Query 045579
Match_columns 104
No_of_seqs 231 out of 1310
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 03:28:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045579.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045579hhsearch_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 6E-21 1.3E-25 96.5 2.5 44 51-95 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.8 1.9E-20 4.1E-25 128.9 4.7 76 25-102 205-281 (348)
3 PHA02929 N1R/p28-like protein; 99.7 3E-17 6.5E-22 108.7 4.6 76 25-101 148-229 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.7 3.1E-17 6.7E-22 91.1 3.5 45 50-95 19-73 (73)
5 COG5540 RING-finger-containing 99.6 4.1E-16 8.8E-21 105.2 3.7 52 49-101 322-374 (374)
6 PF13920 zf-C3HC4_3: Zinc fing 99.6 2.5E-15 5.5E-20 77.7 2.9 47 50-100 2-49 (50)
7 COG5243 HRD1 HRD ubiquitin lig 99.6 3.5E-15 7.5E-20 103.1 3.9 52 47-99 284-345 (491)
8 KOG0320 Predicted E3 ubiquitin 99.5 5.8E-15 1.3E-19 92.9 4.1 53 48-102 129-181 (187)
9 KOG0317 Predicted E3 ubiquitin 99.5 4E-15 8.7E-20 99.7 3.5 50 48-101 237-286 (293)
10 PF13923 zf-C3HC4_2: Zinc fing 99.5 1.1E-14 2.4E-19 71.6 3.2 39 53-94 1-39 (39)
11 PF12861 zf-Apc11: Anaphase-pr 99.5 1.5E-14 3.3E-19 81.4 3.2 52 49-100 20-83 (85)
12 cd00162 RING RING-finger (Real 99.5 3.2E-14 6.9E-19 71.2 3.6 44 52-98 1-45 (45)
13 PLN03208 E3 ubiquitin-protein 99.5 5.3E-14 1.2E-18 90.2 4.0 49 48-100 16-80 (193)
14 PHA02926 zinc finger-like prot 99.5 3.9E-14 8.4E-19 92.2 3.2 52 48-99 168-230 (242)
15 KOG0823 Predicted E3 ubiquitin 99.4 1.3E-13 2.9E-18 90.0 4.1 51 47-101 44-97 (230)
16 PF14634 zf-RING_5: zinc-RING 99.4 2.4E-13 5.2E-18 68.4 3.0 44 52-96 1-44 (44)
17 PF15227 zf-C3HC4_4: zinc fing 99.4 4.3E-13 9.4E-18 66.8 3.0 38 53-94 1-42 (42)
18 KOG0802 E3 ubiquitin ligase [P 99.4 1.8E-13 3.9E-18 100.4 2.2 52 48-100 289-342 (543)
19 PF00097 zf-C3HC4: Zinc finger 99.4 4.1E-13 8.8E-18 66.5 2.4 39 53-94 1-41 (41)
20 smart00184 RING Ring finger. E 99.3 3.8E-12 8.3E-17 61.5 3.0 38 53-94 1-39 (39)
21 smart00504 Ubox Modified RING 99.3 8E-12 1.7E-16 67.2 3.9 45 51-99 2-46 (63)
22 COG5194 APC11 Component of SCF 99.2 1.6E-11 3.5E-16 67.8 2.9 29 71-99 53-81 (88)
23 TIGR00599 rad18 DNA repair pro 99.2 1.7E-11 3.6E-16 86.7 3.6 50 47-100 23-72 (397)
24 KOG1493 Anaphase-promoting com 99.2 2.4E-12 5.1E-17 70.5 -0.7 51 49-99 19-81 (84)
