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
|. |..|..|+..-+..+..||+|..+++.+
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 76 9999999999999999999999998754
No 96
>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=95.26 E-value=0.022 Score=36.98 Aligned_cols=50 Identities=26% Similarity=0.634 Sum_probs=32.9
Q ss_pred cccccccccccccCCCeeEeC------C-----CCc-cccHhhHHHHHhC------------------------------
Q 036238 43 SADCAVCLSKISSAEPLQVLP------T-----CHH-GFHAHCIDAWLVL------------------------------ 80 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~------~-----C~H-~Fh~~Ci~~wl~~------------------------------ 80 (106)
+..|+||||-- ...+.|- + |+- .-|..|++++-+.
T Consensus 2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 56899999973 3334443 1 332 3578999987641
Q ss_pred -CCCCcccCCCCCCCC
Q 036238 81 -HSTCPLCRANVPFCS 95 (106)
Q Consensus 81 -~~~CP~Cr~~~~~~~ 95 (106)
+..||+||..+..+.
T Consensus 79 ~~L~CPLCRG~V~GWt 94 (162)
T PF07800_consen 79 PELACPLCRGEVKGWT 94 (162)
T ss_pred ccccCccccCceeceE
Confidence 124999999987654
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.02 E-value=0.0089 Score=42.80 Aligned_cols=43 Identities=30% Similarity=0.627 Sum_probs=29.0
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
.|--|--.+. ..-++.| |.|+||.+|.+. ...+.||.|-.++.
T Consensus 92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 3655644332 2335677 999999999774 34568999977654
No 98
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.02 E-value=0.023 Score=40.13 Aligned_cols=50 Identities=22% Similarity=0.658 Sum_probs=36.1
Q ss_pred cccccccccccccCCC-eeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCC
Q 036238 43 SADCAVCLSKISSAEP-LQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPF 93 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~-~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 93 (106)
+..|-||.++...... ....| |. +..|..|++.|+.. +..|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4679999997653321 34555 55 66899999999984 5669999876643
No 99
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.90 E-value=0.013 Score=39.73 Aligned_cols=40 Identities=28% Similarity=0.736 Sum_probs=30.2
Q ss_pred ccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
|-.|.+. ...+..+| |.|. +|..|-.. -..||+|+.+...
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence 8888766 45678888 9986 99999654 3569999886543
No 100
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.84 E-value=0.026 Score=40.33 Aligned_cols=50 Identities=24% Similarity=0.390 Sum_probs=36.3
Q ss_pred CCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
....+-.+||||.+.+..+ +...+ =||.-|.+|-. +..+.||.||.++..
T Consensus 43 ~~~~~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 43 LLDLDLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred ccchhhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCcccccccc
Confidence 3345566899999999765 22222 36999998865 357789999999873
No 101
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.80 E-value=0.022 Score=39.75 Aligned_cols=60 Identities=22% Similarity=0.535 Sum_probs=39.8
Q ss_pred CCCCccccccccccccccCCCe-eEeCCCC-----ccccHhhHHHHHhCCC--------CCcccCCCCCCCCCCC
Q 036238 38 LSLGISADCAVCLSKISSAEPL-QVLPTCH-----HGFHAHCIDAWLVLHS--------TCPLCRANVPFCSPQR 98 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~-~~l~~C~-----H~Fh~~Ci~~wl~~~~--------~CP~Cr~~~~~~~~~~ 98 (106)
.+.+.+..|=||+..=++.... -+-| |. |=.|.+|+..|+..++ +||.|+.+.-..-|..
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l 88 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQL 88 (293)
T ss_pred CccccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeecccc
Confidence 3345566799999874433222 2334 54 6799999999997422 4999998776554444
No 102
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=94.64 E-value=0.021 Score=42.86 Aligned_cols=36 Identities=31% Similarity=0.566 Sum_probs=30.1
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL 80 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 80 (106)
+++..|+||..-|.++ +++| |+|..|..|...-+.+
T Consensus 2 eeelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP---IILP-CSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCc---eEee-cccHHHHHHHHhhccc
Confidence 4677899999999755 8898 9999999999876554
No 103
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.42 E-value=0.041 Score=34.76 Aligned_cols=53 Identities=17% Similarity=0.470 Sum_probs=37.2
Q ss_pred ccccccccccccccCCCeeEeC--CCCccccHhhHHHHHhC---CCCCcccCCCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLP--TCHHGFHAHCIDAWLVL---HSTCPLCRANVPFCSP 96 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~--~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~~ 96 (106)
.-.+|.||.|.-.+.. ..-| -||-..|..|-..-++. ...||.|+..+.....
T Consensus 79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 5678999998754321 1122 49999999986655553 6779999998876543
No 104
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.31 E-value=0.015 Score=48.31 Aligned_cols=47 Identities=26% Similarity=0.666 Sum_probs=37.8
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRAN 90 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 90 (106)
.....|.||++.+.... .+. .|||.++..|+..|+..+..||+|+..
T Consensus 1151 ~~~~~c~ic~dil~~~~--~I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQG--GIA-GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHhcC--Cee-eechhHhhhHHHHHHHHhccCcchhhh
Confidence 44557999999987332 233 399999999999999999999999753
No 105
>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=94.24 E-value=0.029 Score=41.08 Aligned_cols=29 Identities=28% Similarity=0.838 Sum_probs=21.9
Q ss_pred CCccccHhhHHHHHhC-------------CCCCcccCCCCCC
Q 036238 65 CHHGFHAHCIDAWLVL-------------HSTCPLCRANVPF 93 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~ 93 (106)
|.-.+|.+|+-+|+-. +-.||+||+.+.-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 4456789999999952 3369999998853
No 106
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.13 E-value=0.045 Score=43.89 Aligned_cols=52 Identities=21% Similarity=0.622 Sum_probs=37.7
Q ss_pred CccccccccccccccCCCeeEeCCCC-----ccccHhhHHHHHhC--CCCCcccCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCH-----HGFHAHCIDAWLVL--HSTCPLCRANVPFC 94 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 94 (106)
+++..|-||..+=..+++ ..-| |. ...|.+|+.+|+.- ...|-+|..++..+
T Consensus 10 ~d~~~CRICr~e~~~d~p-LfhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDP-LFHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred ccchhceeecCCCCCCCc-Cccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 344689999987544433 4445 55 46899999999986 44599999887654
No 107
>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=93.89 E-value=0.023 Score=39.45 Aligned_cols=48 Identities=25% Similarity=0.562 Sum_probs=35.0
Q ss_pred ccccccccccc-cc-cCCCeeEeCCCCccccHhhHHHHHhCCC-CCc--ccCC
Q 036238 42 ISADCAVCLSK-IS-SAEPLQVLPTCHHGFHAHCIDAWLVLHS-TCP--LCRA 89 (106)
Q Consensus 42 ~~~~C~ICl~~-~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~CP--~Cr~ 89 (106)
.+..||||..+ |- ++..+.+-|.|-|..|.+|..+-+...+ .|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 34579999876 33 3335555567999999999999888754 599 6643
No 108
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.35 E-value=0.032 Score=41.18 Aligned_cols=38 Identities=21% Similarity=0.665 Sum_probs=27.6
Q ss_pred ccccccccc-cccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238 42 ISADCAVCL-SKISSAEPLQVLPTCHHGFHAHCIDAWLVL 80 (106)
Q Consensus 42 ~~~~C~ICl-~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 80 (106)
...+|.||. +.....+...+. .|+|.||.+|..+.++.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 466899999 444333333444 59999999999998874
No 109
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.33 E-value=0.028 Score=43.96 Aligned_cols=44 Identities=23% Similarity=0.616 Sum_probs=31.2
Q ss_pred ccccccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 42 ISADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
+-..|.||+..|-... ..+.+ .|||..|..|++.- .+.+|| |+.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhH--hhccCC-CCc
Confidence 3456999988875433 33445 59999999999864 467888 543
No 110
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.94 E-value=0.33 Score=35.12 Aligned_cols=47 Identities=19% Similarity=0.328 Sum_probs=35.7
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---CCCCcccC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---HSTCPLCR 88 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 88 (106)
-.-..||+=-+.-.+...++.+. |||+.-..-++.-.++ ...||+|-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 44567998877766666778887 9999999999885554 33599993
No 111
>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=92.92 E-value=0.1 Score=37.03 Aligned_cols=48 Identities=23% Similarity=0.573 Sum_probs=34.6
Q ss_pred cccccccc-cccCC-CeeEeCCCCccccHhhHHHHHhCC-CCCcccCCCCCC
Q 036238 45 DCAVCLSK-ISSAE-PLQVLPTCHHGFHAHCIDAWLVLH-STCPLCRANVPF 93 (106)
Q Consensus 45 ~C~ICl~~-~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~ 93 (106)
.|++|-.+ |..++ ...+-+ |+|..|.+|...-+..+ ..||.|-..+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence 58888765 33443 333445 99999999999988764 569999776643
No 112
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.86 E-value=0.06 Score=38.42 Aligned_cols=29 Identities=24% Similarity=0.657 Sum_probs=22.6
Q ss_pred CCccccHhhHHHHHh-------------CCCCCcccCCCCCC
Q 036238 65 CHHGFHAHCIDAWLV-------------LHSTCPLCRANVPF 93 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~-------------~~~~CP~Cr~~~~~ 93 (106)
|.-.+|.+|+-+|+. ++-+||+||+.+.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 556788999999884 34579999998753
No 113
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=92.37 E-value=0.11 Score=41.70 Aligned_cols=56 Identities=18% Similarity=0.185 Sum_probs=38.5
Q ss_pred CCccccccccccccccCC---CeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAE---PLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCS 95 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~---~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~ 95 (106)
......|.+|..++.+++ .+-.+.+|+|.||..||..|..+ .-.|+.|..-|..+.
T Consensus 93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 345667888888887632 22222269999999999999975 234888877665443
No 114
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.17 E-value=0.11 Score=40.00 Aligned_cols=50 Identities=28% Similarity=0.731 Sum_probs=39.1
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 97 (106)
.+..+.|.||+++. ..+..+ |. |..|+.+|+..+..||+|+..+......
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred hcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 35567899999997 234555 77 9999999999999999998877655433
No 115
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=91.10 E-value=0.21 Score=39.78 Aligned_cols=42 Identities=31% Similarity=0.534 Sum_probs=31.6
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcc
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPL 86 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~ 86 (106)
...|.+|-..+. ......+.|||.=|.+|+++|+.....||.
T Consensus 779 ~~~CtVC~~vi~--G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR--GVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee--eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 346888876653 223344479999999999999999888876
No 116
>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=91.08 E-value=0.17 Score=26.77 Aligned_cols=43 Identities=21% Similarity=0.433 Sum_probs=21.1
Q ss_pred ccccccccccCC------CeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238 46 CAVCLSKISSAE------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88 (106)
Q Consensus 46 C~ICl~~~~~~~------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr 88 (106)
|--|+..|.... ....-|.|++.|+.+|=.--=+.=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 445666665431 2345567999999999553223345699884
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.07 E-value=0.13 Score=38.64 Aligned_cols=38 Identities=21% Similarity=0.486 Sum_probs=30.5
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL 80 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 80 (106)
......|.||.+.+.. ....+. |||.|+..|....+.+
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 3556789999999764 445555 9999999999999975
No 118
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.88 E-value=0.3 Score=34.22 Aligned_cols=51 Identities=18% Similarity=0.231 Sum_probs=39.0
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
....|+|=--+|........+..|||+|-..-+.+- ...+|++|-+++...
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 355699988888766555556569999999887763 367899999988654
No 119
>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=90.86 E-value=0.12 Score=23.47 Aligned_cols=23 Identities=26% Similarity=0.696 Sum_probs=12.7
Q ss_pred cccccccccccCCCeeEeCCCCccc
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGF 69 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~F 69 (106)
.|+-|...+. ......|.|||.|
T Consensus 2 ~CP~C~~~V~--~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP--ESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch--hhcCcCCCCCCCC
Confidence 4666666653 2334445577766
No 120
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.60 E-value=0.089 Score=41.42 Aligned_cols=49 Identities=22% Similarity=0.683 Sum_probs=37.3
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC---CCCcccCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH---STCPLCRANVPFC 94 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~~~ 94 (106)
...+|+||.+.+..+ ..+. |.|.|+..|+..-+... ..||+|+..+...