25 COG5574 PEX10 RING-finger-cont 99.2 1.3E-11 2.9E-16 82.0 2.3 51 48-102 213-265 (271)
26 smart00744 RINGv The RING-vari 99.1 1E-10 2.3E-15 60.0 2.9 42 52-95 1-49 (49)
27 PF13445 zf-RING_UBOX: RING-ty 99.1 1.5E-10 3.3E-15 57.7 3.0 38 53-92 1-43 (43)
28 KOG0828 Predicted E3 ubiquitin 99.0 2.4E-10 5.3E-15 81.8 2.0 52 48-100 569-635 (636)
29 KOG1734 Predicted RING-contain 99.0 1.8E-10 4E-15 77.0 1.1 51 48-99 222-281 (328)
30 TIGR00570 cdk7 CDK-activating 98.9 7.6E-10 1.7E-14 75.8 3.3 51 49-100 2-55 (309)
31 KOG2164 Predicted E3 ubiquitin 98.9 5.3E-10 1.2E-14 80.2 2.6 47 50-100 186-237 (513)
32 KOG0287 Postreplication repair 98.9 4.2E-10 9E-15 77.5 1.7 48 49-100 22-69 (442)
33 PF11793 FANCL_C: FANCL C-term 98.9 2.8E-10 6E-15 62.6 0.3 50 50-99 2-66 (70)
34 KOG2930 SCF ubiquitin ligase, 98.9 1.1E-09 2.3E-14 63.4 2.2 51 48-98 44-107 (114)
35 KOG0804 Cytoplasmic Zn-finger 98.9 7.1E-10 1.5E-14 78.5 1.5 49 48-99 173-222 (493)
36 KOG2177 Predicted E3 ubiquitin 98.8 1.3E-09 2.8E-14 73.4 1.7 45 48-96 11-55 (386)
37 COG5219 Uncharacterized conser 98.8 1.2E-09 2.7E-14 83.2 1.6 52 48-99 1467-1523(1525)
38 PF04564 U-box: U-box domain; 98.8 3.8E-09 8.2E-14 58.5 3.1 48 49-100 3-51 (73)
39 COG5432 RAD18 RING-finger-cont 98.8 3E-09 6.6E-14 72.0 2.3 47 49-99 24-70 (391)
40 KOG4265 Predicted E3 ubiquitin 98.7 8E-09 1.7E-13 71.5 3.0 49 48-100 288-337 (349)
41 KOG4445 Uncharacterized conser 98.7 7.5E-10 1.6E-14 75.1 -2.4 56 46-102 111-189 (368)
42 KOG1039 Predicted E3 ubiquitin 98.7 7.1E-09 1.5E-13 72.3 2.1 52 48-99 159-221 (344)
43 KOG0827 Predicted E3 ubiquitin 98.6 1.2E-08 2.7E-13 71.4 2.0 49 50-98 4-55 (465)
44 KOG0311 Predicted E3 ubiquitin 98.6 2.6E-09 5.5E-14 73.9 -1.5 50 48-100 41-91 (381)
45 KOG0825 PHD Zn-finger protein 98.6 1.7E-08 3.7E-13 75.9 2.3 53 48-101 121-173 (1134)
46 KOG1645 RING-finger-containing 98.6 5.2E-08 1.1E-12 68.6 3.3 50 49-98 3-55 (463)
47 PF14835 zf-RING_6: zf-RING of 98.5 1.3E-08 2.7E-13 54.4 -0.4 46 50-100 7-52 (65)
48 KOG4172 Predicted E3 ubiquitin 98.5 1.6E-08 3.4E-13 52.2 -0.3 47 50-100 7-55 (62)
49 KOG0824 Predicted E3 ubiquitin 98.4 9.1E-08 2E-12 65.1 1.8 48 49-100 6-54 (324)
50 KOG4159 Predicted E3 ubiquitin 98.4 1.9E-07 4.2E-12 66.3 3.1 49 48-100 82-130 (398)
51 KOG1785 Tyrosine kinase negati 98.4 1.5E-07 3.4E-12 66.4 1.4 51 48-102 367-419 (563)
52 KOG0978 E3 ubiquitin ligase in 98.2 3.3E-07 7.1E-12 68.7 0.7 49 49-101 642-691 (698)
53 KOG0297 TNF receptor-associate 98.2 6.8E-07 1.5E-11 63.7 2.0 53 48-103 19-71 (391)
54 PF11789 zf-Nse: Zinc-finger o 98.1 1.8E-06 4E-11 45.5 1.5 42 49-93 10-53 (57)
55 KOG1952 Transcription factor N 98.0 2.1E-06 4.5E-11 65.3 1.7 50 48-97 189-245 (950)
56 KOG2879 Predicted E3 ubiquitin 98.0 8.6E-06 1.9E-10 55.0 4.1 51 48-101 237-289 (298)
57 PF14570 zf-RING_4: RING/Ubox 98.0 6.2E-06 1.3E-10 41.8 2.4 45 53-98 1-47 (48)
58 KOG2660 Locus-specific chromos 97.9 1.4E-06 3.1E-11 60.0 -0.5 49 49-100 14-62 (331)
59 KOG3970 Predicted E3 ubiquitin 97.9 9.6E-06 2.1E-10 53.5 3.0 52 49-102 49-108 (299)
60 KOG3039 Uncharacterized conser 97.9 1.2E-05 2.5E-10 53.8 3.3 54 49-102 220-273 (303)
61 COG5236 Uncharacterized conser 97.9 1.9E-05 4.1E-10 55.2 4.4 49 46-98 57-107 (493)
62 KOG0801 Predicted E3 ubiquitin 97.9 3.7E-06 8.1E-11 52.8 0.9 41 37-78 164-204 (205)
63 KOG1941 Acetylcholine receptor 97.9 4.9E-06 1.1E-10 58.8 1.0 47 49-96 364-413 (518)
64 KOG1428 Inhibitor of type V ad 97.8 1.2E-05 2.6E-10 64.7 2.9 52 47-99 3483-3544(3738)
65 PF12906 RINGv: RING-variant d 97.8 2.1E-05 4.5E-10 39.9 2.4 40 53-94 1-47 (47)
66 PHA02862 5L protein; Provision 97.8 1.6E-05 3.4E-10 49.1 2.2 45 50-99 2-53 (156)
67 PHA03096 p28-like protein; Pro 97.7 1.7E-05 3.6E-10 54.4 1.8 36 51-86 179-218 (284)
68 KOG4692 Predicted E3 ubiquitin 97.7 2.8E-05 6.1E-10 54.5 2.8 49 48-100 420-468 (489)
69 PF05883 Baculo_RING: Baculovi 97.7 1.2E-05 2.7E-10 49.0 0.7 35 50-85 26-66 (134)
70 PF10367 Vps39_2: Vacuolar sor 97.7 1.5E-05 3.3E-10 46.7 0.9 33 48-82 76-108 (109)
71 PHA02825 LAP/PHD finger-like p 97.6 4.4E-05 9.6E-10 47.8 2.5 47 48-99 6-59 (162)
72 KOG1814 Predicted E3 ubiquitin 97.6 4.2E-05 9.1E-10 54.3 2.2 48 48-96 182-237 (445)
73 COG5152 Uncharacterized conser 97.5 3.6E-05 7.8E-10 50.0 1.1 45 50-98 196-240 (259)
74 KOG1813 Predicted E3 ubiquitin 97.4 4.8E-05 1E-09 52.0 0.9 47 50-100 241-287 (313)
75 KOG4275 Predicted E3 ubiquitin 97.4 2.1E-05 4.5E-10 53.7 -0.8 42 50-99 300-342 (350)
76 KOG1571 Predicted E3 ubiquitin 97.4 0.00015 3.3E-09 50.7 2.8 45 48-99 303-347 (355)
77 PF14447 Prok-RING_4: Prokaryo 97.4 0.00011 2.4E-09 38.2 1.5 48 50-103 7-54 (55)
78 PF04641 Rtf2: Rtf2 RING-finge 97.3 0.0004 8.6E-09 47.2 4.1 54 47-101 110-163 (260)