T Consensus 20 k~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hhccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 356899999998765 4554 99999999988766653 4599999766543
No 121
>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=89.29 E-value=0.42 Score=25.03 Aligned_cols=43 Identities=19% Similarity=0.503 Sum_probs=18.2
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC---C--CCCcccCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL---H--STCPLCRAN 90 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~--~~CP~Cr~~ 90 (106)
..|+|-...+..+ ++.. .|.|.-+.+ ++.|+.. . -.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888777543 4444 499984432 3334432 2 259999864
No 122
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=89.24 E-value=0.33 Score=32.76 Aligned_cols=40 Identities=28% Similarity=0.717 Sum_probs=28.2
Q ss_pred cccccccccc-----cccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238 43 SADCAVCLSK-----ISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88 (106)
Q Consensus 43 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr 88 (106)
+..|-+|-++ |+. +.+...+.|+-+||..|..+ ..||-|.
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 5567777653 222 35566668999999999762 6799994
No 123
>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=89.24 E-value=0.24 Score=27.35 Aligned_cols=38 Identities=16% Similarity=0.336 Sum_probs=19.4
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHH
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL 78 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 78 (106)
.+...|.+|...|.--..-..-..||++|+..|.....
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 44567999999996544334444699999999976443
No 124
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.21 E-value=0.57 Score=26.91 Aligned_cols=53 Identities=15% Similarity=0.308 Sum_probs=20.8
Q ss_pred Ccccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCCC
Q 036238 41 GISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVPF 93 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 93 (106)
.....|.||-+++.. ++..+..-.|+--.|..|.+-=.+. ++.||.|+.+...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 345689999998753 2222222246777899998755544 6779999987753
No 125
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=89.08 E-value=0.38 Score=32.82 Aligned_cols=50 Identities=20% Similarity=0.489 Sum_probs=37.4
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
.-..|.+|.+-.-.+ +....||=.+|..|+..+++....||.|..-|+..
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h~ 229 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTHP 229 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccCcc
Confidence 345799999876543 22224777899999999999999999996655543
No 126
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.75 E-value=0.25 Score=36.53 Aligned_cols=44 Identities=23% Similarity=0.445 Sum_probs=32.2
Q ss_pred ccccccccccccc--CCCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238 43 SADCAVCLSKISS--AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC 87 (106)
Q Consensus 43 ~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C 87 (106)
-..|+.|.-.++. +=..++.. |||.|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3468888766543 33455666 99999999999998887776555
No 127
>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 TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.34 E-value=1.2 Score=27.38 Aligned_cols=46 Identities=22% Similarity=0.310 Sum_probs=33.8
Q ss_pred cccccccccccccCC----------CeeEeCCCCccccHhhHHHHHhCCCCCcccC
Q 036238 43 SADCAVCLSKISSAE----------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCR 88 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr 88 (106)
...|--|+..|.... .....+.|++.|+.+|=.-+-+.=.+||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 346999999886421 1123456999999999887777777899995
No 129
>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=87.24 E-value=0.4 Score=24.67 Aligned_cols=43 Identities=23% Similarity=0.544 Sum_probs=28.1
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhHHHHHhC------CCCCcccC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCR 88 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr 88 (106)
.|.||... .+++..+.-..|+..||..|+..-... .-.||.|+
T Consensus 1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 37889883 334455565679999999998754331 22477764
No 130
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=86.70 E-value=0.53 Score=33.19 Aligned_cols=48 Identities=23% Similarity=0.564 Sum_probs=33.8
Q ss_pred ccccccccccccCCCeeEe---CCCCccccHhhHHHHHhC---------CCCCcccCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVL---PTCHHGFHAHCIDAWLVL---------HSTCPLCRANV 91 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l---~~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~ 91 (106)
.+|-+|.+++...+..+.. +.|+-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999999544433321 258889999999984432 45799998743
No 131
>PLN02189 cellulose synthase
Probab=85.21 E-value=1.1 Score=37.10 Aligned_cols=53 Identities=15% Similarity=0.291 Sum_probs=36.5
Q ss_pred CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 92 (106)
......|.||-+++.. ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3445589999999762 333334445777799999854333 2678999998876
No 132
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.00 E-value=0.43 Score=34.07 Aligned_cols=37 Identities=16% Similarity=0.375 Sum_probs=27.3
Q ss_pred cccccccccccccCCCeeEeCC-CCccccHhhHHHHHhC
Q 036238 43 SADCAVCLSKISSAEPLQVLPT-CHHGFHAHCIDAWLVL 80 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~-C~H~Fh~~Ci~~wl~~ 80 (106)
...|.+|.|.+++. +.+..|. =.|.||..|-++-+++
T Consensus 268 pLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 268 PLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred ceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHh
Confidence 35699999999864 3333331 2499999999999885
No 133
>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=84.55 E-value=0.81 Score=24.05 Aligned_cols=37 Identities=14% Similarity=0.319 Sum_probs=25.5
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV 79 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 79 (106)
...|.+|-..|..-..-.....||++|+..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3468899888865433233335999999999876544
No 134
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=84.49 E-value=2 Score=35.91 Aligned_cols=53 Identities=19% Similarity=0.461 Sum_probs=35.7
Q ss_pred CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 92 (106)
......|.||-+++.. ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus 14 ~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 14 HGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ccCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3445589999998753 333333334666699999853222 3678999998776
No 135
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=84.39 E-value=1.2 Score=20.95 Aligned_cols=37 Identities=24% Similarity=0.524 Sum_probs=23.9
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
|..|.+.+.+.+. .+.. =+..||.+|+ .|..|..++.
T Consensus 2 C~~C~~~i~~~~~-~~~~-~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRA-LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcE-EEEe-CCccccccCC--------CCcccCCcCc
Confidence 7778888765422 2322 4678998884 4777877653
No 136
>PLN02436 cellulose synthase A
Probab=83.99 E-value=1.4 Score=36.76 Aligned_cols=53 Identities=19% Similarity=0.428 Sum_probs=36.3
Q ss_pred CCccccccccccccc---cCCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKIS---SAEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~ 92 (106)
......|.||-+++. +++.-+....|+--.|..|.+-=.+. ++.||.|+....
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 344558999999974 33444444446667999998543332 677999998876
No 137
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=83.67 E-value=2 Score=31.31 Aligned_cols=53 Identities=19% Similarity=0.501 Sum_probs=35.9
Q ss_pred Cccccccccccccc--------------c-C-CCeeEeCCCCccccHhhHHHHHhC---------CCCCcccCCCCCCC
Q 036238 41 GISADCAVCLSKIS--------------S-A-EPLQVLPTCHHGFHAHCIDAWLVL---------HSTCPLCRANVPFC 94 (106)
Q Consensus 41 ~~~~~C~ICl~~~~--------------~-~-~~~~~l~~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~~ 94 (106)
..+.+|++|+..=. + + -.-...| |||+--+.=..-|.+. +..||.|-..+...
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 34668999987510 0 0 1123456 9999888888889874 34699998877544
No 138
>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=83.62 E-value=1.2 Score=23.34 Aligned_cols=39 Identities=23% Similarity=0.457 Sum_probs=24.4
Q ss_pred ccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
|+-|.+.+.+.+ ..+.. -|..||.+| ..|-.|+.++...
T Consensus 1 C~~C~~~I~~~~-~~~~~-~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKA-MGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSS-EEEEE-TTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcE-EEEEe-CCcEEEccc--------cccCCCCCccCCC
Confidence 566777766433 23223 677788877 4577887777654
No 139
>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=83.41 E-value=0.11 Score=29.27 Aligned_cols=40 Identities=18% Similarity=0.412 Sum_probs=20.6
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
..||.|..+++... +|.+|..|-.. +.....||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 46888888765331 56666666554 344566898888775
No 140
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.12 E-value=0.36 Score=38.70 Aligned_cols=45 Identities=18% Similarity=0.538 Sum_probs=31.4
Q ss_pred CccccccccccccccC----CCeeEeCCCCccccHhhHHHHHhCCCCCccc
Q 036238 41 GISADCAVCLSKISSA----EPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC 87 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C 87 (106)
..+..|.-|.+..... +.+.+.- |||+||..|+..-..+++ |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 3344899999876522 3455665 999999999988776654 5444
No 141
>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 KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=82.82 E-value=0.41 Score=37.28 Aligned_cols=43 Identities=23% Similarity=0.597 Sum_probs=26.2
Q ss_pred cccccccccc-----cccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 43 SADCAVCLSK-----ISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 43 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
...|.+|-.. |+ .+.+.....|+++||..|+.. .+..||.|-+
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 4457777221 22 123333336999999999664 4555999943
No 143
>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=82.62 E-value=0.4 Score=35.61 Aligned_cols=36 Identities=36% Similarity=0.664 Sum_probs=0.0
Q ss_pred CeeEeCCCCccccHhhHHHHHhC------CCCCcccCCCCCCCCCC
Q 036238 58 PLQVLPTCHHGFHAHCIDAWLVL------HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 58 ~~~~l~~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~~ 97 (106)
..+.+ .|||++... .|-.. ..+||+||..-+.....
T Consensus 303 P~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~V~L~ 344 (416)
T PF04710_consen 303 PWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPYVPLW 344 (416)
T ss_dssp ----------------------------------------------
T ss_pred ceeec-cccceeeec---ccccccccccccccCCCccccCCceeEe
Confidence 33455 499986653 36532 45799999866554433
No 144
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.85 E-value=1.5 Score=30.82 Aligned_cols=36 Identities=14% Similarity=0.214 Sum_probs=29.7
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV 79 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 79 (106)
..+-+.|+.||.++.++ ++.| =||+|+.+||.+++.
T Consensus 40 iK~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 34566799999998765 7777 899999999999874
No 145
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.58 E-value=0.8 Score=22.34 Aligned_cols=26 Identities=23% Similarity=0.600 Sum_probs=14.2
Q ss_pred cccccccccccCCC-------eeEeCCCCcccc
Q 036238 45 DCAVCLSKISSAEP-------LQVLPTCHHGFH 70 (106)
Q Consensus 45 ~C~ICl~~~~~~~~-------~~~l~~C~H~Fh 70 (106)
.|+-|...|..++. .+..+.|+|.|.
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 57777776654331 223345667664
No 146
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=81.34 E-value=2.5 Score=35.25 Aligned_cols=53 Identities=17% Similarity=0.409 Sum_probs=36.2
Q ss_pred CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHhC-CCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLVL-HSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~ 92 (106)
.-....|.||-+++.. ++.-+....|+--.|..|.+-=.+. ++.||.|+.+..
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3456689999998753 3333333346667999998543332 677999998876
No 147
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=81.14 E-value=1.2 Score=21.59 Aligned_cols=26 Identities=23% Similarity=0.469 Sum_probs=14.7
Q ss_pred cccccccccccCCC-------eeEeCCCCcccc
Q 036238 45 DCAVCLSKISSAEP-------LQVLPTCHHGFH 70 (106)
Q Consensus 45 ~C~ICl~~~~~~~~-------~~~l~~C~H~Fh 70 (106)
+|+=|...|..++. .+..+.|||.|+
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 57777777764332 123335777764
No 148
>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=79.76 E-value=1.1 Score=24.86 Aligned_cols=11 Identities=27% Similarity=0.996 Sum_probs=8.4
Q ss_pred ccHhhHHHHHh
Q 036238 69 FHAHCIDAWLV 79 (106)
Q Consensus 69 Fh~~Ci~~wl~ 79 (106)
||..|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 149
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=79.08 E-value=2.6 Score=30.59 Aligned_cols=50 Identities=18% Similarity=0.459 Sum_probs=36.2
Q ss_pred ccccccccccccCCC-eeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 44 ADCAVCLSKISSAEP-LQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
..|+||-++....+. ..-.| |++..|..|...-...+..||.||++....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccC
Confidence 579999998743332 22233 888888888887777788999999877543
No 150
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=78.62 E-value=2.8 Score=30.61 Aligned_cols=48 Identities=21% Similarity=0.355 Sum_probs=32.9
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
..+..|-.|.++.......+ .+.|.|.||.+|=.---+.=..||.|..