79 KOG4739 Uncharacterized protei 97.3 7.2E-05 1.6E-09 49.7 0.3 45 52-100 5-49 (233)
80 KOG1002 Nucleotide excision re 97.2 0.00012 2.5E-09 53.9 1.2 47 48-98 534-585 (791)
81 KOG4185 Predicted E3 ubiquitin 97.1 0.00032 6.9E-09 48.2 2.1 48 50-98 3-54 (296)
82 PF08746 zf-RING-like: RING-li 97.0 0.00031 6.7E-09 34.9 1.2 41 53-94 1-43 (43)
83 PF03854 zf-P11: P-11 zinc fin 97.0 0.00041 8.9E-09 34.9 1.5 43 52-100 4-47 (50)
84 KOG1940 Zn-finger protein [Gen 97.0 0.0002 4.3E-09 48.9 0.2 46 50-96 158-204 (276)
85 KOG2114 Vacuolar assembly/sort 97.0 0.00036 7.8E-09 53.6 1.5 43 50-98 840-882 (933)
86 PF14446 Prok-RING_1: Prokaryo 96.9 0.0013 2.7E-08 34.2 2.9 35 49-83 4-38 (54)
87 COG5222 Uncharacterized conser 96.9 0.0007 1.5E-08 46.7 2.1 45 50-97 274-319 (427)
88 COG5175 MOT2 Transcriptional r 96.8 0.0011 2.3E-08 46.6 2.8 52 49-101 13-66 (480)
89 KOG0826 Predicted E3 ubiquitin 96.8 0.0017 3.6E-08 45.2 3.5 46 48-96 298-343 (357)
90 KOG0827 Predicted E3 ubiquitin 96.8 6.2E-05 1.3E-09 53.3 -3.6 52 48-100 194-246 (465)
91 KOG1001 Helicase-like transcri 96.8 0.0003 6.4E-09 53.5 -0.3 45 51-100 455-501 (674)
92 KOG3053 Uncharacterized conser 96.7 0.00076 1.6E-08 45.4 1.5 53 46-99 16-82 (293)
93 KOG2034 Vacuolar sorting prote 96.7 0.00075 1.6E-08 52.1 1.4 36 48-85 815-850 (911)
94 PF07800 DUF1644: Protein of u 96.7 0.0019 4.2E-08 40.6 3.0 36 50-85 2-46 (162)
95 PF10272 Tmpp129: Putative tra 96.5 0.0019 4.2E-08 45.7 2.4 26 74-99 313-351 (358)
96 KOG0298 DEAD box-containing he 96.4 0.0011 2.4E-08 53.0 0.7 47 49-98 1152-1198(1394)
97 KOG3268 Predicted E3 ubiquitin 96.4 0.0029 6.3E-08 40.6 2.5 28 72-99 190-228 (234)
98 KOG3800 Predicted E3 ubiquitin 96.3 0.0037 8E-08 42.9 2.8 47 52-98 2-50 (300)
99 KOG0309 Conserved WD40 repeat- 96.1 0.0037 7.9E-08 48.0 2.2 40 52-93 1030-1069(1081)
100 KOG1100 Predicted E3 ubiquitin 95.9 0.0035 7.6E-08 41.3 1.2 39 53-99 161-200 (207)
101 KOG2932 E3 ubiquitin ligase in 95.8 0.0022 4.8E-08 44.4 -0.2 48 50-102 90-137 (389)
102 KOG3002 Zn finger protein [Gen 95.8 0.0054 1.2E-07 42.5 1.6 46 48-101 46-93 (299)
103 KOG1812 Predicted E3 ubiquitin 95.8 0.0038 8.3E-08 44.7 0.9 37 49-86 145-182 (384)
104 KOG3899 Uncharacterized conser 95.5 0.0075 1.6E-07 41.6 1.6 28 72-99 325-365 (381)
105 KOG2817 Predicted E3 ubiquitin 95.4 0.015 3.3E-07 41.4 2.7 49 48-97 332-383 (394)