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~-C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYR-CESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCCcceeeeccccCCCCcEE-chhccceeeccchHHHHhhhhcCCCcCC
Confidence 34556999977766554443 3459999999996643334456999964
No 151
>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=78.22 E-value=0.68 Score=34.42 Aligned_cols=51 Identities=22% Similarity=0.500 Sum_probs=0.0
Q ss_pred ccccccccccc--------------ccC--CCeeEeCCCCccccHhhHHHHHhC---------CCCCcccCCCCCCC
Q 036238 43 SADCAVCLSKI--------------SSA--EPLQVLPTCHHGFHAHCIDAWLVL---------HSTCPLCRANVPFC 94 (106)
Q Consensus 43 ~~~C~ICl~~~--------------~~~--~~~~~l~~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~~ 94 (106)
..+|++|+..= .+. -.....| |||+--+...+-|.+. +..||.|-.++...
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 66899998651 100 1233566 9999999999999874 34699998888643
No 152
>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=77.79 E-value=6.5 Score=21.16 Aligned_cols=46 Identities=22% Similarity=0.609 Sum_probs=32.3
Q ss_pred cccccccccccCC-CeeEeCCCC--ccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 45 DCAVCLSKISSAE-PLQVLPTCH--HGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 45 ~C~ICl~~~~~~~-~~~~l~~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
.|-.|-.++..+. ...+ |. ..||.+|.+.-+ +..||.|--.+...+
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 5667777776544 3333 55 469999999865 678999988776543
No 153
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=76.16 E-value=0.82 Score=24.38 Aligned_cols=21 Identities=24% Similarity=0.540 Sum_probs=15.7
Q ss_pred CCeeEeCCCCccccHhhHHHH
Q 036238 57 EPLQVLPTCHHGFHAHCIDAW 77 (106)
Q Consensus 57 ~~~~~l~~C~H~Fh~~Ci~~w 77 (106)
...+..+.|+|.||..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344555459999999998887
No 154
>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=76.02 E-value=2.3 Score=26.17 Aligned_cols=46 Identities=20% Similarity=0.334 Sum_probs=27.3
Q ss_pred ccccccccccccccC-CCeeEeCCCCccccHhhHHHHHhCCC--CCcccC
Q 036238 42 ISADCAVCLSKISSA-EPLQVLPTCHHGFHAHCIDAWLVLHS--TCPLCR 88 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~CP~Cr 88 (106)
++..|.+|..+|..- ..-.....|+|.+|..|-.. ..... .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 556899999987532 22345556999999999554 11112 276664
No 155
>PRK05978 hypothetical protein; Provisional
Probab=75.03 E-value=2.7 Score=27.12 Aligned_cols=31 Identities=23% Similarity=0.529 Sum_probs=23.2
Q ss_pred CCCC--ccccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238 63 PTCH--HGFHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 63 ~~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 98 (106)
|.|| +.|. .+++.+..||.|-.++.......
T Consensus 37 P~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 37 PACGEGKLFR-----AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred CCCCCCcccc-----cccccCCCccccCCccccCCccc
Confidence 3565 6776 57888999999999888655444
No 156
>PLN02195 cellulose synthase A
Probab=74.56 E-value=4.5 Score=33.56 Aligned_cols=51 Identities=16% Similarity=0.332 Sum_probs=35.4
Q ss_pred cccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238 42 ISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP 92 (106)
Q Consensus 42 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 92 (106)
....|.||-+.+.. ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 34589999998753 333344445777899999853222 2677999998887
No 157
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=74.42 E-value=2.8 Score=25.81 Aligned_cols=18 Identities=17% Similarity=0.357 Sum_probs=13.7
Q ss_pred HhCCCCCcccCCCCCCCC
Q 036238 78 LVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 78 l~~~~~CP~Cr~~~~~~~ 95 (106)
+.+...|+.|++|+.-++
T Consensus 82 LGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLDP 99 (114)
T ss_pred hchhhccCcCCCcCccCc
Confidence 455678999999997654
No 158
>PLN02400 cellulose synthase
Probab=74.36 E-value=3.1 Score=34.83 Aligned_cols=53 Identities=13% Similarity=0.288 Sum_probs=35.2
Q ss_pred CCcccccccccccccc---CCCeeEeCCCCccccHhhHHHHHh-CCCCCcccCCCCC
Q 036238 40 LGISADCAVCLSKISS---AEPLQVLPTCHHGFHAHCIDAWLV-LHSTCPLCRANVP 92 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 92 (106)
......|.||-+++.. ++.-+....|+--.|..|.+-=.+ .++.||.|+....
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3445689999999753 333333334666699999852222 2678999998776
No 159
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=73.26 E-value=2.3 Score=31.02 Aligned_cols=47 Identities=32% Similarity=0.767 Sum_probs=28.6
Q ss_pred ccccccccccccC-----------CCeeEeCCCCcc--ccHhhHHHHHhC------CCCCcccCCCCCCCCC
Q 036238 44 ADCAVCLSKISSA-----------EPLQVLPTCHHG--FHAHCIDAWLVL------HSTCPLCRANVPFCSP 96 (106)
Q Consensus 44 ~~C~ICl~~~~~~-----------~~~~~l~~C~H~--Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~ 96 (106)
..|++=+..+..+ ...+.+. |||+ +|. |-.+ ...||+||..-+..+.
T Consensus 291 PQCPVglnTL~~P~~~~~~~~~~~QP~vYl~-CGHV~G~H~-----WG~~e~~g~~~r~CPmC~~~gp~V~L 356 (429)
T KOG3842|consen 291 PQCPVGLNTLAFPSKRRKRVVDEKQPWVYLN-CGHVHGYHN-----WGVRENTGQRERECPMCRVVGPYVPL 356 (429)
T ss_pred CCCCcccceeecccccccccccccCCeEEEe-ccccccccc-----cccccccCcccCcCCeeeeecceeee
Confidence 3588777765322 2444565 9987 664 6543 4469999875544333
No 160
>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=73.04 E-value=15 Score=21.61 Aligned_cols=38 Identities=29% Similarity=0.611 Sum_probs=28.3
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
..|.-|...+.--+.+ | +-.|+..+..|..|+++++..
T Consensus 34 S~C~~C~~~L~~~~lI---P----------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLI---P----------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CcCcCCCCcCcccccc---h----------HHHHHHhCCCCcccCCCCChH
Confidence 4688887777654433 3 556999999999999998753
No 161
>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=70.98 E-value=3.9 Score=18.70 Aligned_cols=29 Identities=21% Similarity=0.516 Sum_probs=10.1
Q ss_pred cccccccccccCCCeeEeCCCCccccHhhH
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHCI 74 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci 74 (106)
.|.+|.+.... .....-+.|+-.+|..|+
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 47788887654 233444458888998885
No 162
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=70.74 E-value=7 Score=28.52 Aligned_cols=48 Identities=10% Similarity=-0.124 Sum_probs=33.8
Q ss_pred CCCCccccccccccccccCCCeeEeCCCCcc-ccHhhHHHHHhCCCCCcccCCCC
Q 036238 38 LSLGISADCAVCLSKISSAEPLQVLPTCHHG-FHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
.......+|..|-+.+. .....+ |+|. |+.+|.. +.-..+||.|....
T Consensus 338 ~~~~s~~~~~~~~~~~~---st~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGLL---STIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred ccchhhcccccccCcee---eeEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 33445667888877653 234555 9987 9999987 55678899997654
No 163
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.65 E-value=2.6 Score=30.35 Aligned_cols=53 Identities=21% Similarity=0.505 Sum_probs=40.8
Q ss_pred CccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238 41 GISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP 96 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 96 (106)
.....|-||...+..+... . +|.|.|+..|...|....+.||.|+....+...
T Consensus 103 ~~~~~~~~~~g~l~vpt~~--q-g~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv~a 155 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI--Q-GCWHQFCYVCPKSNFAMGNDCPDCRGKISPVLA 155 (324)
T ss_pred CCccceeeeeeeEEecccc--c-CceeeeeecCCchhhhhhhccchhhcCcCceec
Confidence 4566799998887654322 2 499999999999999999999999887665433
No 164
>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=69.73 E-value=1.3 Score=23.29 Aligned_cols=12 Identities=33% Similarity=0.811 Sum_probs=6.1
Q ss_pred CCCcccCCCCCC
Q 036238 82 STCPLCRANVPF 93 (106)
Q Consensus 82 ~~CP~Cr~~~~~ 93 (106)
..||+|.++|..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999988864
No 165
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=68.13 E-value=5 Score=24.08 Aligned_cols=29 Identities=14% Similarity=0.287 Sum_probs=19.5
Q ss_pred CCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 65 CHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
||+--|.-=+.++.. -..||.|++++++.
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCcc
Confidence 777666655555433 34599999999864
No 166
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.27 E-value=4.5 Score=22.97 Aligned_cols=51 Identities=22% Similarity=0.489 Sum_probs=30.4
Q ss_pred ccccccccccCC-CeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCCCCC
Q 036238 46 CAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSPQRA 99 (106)
Q Consensus 46 C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 99 (106)
|--|-.++-.+. ...+.. =.|.||.+|.+.-+ +..||.|-..+...+...+
T Consensus 8 CECCDrDLpp~s~dA~ICt-fEcTFCadCae~~l--~g~CPnCGGelv~RP~RPa 59 (84)
T COG3813 8 CECCDRDLPPDSTDARICT-FECTFCADCAENRL--HGLCPNCGGELVARPIRPA 59 (84)
T ss_pred CcccCCCCCCCCCceeEEE-EeeehhHhHHHHhh--cCcCCCCCchhhcCcCChH
Confidence 444545554322 223322 34889999988643 5789999877765544433
No 167
>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=67.20 E-value=3.8 Score=29.05 Aligned_cols=45 Identities=20% Similarity=0.378 Sum_probs=19.7
Q ss_pred cccccccccccccCCCeeEeC----CCCccccHhhHHHHHhCCCCCcccCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLP----TCHHGFHAHCIDAWLVLHSTCPLCRAN 90 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~----~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 90 (106)
...||||-..-.-. .+.. +=.|.+|.-|-..|--....||.|-..
T Consensus 172 ~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 46899997762111 1111 123567888888887788899999554
No 168
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=66.43 E-value=3.9 Score=28.80 Aligned_cols=42 Identities=19% Similarity=0.299 Sum_probs=29.7
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCC--CCccc
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHS--TCPLC 87 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~CP~C 87 (106)
+..|||=..++..+ ++...|||+|-.+=|...+.... .||+=
T Consensus 176 s~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 33588876666544 33336999999999999887643 47764
No 169
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=64.57 E-value=4.5 Score=21.23 Aligned_cols=23 Identities=30% Similarity=0.664 Sum_probs=13.2
Q ss_pred CCCccccHhhHHHHHhCCCCCccc
Q 036238 64 TCHHGFHAHCIDAWLVLHSTCPLC 87 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~~~~CP~C 87 (106)
.|||.|-..=-.+ ......||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-ccCCCCCCCC
Confidence 4677665533322 2456679987
No 170
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=64.38 E-value=6.8 Score=24.47 Aligned_cols=23 Identities=17% Similarity=0.452 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcc
Q 036238 2 LIALIVLYYSIHLCSKRMAQSND 24 (106)
Q Consensus 2 l~~~i~~~~~~~~~~~~~~~~~~ 24 (106)
+.|+|+++..+.++.+|++++..