106 COG5220 TFB3 Cdk activating ki 95.3 0.0063 1.4E-07 40.9 0.6 48 49-96 9-61 (314)
107 KOG1609 Protein involved in mR 95.1 0.013 2.8E-07 40.4 1.6 49 50-99 78-134 (323)
108 PF07975 C1_4: TFIIH C1-like d 95.0 0.021 4.5E-07 29.3 1.8 43 53-95 2-50 (51)
109 PF05290 Baculo_IE-1: Baculovi 94.8 0.022 4.9E-07 34.9 2.0 53 49-101 79-134 (140)
110 KOG4367 Predicted Zn-finger pr 94.6 0.017 3.7E-07 42.0 1.3 34 48-85 2-35 (699)
111 COG5183 SSM4 Protein involved 94.6 0.037 8E-07 43.1 3.1 54 48-103 10-70 (1175)
112 KOG0825 PHD Zn-finger protein 94.2 0.027 5.8E-07 43.7 1.6 53 48-100 94-155 (1134)
113 KOG3161 Predicted E3 ubiquitin 94.0 0.018 3.9E-07 43.7 0.4 41 50-92 11-51 (861)
114 TIGR00622 ssl1 transcription f 93.8 0.11 2.3E-06 31.1 3.4 46 50-95 55-110 (112)
115 PF02891 zf-MIZ: MIZ/SP-RING z 93.1 0.063 1.4E-06 27.3 1.5 43 51-97 3-50 (50)
116 KOG1829 Uncharacterized conser 92.9 0.033 7.2E-07 41.9 0.3 44 48-95 509-557 (580)
117 KOG0802 E3 ubiquitin ligase [P 92.7 0.06 1.3E-06 40.3 1.4 46 48-101 477-522 (543)
118 KOG1815 Predicted E3 ubiquitin 92.5 0.075 1.6E-06 38.8 1.7 36 48-86 68-103 (444)
119 KOG4362 Transcriptional regula 92.4 0.03 6.4E-07 42.8 -0.5 46 49-98 20-68 (684)
120 KOG0269 WD40 repeat-containing 92.3 0.15 3.3E-06 39.4 3.1 41 51-93 780-820 (839)
121 PF13901 DUF4206: Domain of un 92.2 0.12 2.5E-06 34.0 2.1 43 48-96 150-197 (202)
122 PF00628 PHD: PHD-finger; Int 91.9 0.091 2E-06 26.4 1.1 44 52-96 1-50 (51)
123 PF06906 DUF1272: Protein of u 91.8 0.25 5.5E-06 25.7 2.7 43 52-99 7-52 (57)
124 smart00249 PHD PHD zinc finger 91.8 0.12 2.7E-06 24.9 1.5 31 52-83 1-31 (47)
125 PF13717 zinc_ribbon_4: zinc-r 91.3 0.18 4E-06 23.8 1.7 26 52-77 4-36 (36)
126 KOG3579 Predicted E3 ubiquitin 91.2 0.31 6.6E-06 33.8 3.3 41 48-88 266-306 (352)
127 PF13719 zinc_ribbon_5: zinc-r 90.7 0.2 4.3E-06 23.8 1.5 26 52-77 4-36 (37)
128 KOG2807 RNA polymerase II tran 90.7 0.29 6.2E-06 34.5 2.8 60 36-96 314-375 (378)
129 PF10571 UPF0547: Uncharacteri 90.5 0.15 3.3E-06 22.4 1.0 23 52-76 2-24 (26)
130 KOG4718 Non-SMC (structural ma 90.3 0.13 2.9E-06 34.0 1.0 43 49-94 180-222 (235)
131 KOG1812 Predicted E3 ubiquitin 90.0 0.17 3.7E-06 36.4 1.4 44 49-93 305-350 (384)
132 PF01363 FYVE: FYVE zinc finge 90.0 0.16 3.5E-06 27.2 1.0 37 49-85 8-44 (69)
133 KOG3113 Uncharacterized conser 89.1 0.53 1.1E-05 32.1 3.1 52 48-101 109-160 (293)