T Consensus 74 ~aGvIg~Illi~y~irR~~Kk~~ 96 (122)
T PF01102_consen 74 MAGVIGIILLISYCIRRLRKKSS 96 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHS----
T ss_pred HHHHHHHHHHHHHHHHHHhccCC
Confidence 34555555666666666666543
No 171
>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=63.84 E-value=8.4 Score=20.97 Aligned_cols=32 Identities=16% Similarity=0.360 Sum_probs=22.0
Q ss_pred cccccccccccccc--CCCeeEeCCCCccccHhh
Q 036238 42 ISADCAVCLSKISS--AEPLQVLPTCHHGFHAHC 73 (106)
Q Consensus 42 ~~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~C 73 (106)
....|+.|-..... .......|.||+.++.+-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHH
Confidence 45579999887665 345555666888877654
No 172
>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=63.55 E-value=9.5 Score=23.09 Aligned_cols=24 Identities=25% Similarity=0.564 Sum_probs=18.5
Q ss_pred CccccHhhHHHHHhC---------CCCCcccCC
Q 036238 66 HHGFHAHCIDAWLVL---------HSTCPLCRA 89 (106)
Q Consensus 66 ~H~Fh~~Ci~~wl~~---------~~~CP~Cr~ 89 (106)
.=.||..||..+... +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 567999999988853 224999976
No 173
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=63.37 E-value=5.1 Score=27.89 Aligned_cols=25 Identities=24% Similarity=0.555 Sum_probs=19.1
Q ss_pred ccccccccccccCCCeeEeCCCCccc
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGF 69 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~F 69 (106)
..||+|.+.+...+.....+ .||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 47999999997655555665 67888
No 174
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=63.18 E-value=4.8 Score=24.06 Aligned_cols=35 Identities=20% Similarity=0.493 Sum_probs=22.2
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHHH
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAW 77 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w 77 (106)
....|.||......-..-.. ++|...||..|....
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~-~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSH-PGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCceeEEcCC-CCCCcCCCHHHHHHC
Confidence 46689999887321111111 148889999998763
No 175
>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=62.38 E-value=1.9 Score=21.61 Aligned_cols=25 Identities=24% Similarity=0.383 Sum_probs=14.4
Q ss_pred CCCccccHhhHHHHHhCCCCCcccCC
Q 036238 64 TCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
.|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48887766321110 23456999987
No 176
>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=61.28 E-value=5.6 Score=18.56 Aligned_cols=24 Identities=33% Similarity=0.710 Sum_probs=9.6
Q ss_pred cccccccccc-cCCCeeEeCCCCcc
Q 036238 45 DCAVCLSKIS-SAEPLQVLPTCHHG 68 (106)
Q Consensus 45 ~C~ICl~~~~-~~~~~~~l~~C~H~ 68 (106)
.|+-|-.++. .+..+.+.|.|+|-
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 5777777654 22344556667774
No 177
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.14 E-value=2.9 Score=26.70 Aligned_cols=27 Identities=22% Similarity=0.538 Sum_probs=17.3
Q ss_pred CCCCccccccccccccccCCCeeEeCCCCccccH
Q 036238 38 LSLGISADCAVCLSKISSAEPLQVLPTCHHGFHA 71 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~ 71 (106)
....++.+|.||+.. ....+|||.-|+
T Consensus 60 aGv~ddatC~IC~KT-------KFADG~GH~C~Y 86 (169)
T KOG3799|consen 60 AGVGDDATCGICHKT-------KFADGCGHNCSY 86 (169)
T ss_pred cccCcCcchhhhhhc-------ccccccCcccch
Confidence 445677899999875 222248886443
No 178
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=60.11 E-value=4.3 Score=23.26 Aligned_cols=34 Identities=24% Similarity=0.552 Sum_probs=22.2
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA 76 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~ 76 (106)
....|.+|.........-. .++|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 3457999987733221111 235999999999775
No 179
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=57.05 E-value=7.7 Score=21.11 Aligned_cols=14 Identities=29% Similarity=0.793 Sum_probs=9.8
Q ss_pred CCCCcccCCCCCCC
Q 036238 81 HSTCPLCRANVPFC 94 (106)
Q Consensus 81 ~~~CP~Cr~~~~~~ 94 (106)
...||+|..+....
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 46788888876543
No 180
>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=56.11 E-value=11 Score=26.04 Aligned_cols=30 Identities=23% Similarity=0.475 Sum_probs=20.4
Q ss_pred ccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238 69 FHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 69 Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 98 (106)
-|.+|-..--.+-..||+|+..-.+++|-.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnpKk 225 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNPKK 225 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCCCC
Confidence 456676664445678999998777666543
No 181
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.57 E-value=5.9 Score=23.51 Aligned_cols=13 Identities=31% Similarity=0.943 Sum_probs=11.2
Q ss_pred cccHhhHHHHHhC
Q 036238 68 GFHAHCIDAWLVL 80 (106)
Q Consensus 68 ~Fh~~Ci~~wl~~ 80 (106)
-||..|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999963
No 182
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=54.68 E-value=13 Score=30.44 Aligned_cols=29 Identities=38% Similarity=0.795 Sum_probs=21.4
Q ss_pred eCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 62 LPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 62 l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
.|.|.|.-|..=|.+ .+.||+|.....+.
T Consensus 1159 C~~CkH~a~~~EIs~----y~~CPLCHs~~~~~ 1187 (1189)
T KOG2041|consen 1159 CPRCKHRAHQHEISK----YNCCPLCHSMESFR 1187 (1189)
T ss_pred ccccccccccccccc----cccCccccChhhcc
Confidence 457999988866553 57899998776554
No 183
>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=54.48 E-value=8.7 Score=23.51 Aligned_cols=26 Identities=19% Similarity=0.471 Sum_probs=14.1
Q ss_pred ccccccccccccC-CCeeEeCCCCccc
Q 036238 44 ADCAVCLSKISSA-EPLQVLPTCHHGF 69 (106)
Q Consensus 44 ~~C~ICl~~~~~~-~~~~~l~~C~H~F 69 (106)
..||-|-.+|.-. ....+.|.|+|-+
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccccc
Confidence 3588887776522 2334445555543
No 184
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=54.38 E-value=6.7 Score=27.43 Aligned_cols=41 Identities=24% Similarity=0.402 Sum_probs=29.4
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCC--Ccc
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHST--CPL 86 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~--CP~ 86 (106)
+..|+|=+.++.-+ .+...|+|.|-.+-|...++...+ ||.
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 45699988876432 333359999999999999886544 653
No 185
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=53.65 E-value=20 Score=26.03 Aligned_cols=46 Identities=22% Similarity=0.382 Sum_probs=28.7
Q ss_pred ccccccccccccccCCCeeEe--C-CCCccccHhhHHHHHhCCCCCcccCC
Q 036238 42 ISADCAVCLSKISSAEPLQVL--P-TCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l--~-~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
....||+|-..=... ++.. . +=.|.+|.-|-..|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 456899997762111 0100 1 12255777788888878888999965
No 186
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=51.72 E-value=13 Score=25.97 Aligned_cols=30 Identities=23% Similarity=0.490 Sum_probs=19.6
Q ss_pred ccHhhHHHHHhCCCCCcccCCCCCCCCCCC
Q 036238 69 FHAHCIDAWLVLHSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 69 Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 98 (106)
-|.+|-..--.+-..||+|+..-.+++|-.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrNPKK 280 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRNPKK 280 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCCCCC
Confidence 345565554445678999988776665543
No 187
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=51.53 E-value=14 Score=20.19 Aligned_cols=12 Identities=42% Similarity=1.132 Sum_probs=7.6
Q ss_pred CCCCcccCCCCC
Q 036238 81 HSTCPLCRANVP 92 (106)
Q Consensus 81 ~~~CP~Cr~~~~ 92 (106)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 345777777663
No 188
>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=49.83 E-value=16 Score=22.26 Aligned_cols=11 Identities=36% Similarity=0.905 Sum_probs=6.5
Q ss_pred CcccCCCCCCC
Q 036238 84 CPLCRANVPFC 94 (106)
Q Consensus 84 CP~Cr~~~~~~ 94 (106)
||.|-..+...
T Consensus 29 CP~CG~~~~~~ 39 (108)
T PF09538_consen 29 CPKCGTEFPPE 39 (108)
T ss_pred CCCCCCccCcc
Confidence 66666655544
No 189
>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=49.34 E-value=17 Score=25.91 Aligned_cols=17 Identities=24% Similarity=0.837 Sum_probs=13.8
Q ss_pred ccHhhHHHHHhC-CCCCc
Q 036238 69 FHAHCIDAWLVL-HSTCP 85 (106)
Q Consensus 69 Fh~~Ci~~wl~~-~~~CP 85 (106)
=|.+|+++|-.. ++.||
T Consensus 57 GHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 57 GHRDCFEKYHLIANQDCP 74 (285)
T ss_pred chHHHHHHHHHHHcCCCC
Confidence 579999999754 77888
No 190
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=48.90 E-value=7.2 Score=25.22 Aligned_cols=27 Identities=30% Similarity=0.549 Sum_probs=18.4
Q ss_pred ccHhhHHHHHhCCC----CCcccCCCCCCCC
Q 036238 69 FHAHCIDAWLVLHS----TCPLCRANVPFCS 95 (106)
Q Consensus 69 Fh~~Ci~~wl~~~~----~CP~Cr~~~~~~~ 95 (106)
||..|++.=|..-. .||.|+..-....
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQS 32 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCc
Confidence 78888887666522 4999987554443
No 191
>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=48.11 E-value=12 Score=17.76 Aligned_cols=8 Identities=50% Similarity=1.460 Sum_probs=5.1
Q ss_pred CCCcccCC
Q 036238 82 STCPLCRA 89 (106)
Q Consensus 82 ~~CP~Cr~ 89 (106)
..||+|.+
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46777755
No 192
>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=47.99 E-value=13 Score=18.58 Aligned_cols=20 Identities=25% Similarity=0.742 Sum_probs=14.6
Q ss_pred HHHHHhCCCCCcccCCCCCC
Q 036238 74 IDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 74 i~~wl~~~~~CP~Cr~~~~~ 93 (106)
++.|..-...||.|..|+..
T Consensus 10 L~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 10 LQGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HHhHhHhcCccCCCCCeeEE
Confidence 34566668889999877755
No 193
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=47.93 E-value=17 Score=21.93 Aligned_cols=34 Identities=15% Similarity=0.259 Sum_probs=26.5
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV 79 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 79 (106)
..|.||-+++-.++....+++ -..|..|+..-..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 479999999888777666653 5689999987554
No 194
>PRK01343 zinc-binding protein; Provisional
Probab=47.58 E-value=12 Score=20.26 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=9.3
Q ss_pred CCCCcccCCCCC
Q 036238 81 HSTCPLCRANVP 92 (106)
Q Consensus 81 ~~~CP~Cr~~~~ 92 (106)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456999999864
No 195
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=47.16 E-value=10 Score=16.92 Aligned_cols=10 Identities=50% Similarity=1.348 Sum_probs=7.6
Q ss_pred CCcccCCCCC
Q 036238 83 TCPLCRANVP 92 (106)
Q Consensus 83 ~CP~Cr~~~~ 92 (106)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5899977763
No 196
>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=46.54 E-value=12 Score=17.11 Aligned_cols=28 Identities=29% Similarity=0.571 Sum_probs=16.2
Q ss_pred cccccccccccCCCeeEeCCCCccccHhh
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHHGFHAHC 73 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~C 73 (106)
.|.+|.+...... .-.-..|+-.+|..|
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 5788877765432 222233666677666
No 197
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=45.72 E-value=5.6 Score=28.49 Aligned_cols=37 Identities=19% Similarity=0.475 Sum_probs=27.9
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH 81 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~ 81 (106)
..|.+|++.|..+....... |--+||..|+..|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 38999999997544444443 55599999999999763
No 198
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.65 E-value=8.4 Score=30.81 Aligned_cols=59 Identities=22% Similarity=0.390 Sum_probs=32.9
Q ss_pred ccccccccccccc-CCCeeEeCCCCccccHhhHHHHHhCCCCCccc--CCCCCCCCCCCCCCcccC
Q 036238 43 SADCAVCLSKISS-AEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLC--RANVPFCSPQRAGLVSCY 105 (106)
Q Consensus 43 ~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~C--r~~~~~~~~~~~~~~~~~ 105 (106)
...|-+|...=.. .+-...+ .|+-.||..| |..-++.||+| +..+.........++.+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~-~C~~~~C~~c---~~~~~~~~~vC~~~~~~s~~a~~~s~~~~~y 715 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTT-FCYTPYCVAC---SLDYASISEVCGPDAAISYTAAVASILVVGY 715 (717)
T ss_pred HHHHHHhcCCcCccccccCcc-ccCCcchHhh---hhhhhccCcccCchhhhhhhhhhhhhhhhhc
Confidence 4468888765221 1222333 4888899888 44456779999 333333333333444444
No 199
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=45.27 E-value=54 Score=18.20 Aligned_cols=17 Identities=41% Similarity=0.532 Sum_probs=7.7
Q ss_pred hHHHHHHHHHHHHHHHH
Q 036238 2 LIALIVLYYSIHLCSKR 18 (106)
Q Consensus 2 l~~~i~~~~~~~~~~~~ 18 (106)
++.|+++++.+...++-
T Consensus 16 F~~L~lL~~~i~l~~~~ 32 (79)
T PF04277_consen 16 FLVLILLILVISLMSKL 32 (79)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444443
No 200
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=44.58 E-value=12 Score=29.66 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=30.2
Q ss_pred CCCCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHh
Q 036238 37 SLSLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLV 79 (106)
Q Consensus 37 ~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 79 (106)
..+..+..+|-.|...|+.-..-.....||-+||..|-..-+.
T Consensus 159 ~pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~ 201 (634)
T KOG1818|consen 159 APDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLT 201 (634)
T ss_pred CcccccccccceeeeeeeeccccccccccchhhccCccccccC
Confidence 3345666889999999874332223336999999999877654
No 201
>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=43.39 E-value=17 Score=19.70 Aligned_cols=15 Identities=33% Similarity=0.828 Sum_probs=11.2
Q ss_pred CCCCCcccCCCCCCC
Q 036238 80 LHSTCPLCRANVPFC 94 (106)
Q Consensus 80 ~~~~CP~Cr~~~~~~ 94 (106)
.++.||.|-.+++++
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 356799998888754
No 202
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.95 E-value=31 Score=27.75 Aligned_cols=47 Identities=28% Similarity=0.511 Sum_probs=31.8
Q ss_pred cccccccccccCCCeeEeCCCCc-cccHhhHHHHHhC------CCCCcccCCCCCCCC
Q 036238 45 DCAVCLSKISSAEPLQVLPTCHH-GFHAHCIDAWLVL------HSTCPLCRANVPFCS 95 (106)
Q Consensus 45 ~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~ 95 (106)
.|+||-.... - .....||| ..+..|..+.... ...||+||..+....
T Consensus 2 ~c~ic~~s~~---~-~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s 55 (669)
T KOG2231|consen 2 SCAICAFSPD---F-VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKS 55 (669)
T ss_pred CcceeecCcc---c-cccccccccccchhhhhhhhhhcccccccccCcccccceeeec
Confidence 5888877643 2 23335999 7999998775542 345899999775443
No 203
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=41.65 E-value=12 Score=29.32 Aligned_cols=34 Identities=15% Similarity=0.294 Sum_probs=20.5
Q ss_pred ccccccccccccccCCCeeEeCCCCccccHhhHH
Q 036238 42 ISADCAVCLSKISSAEPLQVLPTCHHGFHAHCID 75 (106)
Q Consensus 42 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 75 (106)
+...|-.|..+|..-..-....+||-+||..|-.
T Consensus 900 ~a~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 900 DAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred cchhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 3445777777765322212233699999998843
No 204
>PRK10220 hypothetical protein; Provisional
Probab=41.50 E-value=22 Score=21.82 Aligned_cols=11 Identities=27% Similarity=0.712 Sum_probs=7.0
Q ss_pred ccccccccccc
Q 036238 44 ADCAVCLSKIS 54 (106)
Q Consensus 44 ~~C~ICl~~~~ 54 (106)
..||-|-.+|.
T Consensus 4 P~CP~C~seyt 14 (111)
T PRK10220 4 PHCPKCNSEYT 14 (111)
T ss_pred CcCCCCCCcce
Confidence 35777776654
No 205
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=41.43 E-value=14 Score=20.29 Aligned_cols=11 Identities=36% Similarity=0.890 Sum_probs=9.0
Q ss_pred CCCcccCCCCC
Q 036238 82 STCPLCRANVP 92 (106)
Q Consensus 82 ~~CP~Cr~~~~ 92 (106)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999999864
No 206
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=41.05 E-value=13 Score=30.11 Aligned_cols=34 Identities=24% Similarity=0.719 Sum_probs=25.2
Q ss_pred eeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 59 LQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 59 ~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
+...|.|.-.||.+=++--..++..||.||..-.
T Consensus 1044 it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1044 ITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3344567788888777776677899999997654
No 207
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=41.04 E-value=17 Score=23.12 Aligned_cols=22 Identities=23% Similarity=0.437 Sum_probs=14.1
Q ss_pred ccccccccccCCCeeEeCCCCccccH
Q 036238 46 CAVCLSKISSAEPLQVLPTCHHGFHA 71 (106)
Q Consensus 46 C~ICl~~~~~~~~~~~l~~C~H~Fh~ 71 (106)
=-||.+. ..++.... |||.|+.
T Consensus 60 lfi~qs~---~~rv~rce-cghsf~d 81 (165)
T COG4647 60 LFICQSA---QKRVIRCE-CGHSFGD 81 (165)
T ss_pred EEEEecc---cccEEEEe-ccccccC
Confidence 3455544 24566676 9999985
No 208
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=40.86 E-value=16 Score=23.23 Aligned_cols=22 Identities=18% Similarity=0.572 Sum_probs=16.6
Q ss_pred eCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238 62 LPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 62 l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
.++|||+|+- -+..||.|.++.
T Consensus 32 C~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcC--------CcccCCCCCCCC
Confidence 3469999887 456799998874
No 209
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=39.66 E-value=20 Score=22.74 Aligned_cols=25 Identities=16% Similarity=0.394 Sum_probs=13.7
Q ss_pred cccccccccccccCCCeeEeCCCCc
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHH 67 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H 67 (106)
+..|+.|-.++-..+.-+..|.|||
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 3458888776543444444444554
No 210
>PF15353 HECA: Headcase protein family homologue
Probab=39.41 E-value=19 Score=21.99 Aligned_cols=15 Identities=20% Similarity=0.572 Sum_probs=12.8
Q ss_pred CCccccHhhHHHHHh
Q 036238 65 CHHGFHAHCIDAWLV 79 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~ 79 (106)
.|+..|.+|++.|=.
T Consensus 40 ~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 40 FGQYMHRECFEKWED 54 (107)
T ss_pred CCCchHHHHHHHHHH
Confidence 578999999999954
No 211
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=39.29 E-value=39 Score=20.25 Aligned_cols=36 Identities=17% Similarity=0.279 Sum_probs=27.7
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL 80 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 80 (106)
...|.||-+++..++.....+ .-..|.+|+..-..+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 457999999998887777775 445899998875543
No 212
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=39.05 E-value=26 Score=24.48 Aligned_cols=31 Identities=23% Similarity=0.341 Sum_probs=21.2
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhh
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHC 73 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~C 73 (106)
......|+.|-. +. ......|.||+.+|.+=
T Consensus 306 ~~tS~~C~~cg~-~~--~r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 306 YYTSKTCPCCGH-LS--GRLFKCPRCGFVHDRDV 336 (364)
T ss_pred CCCcccccccCC-cc--ceeEECCCCCCeehhhH
Confidence 344568999988 32 34455667999999754
No 213
>PLN02248 cellulose synthase-like protein
Probab=39.04 E-value=34 Score=29.16 Aligned_cols=29 Identities=17% Similarity=0.393 Sum_probs=25.8
Q ss_pred CCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 64 TCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
.|++..|.+|...-++....||-|+.+..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccc
Confidence 48899999999999998889999998874
No 214
>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=38.80 E-value=22 Score=16.61 Aligned_cols=9 Identities=44% Similarity=1.087 Sum_probs=6.1
Q ss_pred CCCCcccCC
Q 036238 81 HSTCPLCRA 89 (106)
Q Consensus 81 ~~~CP~Cr~ 89 (106)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 446888865
No 215
>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=38.41 E-value=49 Score=21.74 Aligned_cols=18 Identities=33% Similarity=0.471 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 036238 3 IALIVLYYSIHLCSKRMA 20 (106)
Q Consensus 3 ~~~i~~~~~~~~~~~~~~ 20 (106)
.+++++||.++.++-+..
T Consensus 105 s~l~i~yfvir~~R~r~~ 122 (163)
T PF06679_consen 105 SALAILYFVIRTFRLRRR 122 (163)
T ss_pred HHHHHHHHHHHHHhhccc
Confidence 345556666666655543
No 216
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=37.61 E-value=3.5 Score=21.76 Aligned_cols=33 Identities=24% Similarity=0.567 Sum_probs=17.7
Q ss_pred cccc--cccccccCC--Ce--eEeCCCCccccHhhHHHH
Q 036238 45 DCAV--CLSKISSAE--PL--QVLPTCHHGFHAHCIDAW 77 (106)
Q Consensus 45 ~C~I--Cl~~~~~~~--~~--~~l~~C~H~Fh~~Ci~~w 77 (106)
-|+- |-..+...+ .. +.-+.|++.||..|-..|
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 766654322 22 445569999999887776
No 217
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=37.13 E-value=16 Score=19.90 Aligned_cols=11 Identities=27% Similarity=1.222 Sum_probs=8.8
Q ss_pred CCcccCCCCCC
Q 036238 83 TCPLCRANVPF 93 (106)
Q Consensus 83 ~CP~Cr~~~~~ 93 (106)
.||+||.++..
T Consensus 10 aCP~~kg~L~~ 20 (60)
T COG2835 10 ACPVCKGPLVY 20 (60)
T ss_pred eccCcCCcceE
Confidence 59999998754
No 218
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=36.98 E-value=17 Score=28.61 Aligned_cols=37 Identities=22% Similarity=0.429 Sum_probs=24.2
Q ss_pred Ccccccccccccccc---C--C-----CeeEeCCCCccccHhhHHHHH
Q 036238 41 GISADCAVCLSKISS---A--E-----PLQVLPTCHHGFHAHCIDAWL 78 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~---~--~-----~~~~l~~C~H~Fh~~Ci~~wl 78 (106)
+....|+||.|.|+. . + ..+-+. =|-+||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchHH
Confidence 445569999999863 1 0 112232 47899999987754
No 219
>PF12669 P12: Virus attachment protein p12 family
Probab=36.83 E-value=59 Score=17.41 Aligned_cols=12 Identities=25% Similarity=0.357 Sum_probs=6.4
Q ss_pred hHHHHHHHHHHH
Q 036238 2 LIALIVLYYSIH 13 (106)
Q Consensus 2 l~~~i~~~~~~~ 13 (106)
++++|++.+++.
T Consensus 3 II~~Ii~~~~~~ 14 (58)
T PF12669_consen 3 IIGIIILAAVAY 14 (58)
T ss_pred eHHHHHHHHHHH
Confidence 455555555554
No 220
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.73 E-value=13 Score=21.43 Aligned_cols=10 Identities=20% Similarity=0.667 Sum_probs=6.9
Q ss_pred cccccccccc
Q 036238 45 DCAVCLSKIS 54 (106)
Q Consensus 45 ~C~ICl~~~~ 54 (106)
.|+||--++.
T Consensus 3 lCP~C~v~l~ 12 (88)
T COG3809 3 LCPICGVELV 12 (88)
T ss_pred ccCcCCceee
Confidence 4888876654
No 221
>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=36.34 E-value=33 Score=18.74 Aligned_cols=9 Identities=22% Similarity=0.892 Sum_probs=4.2
Q ss_pred EeCCCCccc
Q 036238 61 VLPTCHHGF 69 (106)
Q Consensus 61 ~l~~C~H~F 69 (106)
+.|.|||.|
T Consensus 55 ~Cp~c~r~Y 63 (68)
T PF03966_consen 55 ICPECGREY 63 (68)
T ss_dssp EETTTTEEE
T ss_pred EcCCCCCEE
Confidence 344455544
No 222
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=36.23 E-value=35 Score=21.69 Aligned_cols=14 Identities=29% Similarity=0.541 Sum_probs=10.9
Q ss_pred CCCcccCCCCCCCC
Q 036238 82 STCPLCRANVPFCS 95 (106)
Q Consensus 82 ~~CP~Cr~~~~~~~ 95 (106)
..||.|...+....
T Consensus 124 f~Cp~Cg~~l~~~d 137 (147)
T smart00531 124 FTCPRCGEELEEDD 137 (147)
T ss_pred EECCCCCCEEEEcC
Confidence 67999999886543
No 223
>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=35.74 E-value=36 Score=21.52 Aligned_cols=9 Identities=22% Similarity=0.541 Sum_probs=4.3
Q ss_pred CcccCCCCC
Q 036238 84 CPLCRANVP 92 (106)
Q Consensus 84 CP~Cr~~~~ 92 (106)
||.|-..+.