134 KOG2066 Vacuolar assembly/sort 89.0 0.16 3.4E-06 39.5 0.6 45 49-95 783-831 (846)
135 KOG3842 Adaptor protein Pellin 88.7 0.7 1.5E-05 32.6 3.5 56 48-104 339-419 (429)
136 KOG2068 MOT2 transcription fac 88.3 0.61 1.3E-05 32.8 3.1 51 48-99 247-298 (327)
137 cd00065 FYVE FYVE domain; Zinc 88.1 0.4 8.7E-06 24.5 1.7 36 50-85 2-37 (57)
138 smart00132 LIM Zinc-binding do 88.1 0.35 7.7E-06 22.3 1.4 37 53-99 2-38 (39)
139 PF06844 DUF1244: Protein of u 87.3 0.41 8.9E-06 25.8 1.4 11 76-86 12-22 (68)
140 PF14569 zf-UDP: Zinc-binding 86.5 1.3 2.9E-05 24.7 3.2 51 49-99 8-62 (80)
141 KOG3005 GIY-YIG type nuclease 85.0 0.62 1.3E-05 31.9 1.7 49 50-98 182-242 (276)
142 smart00064 FYVE Protein presen 84.8 0.97 2.1E-05 24.0 2.2 36 50-85 10-45 (68)
143 COG5109 Uncharacterized conser 83.2 1.1 2.3E-05 31.6 2.3 47 48-95 334-383 (396)
144 smart00647 IBR In Between Ring 82.8 0.35 7.7E-06 25.2 -0.1 21 64-84 38-58 (64)
145 PF00412 LIM: LIM domain; Int 82.3 0.6 1.3E-05 23.8 0.6 38 53-100 1-38 (58)
146 PF10235 Cript: Microtubule-as 82.2 0.95 2.1E-05 26.0 1.4 42 50-104 44-85 (90)
147 PF07191 zinc-ribbons_6: zinc- 81.6 0.084 1.8E-06 28.8 -2.9 39 51-98 2-40 (70)
148 KOG3039 Uncharacterized conser 81.0 3.3 7.1E-05 28.3 3.8 34 48-85 41-74 (303)
149 PF07649 C1_3: C1-like domain; 80.4 1.7 3.7E-05 19.4 1.7 29 52-81 2-30 (30)
150 COG3813 Uncharacterized protei 79.8 1.3 2.8E-05 24.4 1.3 25 73-99 28-52 (84)
151 PLN02189 cellulose synthase 79.7 2.2 4.7E-05 34.6 3.1 51 49-99 33-87 (1040)
152 PF13832 zf-HC5HC2H_2: PHD-zin 79.5 1.6 3.4E-05 25.5 1.8 34 49-84 54-88 (110)
153 PF14311 DUF4379: Domain of un 79.3 1.4 3.1E-05 22.6 1.4 24 70-94 32-55 (55)
154 KOG0824 Predicted E3 ubiquitin 78.4 0.8 1.7E-05 32.0 0.4 48 48-98 103-150 (324)
155 smart00531 TFIIE Transcription 77.7 2.6 5.7E-05 26.1 2.5 37 66-102 99-137 (147)
156 PF04423 Rad50_zn_hook: Rad50 77.4 0.79 1.7E-05 23.5 0.1 11 89-99 21-31 (54)
157 PF05605 zf-Di19: Drought indu 76.1 0.14 3.1E-06 26.3 -3.0 11 88-98 31-41 (54)
158 PF10497 zf-4CXXC_R1: Zinc-fin 75.0 5.3 0.00011 23.5 3.2 24 73-96 37-69 (105)
159 cd00350 rubredoxin_like Rubred 74.3 1.8 3.9E-05 19.8 0.9 20 72-97 7-26 (33)
160 PLN02436 cellulose synthase A 72.9 4.2 9.2E-05 33.2 3.0 51 49-99 35-89 (1094)
161 PRK11088 rrmA 23S rRNA methylt 72.2 3 6.5E-05 28.3 1.9 26 51-77 3-28 (272)