T Consensus 29 cP~cg~~~~ 37 (129)
T TIGR02300 29 SPYTGEQFP 37 (129)
T ss_pred CCCcCCccC
Confidence 555544443
No 224
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS 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=35.01 E-value=12 Score=17.97 Aligned_cols=11 Identities=45% Similarity=1.047 Sum_probs=7.8
Q ss_pred CCCCcccCCCC
Q 036238 81 HSTCPLCRANV 91 (106)
Q Consensus 81 ~~~CP~Cr~~~ 91 (106)
...||.|..++
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 45699997744
No 225
>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=34.90 E-value=22 Score=23.21 Aligned_cols=44 Identities=18% Similarity=0.426 Sum_probs=25.4
Q ss_pred ccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 48 VCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 48 ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
||+.-=...+....-|.=.+.||..|-.+-+ ..||.|..++...
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 5555432222222222344678888877643 4599998888654
No 226
>PRK00420 hypothetical protein; Validated
Probab=34.84 E-value=32 Score=21.15 Aligned_cols=11 Identities=27% Similarity=0.594 Sum_probs=7.2
Q ss_pred ccccccccccc
Q 036238 44 ADCAVCLSKIS 54 (106)
Q Consensus 44 ~~C~ICl~~~~ 54 (106)
..||.|-.++.
T Consensus 24 ~~CP~Cg~pLf 34 (112)
T PRK00420 24 KHCPVCGLPLF 34 (112)
T ss_pred CCCCCCCCcce
Confidence 46887766654
No 227
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=34.69 E-value=29 Score=19.89 Aligned_cols=9 Identities=22% Similarity=0.818 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 036238 4 ALIVLYYSI 12 (106)
Q Consensus 4 ~~i~~~~~~ 12 (106)
++++++|+.
T Consensus 10 ~~~~i~yf~ 18 (82)
T PF02699_consen 10 IIFVIFYFL 18 (82)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHhhh
Confidence 333444443
No 228
>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=34.36 E-value=15 Score=23.81 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=15.1
Q ss_pred CCccccHhhHHHHHhC-----------CCCCcccCCCCC
Q 036238 65 CHHGFHAHCIDAWLVL-----------HSTCPLCRANVP 92 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~~-----------~~~CP~Cr~~~~ 92 (106)
+||.|- .|+.. --+||+|-..-.
T Consensus 10 ~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~V 43 (148)
T PF06676_consen 10 NGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTEV 43 (148)
T ss_pred CCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCeE
Confidence 668775 48853 236999966443
No 229
>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=34.23 E-value=23 Score=17.11 Aligned_cols=28 Identities=18% Similarity=0.495 Sum_probs=15.6
Q ss_pred eCCCCccccHhhHHHHHhCCCCCcccCCCC
Q 036238 62 LPTCHHGFHAHCIDAWLVLHSTCPLCRANV 91 (106)
Q Consensus 62 l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 91 (106)
.+.||++||..=--. +....|..|..++
T Consensus 4 C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L 31 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPP--KVEGVCDNCGGEL 31 (36)
T ss_dssp ETTTTEEEETTTB----SSTTBCTTTTEBE
T ss_pred cCCCCCccccccCCC--CCCCccCCCCCee
Confidence 346999999622110 1244577776544
No 230
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=34.08 E-value=8.6 Score=26.13 Aligned_cols=22 Identities=32% Similarity=0.652 Sum_probs=14.4
Q ss_pred HhhHHHHHh-CCCCCcccCCCCC
Q 036238 71 AHCIDAWLV-LHSTCPLCRANVP 92 (106)
Q Consensus 71 ~~Ci~~wl~-~~~~CP~Cr~~~~ 92 (106)
..||++--. .++-||+||....
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 457766333 3567999998654
No 231
>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=33.93 E-value=11 Score=20.03 Aligned_cols=9 Identities=56% Similarity=1.412 Sum_probs=3.1
Q ss_pred CCcccCCCC
Q 036238 83 TCPLCRANV 91 (106)
Q Consensus 83 ~CP~Cr~~~ 91 (106)
+||+|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 466665443
No 232
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=33.89 E-value=16 Score=28.52 Aligned_cols=57 Identities=21% Similarity=0.244 Sum_probs=45.3
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFCSP 96 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 96 (106)
......|.+|+......+....+..+.|-+...++..|-.....||.++..+.....
T Consensus 257 q~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~~~ 313 (553)
T KOG4430|consen 257 QENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTISK 313 (553)
T ss_pred hhcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccccc
Confidence 344567999998877666656666688999999999999889999999998875443
No 233
>PRK11827 hypothetical protein; Provisional
Probab=33.69 E-value=14 Score=20.11 Aligned_cols=19 Identities=21% Similarity=0.550 Sum_probs=13.2
Q ss_pred HHHhCCCCCcccCCCCCCC
Q 036238 76 AWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 76 ~wl~~~~~CP~Cr~~~~~~ 94 (106)
+|+..--.||.|+.++...
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 3455556799999888653
No 234
>PF12773 DZR: Double zinc ribbon
Probab=33.40 E-value=38 Score=17.00 Aligned_cols=11 Identities=45% Similarity=1.053 Sum_probs=6.9
Q ss_pred CCCcccCCCCC
Q 036238 82 STCPLCRANVP 92 (106)
Q Consensus 82 ~~CP~Cr~~~~ 92 (106)
..||.|.+.+.
T Consensus 30 ~~C~~Cg~~~~ 40 (50)
T PF12773_consen 30 KICPNCGAENP 40 (50)
T ss_pred CCCcCCcCCCc
Confidence 45777766543
No 235
>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=33.16 E-value=27 Score=21.50 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=9.5
Q ss_pred CeeEeCCCCccccH
Q 036238 58 PLQVLPTCHHGFHA 71 (106)
Q Consensus 58 ~~~~l~~C~H~Fh~ 71 (106)
+++... |||.|+.
T Consensus 23 k~vkc~-CGh~f~d 35 (112)
T PF08882_consen 23 KVVKCD-CGHEFCD 35 (112)
T ss_pred ceeecc-CCCeecC
Confidence 455564 9999985
No 236
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=32.90 E-value=25 Score=20.53 Aligned_cols=24 Identities=17% Similarity=0.524 Sum_probs=17.5
Q ss_pred HHHhCCCCCcccCCCCCCCCCCCC
Q 036238 76 AWLVLHSTCPLCRANVPFCSPQRA 99 (106)
Q Consensus 76 ~wl~~~~~CP~Cr~~~~~~~~~~~ 99 (106)
.+++-...||.|-.++......+.
T Consensus 3 g~Lk~~~~C~~CG~d~~~~~adDg 26 (86)
T PF06170_consen 3 GYLKVAPRCPHCGLDYSHARADDG 26 (86)
T ss_pred ccccCCCcccccCCccccCCcCcc
Confidence 456678889999988887655443
No 237
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=32.87 E-value=9.5 Score=27.30 Aligned_cols=46 Identities=24% Similarity=0.639 Sum_probs=31.0
Q ss_pred ccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----CCCCcccCCC
Q 036238 44 ADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----HSTCPLCRAN 90 (106)
Q Consensus 44 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~ 90 (106)
.-|+||-.. ++++.+....+|.--||.-|+..=+.. +-+|.+|-..
T Consensus 282 k~csicgts-enddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~ 331 (336)
T KOG1244|consen 282 KYCSICGTS-ENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEE 331 (336)
T ss_pred ceeccccCc-CCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHH
Confidence 348888765 344566677679999999998875543 2347776443
No 238
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=32.12 E-value=37 Score=20.61 Aligned_cols=9 Identities=22% Similarity=0.833 Sum_probs=5.5
Q ss_pred CCccccHhh
Q 036238 65 CHHGFHAHC 73 (106)
Q Consensus 65 C~H~Fh~~C 73 (106)
|+|.||..|
T Consensus 58 Ck~R~CP~C 66 (111)
T PF14319_consen 58 CKNRHCPSC 66 (111)
T ss_pred ccCcCCCCC
Confidence 666666555
No 239
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=31.97 E-value=22 Score=17.37 Aligned_cols=12 Identities=25% Similarity=0.736 Sum_probs=8.6
Q ss_pred CCcccCCCCCCC
Q 036238 83 TCPLCRANVPFC 94 (106)
Q Consensus 83 ~CP~Cr~~~~~~ 94 (106)
.||.|+..+...
T Consensus 1 ~CP~C~~~l~~~ 12 (41)
T PF13453_consen 1 KCPRCGTELEPV 12 (41)
T ss_pred CcCCCCcccceE
Confidence 489998876543
No 240
>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=31.81 E-value=47 Score=15.66 Aligned_cols=10 Identities=20% Similarity=0.743 Sum_probs=5.5
Q ss_pred cccccccccc
Q 036238 45 DCAVCLSKIS 54 (106)
Q Consensus 45 ~C~ICl~~~~ 54 (106)
.|+-|-..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666655543
No 241
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=31.60 E-value=27 Score=23.15 Aligned_cols=17 Identities=41% Similarity=0.917 Sum_probs=13.2
Q ss_pred CCCCcccCCCCCCCCCC
Q 036238 81 HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 81 ~~~CP~Cr~~~~~~~~~ 97 (106)
...||+|++.++-+.|.
T Consensus 169 ~~~c~~~~~~~~~~~~~ 185 (187)
T TIGR01367 169 SHECPLCLAGIPAEKPG 185 (187)
T ss_pred cccCChhhcCCCCcCCC
Confidence 35699999988876664
No 242
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=30.78 E-value=46 Score=17.85 Aligned_cols=18 Identities=28% Similarity=0.704 Sum_probs=12.9
Q ss_pred CCCCcccCCCCCCCCCCC
Q 036238 81 HSTCPLCRANVPFCSPQR 98 (106)
Q Consensus 81 ~~~CP~Cr~~~~~~~~~~ 98 (106)
+..||.|-.+.....|.+
T Consensus 17 k~~CP~CG~~t~~~~P~r 34 (56)
T PRK13130 17 KEICPVCGGKTKNPHPPR 34 (56)
T ss_pred cccCcCCCCCCCCCCCCC
Confidence 567999988776655544
No 243
>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=30.56 E-value=44 Score=16.21 Aligned_cols=34 Identities=21% Similarity=0.386 Sum_probs=22.4
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHH
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDA 76 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~ 76 (106)
...|.+|.+.+........-+.|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4469999888764321222334888899999875
No 244
>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=30.47 E-value=15 Score=18.76 Aligned_cols=25 Identities=28% Similarity=0.464 Sum_probs=13.6
Q ss_pred CCCccccHhhHHHHHhCCCCCcccCC
Q 036238 64 TCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
.|||.|-..--.. -.....||.|..
T Consensus 10 ~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 10 ACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 4888776521000 012346999987
No 245
>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=30.15 E-value=18 Score=16.40 Aligned_cols=11 Identities=36% Similarity=0.987 Sum_probs=5.9
Q ss_pred CCcccCCCCCC
Q 036238 83 TCPLCRANVPF 93 (106)
Q Consensus 83 ~CP~Cr~~~~~ 93 (106)
.||.|-+++..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48999888763
No 246
>TIGR00165 S18 ribosomal protein S18. This ribosomal small subunit protein is found in all eubacteria so far, as well as in chloroplasts. YER050C from Saccharomyces cerevisiae and a related protein from Caenorhabditis elegans appear to be homologous and may represent mitochondrial forms. The trusted cutoff is set high enough that these two candidate S18 proteins are not categorized automatically.
Probab=29.89 E-value=16 Score=20.50 Aligned_cols=14 Identities=14% Similarity=0.439 Sum_probs=8.8
Q ss_pred CCCCCcccCCCCCC
Q 036238 80 LHSTCPLCRANVPF 93 (106)
Q Consensus 80 ~~~~CP~Cr~~~~~ 93 (106)
.+..||.|......
T Consensus 4 r~k~c~~~~~~~~~ 17 (70)
T TIGR00165 4 RKKYCRFTAEGIQF 17 (70)
T ss_pred CCCCCCccCCCCCc
Confidence 34568888755443
No 247
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=29.19 E-value=49 Score=16.66 Aligned_cols=8 Identities=25% Similarity=0.812 Sum_probs=3.8
Q ss_pred CcccCCCC
Q 036238 84 CPLCRANV 91 (106)
Q Consensus 84 CP~Cr~~~ 91 (106)
||.|...+
T Consensus 22 C~~CG~rI 29 (44)
T smart00659 22 CRECGYRI 29 (44)
T ss_pred CCCCCceE
Confidence 55554443
No 248
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=29.13 E-value=16 Score=19.74 Aligned_cols=11 Identities=36% Similarity=1.141 Sum_probs=5.6
Q ss_pred CCcccCCCCCC
Q 036238 83 TCPLCRANVPF 93 (106)
Q Consensus 83 ~CP~Cr~~~~~ 93 (106)
.||+|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 59999887754
No 249
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=29.06 E-value=20 Score=31.21 Aligned_cols=51 Identities=31% Similarity=0.578 Sum_probs=36.4
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhCC----CCCcccCCCC
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLH----STCPLCRANV 91 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~CP~Cr~~~ 91 (106)
+.....|.+|+...++...+.-. .|.-.||..|++.-+..- =.||-||..-
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 34455799999987653333223 488889999999988753 3599998765
No 250
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=28.34 E-value=37 Score=17.74 Aligned_cols=12 Identities=25% Similarity=0.606 Sum_probs=7.1
Q ss_pred cccccccccccc
Q 036238 43 SADCAVCLSKIS 54 (106)
Q Consensus 43 ~~~C~ICl~~~~ 54 (106)
...|+.|...++
T Consensus 6 ~Y~C~~Cg~~~~ 17 (49)
T COG1996 6 EYKCARCGREVE 17 (49)
T ss_pred EEEhhhcCCeee
Confidence 445666666654
No 251
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=28.16 E-value=43 Score=28.45 Aligned_cols=38 Identities=21% Similarity=0.454 Sum_probs=27.3
Q ss_pred CCCCcccccccccccccc-CCCeeEeCCCCccccHhhHH
Q 036238 38 LSLGISADCAVCLSKISS-AEPLQVLPTCHHGFHAHCID 75 (106)
Q Consensus 38 ~~~~~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~ 75 (106)
...+.+..|.||++.=.. ...++....|+=..|.+|..
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 344667789999986433 24556666799889999977
No 252
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=28.04 E-value=22 Score=15.52 Aligned_cols=11 Identities=27% Similarity=0.851 Sum_probs=7.2
Q ss_pred CCcccCCCCCC
Q 036238 83 TCPLCRANVPF 93 (106)
Q Consensus 83 ~CP~Cr~~~~~ 93 (106)
.||.|.+.+.+
T Consensus 4 ~C~~CgR~F~~ 14 (25)
T PF13913_consen 4 PCPICGRKFNP 14 (25)
T ss_pred cCCCCCCEECH
Confidence 47777766644
No 253
>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=27.30 E-value=42 Score=19.84 Aligned_cols=39 Identities=18% Similarity=0.508 Sum_probs=27.9
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVPFC 94 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 94 (106)
...|-||-..+. .=||.||..|.. ++..|.||-..+...
T Consensus 44 ~~~C~~CK~~v~---------q~g~~YCq~CAY----kkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVH---------QPGAKYCQTCAY----KKGICAMCGKKILDT 82 (90)
T ss_pred Cccccccccccc---------cCCCccChhhhc----ccCcccccCCeeccc
Confidence 457999966643 147789999954 467899998877543
No 254
>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=27.10 E-value=50 Score=16.69 Aligned_cols=36 Identities=19% Similarity=0.276 Sum_probs=21.8
Q ss_pred Ccccccccccccccc-CCCeeEeCCCCccccHhhHHH
Q 036238 41 GISADCAVCLSKISS-AEPLQVLPTCHHGFHAHCIDA 76 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~-~~~~~~l~~C~H~Fh~~Ci~~ 76 (106)
.....|.+|.+.+-. ......-..|+=..|..|+..
T Consensus 9 ~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp SSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 345579999988821 122233335999999999764
No 255
>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=26.93 E-value=39 Score=17.05 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=8.1
Q ss_pred CCCCcccCCCCC
Q 036238 81 HSTCPLCRANVP 92 (106)
Q Consensus 81 ~~~CP~Cr~~~~ 92 (106)
...||+|-.+|.
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 356888877664
No 256
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.39 E-value=34 Score=20.34 Aligned_cols=26 Identities=23% Similarity=0.491 Sum_probs=16.5
Q ss_pred CCCccccHhhHHHHHhCCCCCcccCCCCCC
Q 036238 64 TCHHGFHAHCIDAWLVLHSTCPLCRANVPF 93 (106)
Q Consensus 64 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 93 (106)
.||-.|-.+= ++.-..||.|++.+-.
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~Ie 88 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEWIE 88 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhccc
Confidence 5777666522 2234669999987744
No 257
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=26.39 E-value=47 Score=18.08 Aligned_cols=15 Identities=27% Similarity=0.682 Sum_probs=11.6
Q ss_pred CCCCcccCCCCCCCC
Q 036238 81 HSTCPLCRANVPFCS 95 (106)
Q Consensus 81 ~~~CP~Cr~~~~~~~ 95 (106)
++.||+|-+++++..
T Consensus 8 H~HC~VCg~aIp~de 22 (64)
T COG4068 8 HRHCVVCGKAIPPDE 22 (64)
T ss_pred CccccccCCcCCCcc
Confidence 566999999887654
No 258
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=25.75 E-value=1.1e+02 Score=20.14 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=12.9
Q ss_pred HhCCCCCcccCCCCCCC
Q 036238 78 LVLHSTCPLCRANVPFC 94 (106)
Q Consensus 78 l~~~~~CP~Cr~~~~~~ 94 (106)
+.....||.|..++...
T Consensus 133 ~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEY 149 (178)
T ss_pred hhcCCcCCCCCCCCeec
Confidence 34578899999888654
No 259
>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=25.36 E-value=28 Score=26.78 Aligned_cols=13 Identities=38% Similarity=0.677 Sum_probs=7.9
Q ss_pred ccccccccccccc
Q 036238 43 SADCAVCLSKISS 55 (106)
Q Consensus 43 ~~~C~ICl~~~~~ 55 (106)
..-|+-||+++..
T Consensus 26 ~~yCp~CL~~~p~ 38 (483)
T PF05502_consen 26 SYYCPNCLFEVPS 38 (483)
T ss_pred eeECccccccCCh
Confidence 3457777777643
No 260
>PF14353 CpXC: CpXC protein
Probab=25.12 E-value=73 Score=19.48 Aligned_cols=12 Identities=33% Similarity=0.789 Sum_probs=8.0
Q ss_pred CCCcccCCCCCC
Q 036238 82 STCPLCRANVPF 93 (106)
Q Consensus 82 ~~CP~Cr~~~~~ 93 (106)
.+||.|...+..
T Consensus 39 ~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 39 FTCPSCGHKFRL 50 (128)
T ss_pred EECCCCCCceec
Confidence 358888776643
No 261
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=25.11 E-value=47 Score=20.32 Aligned_cols=10 Identities=30% Similarity=0.737 Sum_probs=6.7
Q ss_pred cccccccccc
Q 036238 45 DCAVCLSKIS 54 (106)
Q Consensus 45 ~C~ICl~~~~ 54 (106)
.|+.|-++|.
T Consensus 5 ~cp~c~sEyt 14 (112)
T COG2824 5 PCPKCNSEYT 14 (112)
T ss_pred CCCccCCceE
Confidence 5777777664
No 262
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=25.04 E-value=30 Score=27.06 Aligned_cols=48 Identities=23% Similarity=0.580 Sum_probs=31.3
Q ss_pred CCCccccccccccccccCCCeeEeCCCCccccHhhHHHHHhC----C-C---CCccc
Q 036238 39 SLGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVL----H-S---TCPLC 87 (106)
Q Consensus 39 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~-~---~CP~C 87 (106)
.....+.|.||...-.. ........|.-.||..|+..=|.+ + + .|.-|
T Consensus 540 ~~a~~ysCgiCkks~dQ-Hll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 540 PKAMNYSCGICKKSTDQ-HLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred ccccceeeeeeccchhh-HHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 34556789999877432 122233347767999999987764 1 1 38888
No 263
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=24.84 E-value=67 Score=24.74 Aligned_cols=49 Identities=16% Similarity=0.449 Sum_probs=31.6
Q ss_pred cccccccccccc-cCCCeeEeCCCCccccHhhHHHHHhC--------CCCCcccCCCC
Q 036238 43 SADCAVCLSKIS-SAEPLQVLPTCHHGFHAHCIDAWLVL--------HSTCPLCRANV 91 (106)
Q Consensus 43 ~~~C~ICl~~~~-~~~~~~~l~~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~ 91 (106)
...|.+|..-.. ...+++....|+--||..|-+...+. .--|-.|...-
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 445999986533 33355555568888999998775542 12388886543
No 264
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=24.56 E-value=1.3e+02 Score=16.61 Aligned_cols=18 Identities=0% Similarity=0.263 Sum_probs=8.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 036238 2 LIALIVLYYSIHLCSKRM 19 (106)
Q Consensus 2 l~~~i~~~~~~~~~~~~~ 19 (106)
++|+++-||..+...++.
T Consensus 8 i~G~~~Gff~ar~~~~k~ 25 (64)
T PF03672_consen 8 IVGAVIGFFIARKYMEKQ 25 (64)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444433
No 265
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=24.46 E-value=1.3e+02 Score=16.26 Aligned_cols=13 Identities=15% Similarity=0.291 Sum_probs=6.4
Q ss_pred HHHHHHHhhhccc
Q 036238 13 HLCSKRMAQSNDR 25 (106)
Q Consensus 13 ~~~~~~~~~~~~~ 25 (106)
...-+++..++..
T Consensus 24 tl~IRri~~~s~~ 36 (58)
T PF13314_consen 24 TLFIRRILINSNA 36 (58)
T ss_pred HHHHHHHHHhccc
Confidence 4445555554433
No 266
>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=24.41 E-value=28 Score=13.92 Aligned_cols=8 Identities=38% Similarity=1.373 Sum_probs=3.0
Q ss_pred CcccCCCC
Q 036238 84 CPLCRANV 91 (106)
Q Consensus 84 CP~Cr~~~ 91 (106)
||+|...+
T Consensus 3 C~~C~~~~ 10 (24)
T PF13894_consen 3 CPICGKSF 10 (24)
T ss_dssp -SSTS-EE
T ss_pred CcCCCCcC
Confidence 55554443
No 267
>PRK11595 DNA utilization protein GntX; Provisional
Probab=24.33 E-value=67 Score=21.84 Aligned_cols=22 Identities=27% Similarity=0.594 Sum_probs=10.0
Q ss_pred ccHhhHHHHHhCCCCCcccCCC
Q 036238 69 FHAHCIDAWLVLHSTCPLCRAN 90 (106)
Q Consensus 69 Fh~~Ci~~wl~~~~~CP~Cr~~ 90 (106)
.|..|...+-.....||.|-.+
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCc
Confidence 4445544432223346666544
No 268
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=24.30 E-value=40 Score=27.06 Aligned_cols=48 Identities=25% Similarity=0.598 Sum_probs=28.9
Q ss_pred cccccccccccccCC-CeeEeCCCCccccHhhHHHHHhC-----CCCCcccCCC
Q 036238 43 SADCAVCLSKISSAE-PLQVLPTCHHGFHAHCIDAWLVL-----HSTCPLCRAN 90 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~ 90 (106)
...|++|-..=.... .......|+-.+|..|...|+.. .-.||-||.-
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 345666643322111 12222359999999999999974 2348888753
No 269
>COG4280 Predicted membrane protein [Function unknown]
Probab=24.18 E-value=79 Score=21.78 Aligned_cols=22 Identities=5% Similarity=0.202 Sum_probs=16.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhc
Q 036238 2 LIALIVLYYSIHLCSKRMAQSN 23 (106)
Q Consensus 2 l~~~i~~~~~~~~~~~~~~~~~ 23 (106)
+.+.++++|+.++.++..+...
T Consensus 69 v~gvLLllFG~rw~Rsavrr~a 90 (236)
T COG4280 69 VSGVLLLLFGYRWIRSAVRRFA 90 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 5678899999988877666544
No 270
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=24.04 E-value=32 Score=25.64 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=13.6
Q ss_pred CccccccccccccccCCCeeEeC
Q 036238 41 GISADCAVCLSKISSAEPLQVLP 63 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~~~~~l~ 63 (106)
..++-|++|-+.... -+...+.
T Consensus 13 dl~ElCPVCGDkVSG-YHYGLLT 34 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG-YHYGLLT 34 (475)
T ss_pred ccccccccccCcccc-ceeeeee
Confidence 345579999888653 3444443
No 271
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=23.72 E-value=57 Score=27.25 Aligned_cols=35 Identities=17% Similarity=0.325 Sum_probs=24.3
Q ss_pred ccccccccccccCC-----CeeEeCCCCccccHhhHHHHH
Q 036238 44 ADCAVCLSKISSAE-----PLQVLPTCHHGFHAHCIDAWL 78 (106)
Q Consensus 44 ~~C~ICl~~~~~~~-----~~~~l~~C~H~Fh~~Ci~~wl 78 (106)
..|..|...|..-. .-.....||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 46999999985311 111233699999999987654
No 272
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.48 E-value=47 Score=23.73 Aligned_cols=9 Identities=22% Similarity=0.885 Sum_probs=5.8
Q ss_pred CCCcccCCC
Q 036238 82 STCPLCRAN 90 (106)
Q Consensus 82 ~~CP~Cr~~ 90 (106)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 467777654
No 273
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=23.39 E-value=27 Score=21.62 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 036238 2 LIALIVLYYSIHLCSKRM 19 (106)
Q Consensus 2 l~~~i~~~~~~~~~~~~~ 19 (106)
++..++++++.++|.+|.
T Consensus 34 VILgiLLliGCWYckRRS 51 (118)
T PF14991_consen 34 VILGILLLIGCWYCKRRS 51 (118)
T ss_dssp ------------------
T ss_pred HHHHHHHHHhheeeeecc
Confidence 455566667777776653
No 274
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=23.06 E-value=1.6e+02 Score=16.93 Aligned_cols=21 Identities=24% Similarity=0.341 Sum_probs=12.6
Q ss_pred ChHHHHHHHHHHHHHHHHHhh
Q 036238 1 MLIALIVLYYSIHLCSKRMAQ 21 (106)
Q Consensus 1 vl~~~i~~~~~~~~~~~~~~~ 21 (106)
|++.+.++++++.+-++....
T Consensus 21 VfvFL~lLI~~i~~ms~l~~~ 41 (82)
T PRK02919 21 VLAFLFLLIFAIRGMSALINR 41 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 355666666776666655443
No 275
>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=23.06 E-value=44 Score=17.37 Aligned_cols=11 Identities=36% Similarity=0.827 Sum_probs=7.6
Q ss_pred CCCCCcccCCC
Q 036238 80 LHSTCPLCRAN 90 (106)
Q Consensus 80 ~~~~CP~Cr~~ 90 (106)
..-.||+|..+
T Consensus 33 ~~w~CP~C~a~ 43 (50)
T cd00730 33 DDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCc
Confidence 34579999764
No 276
>COG4827 Predicted transporter [General function prediction only]
Probab=22.83 E-value=51 Score=22.75 Aligned_cols=12 Identities=50% Similarity=1.071 Sum_probs=8.5
Q ss_pred cccccccccccc
Q 036238 42 ISADCAVCLSKI 53 (106)
Q Consensus 42 ~~~~C~ICl~~~ 53 (106)
-..-||+|+...
T Consensus 110 is~PCPvCl~av 121 (239)
T COG4827 110 ISMPCPVCLGAV 121 (239)
T ss_pred EecCCcHHHHHH
Confidence 345699998764
No 277
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=22.57 E-value=58 Score=20.55 Aligned_cols=22 Identities=23% Similarity=0.680 Sum_probs=15.3
Q ss_pred CCccccHhhHHHHHhCCCCCcccCCCCCCCC
Q 036238 65 CHHGFHAHCIDAWLVLHSTCPLCRANVPFCS 95 (106)
Q Consensus 65 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 95 (106)
|+|.||. ++.||.|+.-+.+..
T Consensus 103 C~~~Y~G---------eK~C~~C~tGiYS~e 124 (128)
T PF11682_consen 103 CGNHYHG---------EKYCPKCGTGIYSIE 124 (128)
T ss_pred CCCccCc---------CEecCCCCCccccee
Confidence 7776665 467999988776543
No 278
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=22.32 E-value=19 Score=26.04 Aligned_cols=40 Identities=20% Similarity=0.621 Sum_probs=25.0
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHHHHHhCCCCCcccCCCCC
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRANVP 92 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 92 (106)
...|+-|.+.+.+. .++.-. =.|+||..|+. |-+|++.+.
T Consensus 92 GTKCsaC~~GIpPt-qVVRkA-qd~VYHl~CF~--------C~iC~R~L~ 131 (383)
T KOG4577|consen 92 GTKCSACQEGIPPT-QVVRKA-QDFVYHLHCFA--------CFICKRQLA 131 (383)
T ss_pred CCcchhhcCCCChH-HHHHHh-hcceeehhhhh--------hHhhhcccc
Confidence 44688887776543 333332 67899999865 556655543
No 279
>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=22.27 E-value=62 Score=16.67 Aligned_cols=6 Identities=50% Similarity=1.901 Sum_probs=3.0
Q ss_pred CcccCC
Q 036238 84 CPLCRA 89 (106)
Q Consensus 84 CP~Cr~ 89 (106)
||+|..
T Consensus 34 CPiC~~ 39 (54)
T PF05605_consen 34 CPICSS 39 (54)
T ss_pred CCCchh
Confidence 555543
No 280
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=22.21 E-value=2e+02 Score=17.48 Aligned_cols=6 Identities=50% Similarity=0.496 Sum_probs=2.2
Q ss_pred HHHHhh
Q 036238 16 SKRMAQ 21 (106)
Q Consensus 16 ~~~~~~ 21 (106)
..++.+
T Consensus 21 ~wr~~~ 26 (107)
T PF15330_consen 21 AWRMKQ 26 (107)
T ss_pred HHHHHh
Confidence 333333
No 281
>PHA00626 hypothetical protein
Probab=21.98 E-value=67 Score=17.34 Aligned_cols=17 Identities=12% Similarity=0.047 Sum_probs=10.9
Q ss_pred eEeCCCCccccHhhHHH
Q 036238 60 QVLPTCHHGFHAHCIDA 76 (106)
Q Consensus 60 ~~l~~C~H~Fh~~Ci~~ 76 (106)
...+.||+.|-.+-+-+
T Consensus 24 YkCkdCGY~ft~~~~~~ 40 (59)
T PHA00626 24 YVCCDCGYNDSKDAFGE 40 (59)
T ss_pred eEcCCCCCeechhhhhh
Confidence 44556888887765443
No 282
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=21.96 E-value=73 Score=13.85 Aligned_cols=8 Identities=50% Similarity=1.119 Sum_probs=3.7
Q ss_pred CCCcccCC
Q 036238 82 STCPLCRA 89 (106)
Q Consensus 82 ~~CP~Cr~ 89 (106)
+.||.|-+
T Consensus 17 ~fC~~CG~ 24 (26)
T PF13248_consen 17 KFCPNCGA 24 (26)
T ss_pred ccChhhCC
Confidence 33555543
No 283
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=21.79 E-value=58 Score=19.47 Aligned_cols=7 Identities=14% Similarity=0.800 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 036238 5 LIVLYYS 11 (106)
Q Consensus 5 ~i~~~~~ 11 (106)
++++||+
T Consensus 18 ~~~ifyF 24 (97)
T COG1862 18 IFAIFYF 24 (97)
T ss_pred HHHHHHH
Confidence 3333443
No 284
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=21.17 E-value=97 Score=17.64 Aligned_cols=24 Identities=21% Similarity=0.678 Sum_probs=17.9
Q ss_pred cccCCCeeEeCCCCccccHhhHHHH
Q 036238 53 ISSAEPLQVLPTCHHGFHAHCIDAW 77 (106)
Q Consensus 53 ~~~~~~~~~l~~C~H~Fh~~Ci~~w 77 (106)
+..++.+.+.|.|.|.| ..|..++
T Consensus 41 ~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 41 LAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred CCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 34567788888999987 7787664
No 285
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.91 E-value=89 Score=25.99 Aligned_cols=37 Identities=24% Similarity=0.553 Sum_probs=26.0
Q ss_pred CCccccccccccccccCCCeeEeCCCCccccHhhHHHHH
Q 036238 40 LGISADCAVCLSKISSAEPLQVLPTCHHGFHAHCIDAWL 78 (106)
Q Consensus 40 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 78 (106)
......|-.|....-. ..-+.+.||+.+|..|++.|.
T Consensus 226 ~g~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 226 KGIREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cCcchhhhhhcccccc--eeEEccccCCeeeecchhhcc
Confidence 3445578889776431 123345699999999999995
No 286
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.55 E-value=43 Score=24.27 Aligned_cols=32 Identities=22% Similarity=0.590 Sum_probs=22.3
Q ss_pred cccccccccccccCCCeeEeCCCCccccHhhHH
Q 036238 43 SADCAVCLSKISSAEPLQVLPTCHHGFHAHCID 75 (106)
Q Consensus 43 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 75 (106)
-..|.||..+-... .......|.--||.-|+-
T Consensus 314 C~lC~IC~~P~~E~-E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIES-EHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccch-heeccccccCCCCccccc
Confidence 44599999886554 344444588888888865
No 287
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=20.43 E-value=1.1e+02 Score=19.91 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 036238 4 ALIVLYYSIHLCSKRMAQ 21 (106)
Q Consensus 4 ~~i~~~~~~~~~~~~~~~ 21 (106)
.+++++..+.+|++|.++
T Consensus 41 liiiiivli~lcssRKkK 58 (189)
T PF05568_consen 41 LIIIIIVLIYLCSSRKKK 58 (189)
T ss_pred HHHHHHHHHHHHhhhhHH
Confidence 334444445666665554
No 288
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.24 E-value=38 Score=17.68 Aligned_cols=11 Identities=27% Similarity=0.981 Sum_probs=7.1
Q ss_pred CCCcccCCCCC
Q 036238 82 STCPLCRANVP 92 (106)
Q Consensus 82 ~~CP~Cr~~~~ 92 (106)
..||+|..||.
T Consensus 13 KICpvCqRPFs 23 (54)
T COG4338 13 KICPVCQRPFS 23 (54)
T ss_pred hhhhhhcCchH
Confidence 34777777664
No 289
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.15 E-value=2.2e+02 Score=21.10 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=31.3
Q ss_pred CccccccccccccccCC----------CeeEeCCCCccccHhhHHHHHhCCCCCcccCC
Q 036238 41 GISADCAVCLSKISSAE----------PLQVLPTCHHGFHAHCIDAWLVLHSTCPLCRA 89 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 89 (106)
.....|-.|...|..+. .-...+.|...||.+|-.---++-..||.|..
T Consensus 360 ~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 360 PKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred CCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 44557999998774321 11123358888999996654444566998854
No 290
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=20.10 E-value=21 Score=25.48 Aligned_cols=53 Identities=25% Similarity=0.463 Sum_probs=30.9
Q ss_pred CccccccccccccccC----C--CeeEeC----CCCccccHhhHHHHHhC----------CCCCcccCCCCCCCCCC
Q 036238 41 GISADCAVCLSKISSA----E--PLQVLP----TCHHGFHAHCIDAWLVL----------HSTCPLCRANVPFCSPQ 97 (106)
Q Consensus 41 ~~~~~C~ICl~~~~~~----~--~~~~l~----~C~H~Fh~~Ci~~wl~~----------~~~CP~Cr~~~~~~~~~ 97 (106)
.....|.+|-..|..- . ..-.++ .||-.|.. .||.+ -..||.|.+.|.+++.-
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR----PWLLQGHiRTHTGEKPF~C~hC~kAFADRSNL 231 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR----PWLLQGHIRTHTGEKPFSCPHCGKAFADRSNL 231 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccc----hHHhhcccccccCCCCccCCcccchhcchHHH
Confidence 3455799997776421 0 111233 35555553 78864 22599999988766543
Done!