162 PF13771 zf-HC5HC2H: PHD-like 72.1 2.6 5.6E-05 23.6 1.4 33 50-83 36-68 (90)
163 PF02318 FYVE_2: FYVE-type zin 71.8 2.8 6E-05 25.1 1.5 46 49-96 53-102 (118)
164 KOG4577 Transcription factor L 71.8 0.91 2E-05 31.6 -0.7 45 50-104 92-136 (383)
165 KOG2979 Protein involved in DN 70.8 2.7 5.8E-05 28.7 1.4 42 50-94 176-219 (262)
166 PLN02195 cellulose synthase A 70.7 7.3 0.00016 31.6 3.9 52 49-100 5-60 (977)
167 PF09943 DUF2175: Uncharacteri 70.2 4.8 0.0001 23.6 2.2 33 51-85 3-35 (101)
168 PF12773 DZR: Double zinc ribb 70.1 3.6 7.8E-05 20.4 1.5 15 89-103 30-44 (50)
169 PRK05978 hypothetical protein; 70.0 3.1 6.7E-05 26.1 1.4 24 73-101 42-65 (148)
170 PF10083 DUF2321: Uncharacteri 69.3 2.7 5.8E-05 26.6 1.0 44 54-100 8-51 (158)
171 PF06937 EURL: EURL protein; 68.7 5 0.00011 27.7 2.3 44 49-92 29-74 (285)
172 COG3492 Uncharacterized protei 68.7 2.9 6.2E-05 24.1 1.0 11 76-86 43-53 (104)
173 PF06676 DUF1178: Protein of u 67.8 1.7 3.8E-05 27.2 0.0 23 72-99 10-43 (148)
174 PF07282 OrfB_Zn_ribbon: Putat 67.7 5.8 0.00013 21.0 2.1 35 49-83 27-63 (69)
175 PF03119 DNA_ligase_ZBD: NAD-d 67.6 2 4.2E-05 19.1 0.2 11 90-100 1-11 (28)
176 COG1592 Rubrerythrin [Energy p 66.8 2 4.3E-05 27.5 0.1 25 66-97 134-158 (166)
177 PF13240 zinc_ribbon_2: zinc-r 66.4 3.9 8.4E-05 17.2 1.0 10 88-97 13-22 (23)
178 PF14169 YdjO: Cold-inducible 66.3 2.7 5.8E-05 22.2 0.6 14 87-100 38-51 (59)
179 KOG2113 Predicted RNA binding 66.0 6.9 0.00015 27.8 2.6 44 49-98 342-386 (394)
180 PRK06266 transcription initiat 65.1 12 0.00026 24.1 3.5 31 70-103 121-151 (178)
181 PLN02915 cellulose synthase A 65.0 12 0.00026 30.7 4.0 52 48-99 13-68 (1044)
182 PF05191 ADK_lid: Adenylate ki 64.4 2.4 5.3E-05 20.0 0.2 28 70-99 5-32 (36)
183 KOG2231 Predicted E3 ubiquitin 64.4 5.4 0.00012 31.0 2.0 44 52-99 2-52 (669)
184 TIGR00373 conserved hypothetic 63.6 13 0.00028 23.5 3.3 19 85-103 125-143 (158)
185 PLN02638 cellulose synthase A 63.5 9.1 0.0002 31.4 3.2 51 49-99 16-70 (1079)
186 KOG1815 Predicted E3 ubiquitin 63.3 2.1 4.5E-05 31.4 -0.3 37 50-87 226-267 (444)
187 PF06750 DiS_P_DiS: Bacterial 62.9 8.8 0.00019 22.0 2.3 38 49-99 32-69 (92)
188 KOG1729 FYVE finger containing 62.1 1.3 2.9E-05 30.8 -1.4 38 49-87 213-250 (288)
189 PF09723 Zn-ribbon_8: Zinc rib 61.9 1.4 2.9E-05 21.4 -1.0 25 71-96 10-34 (42)
190 PF11023 DUF2614: Protein of u 61.8 8.2 0.00018 23.1 2.1 27 67-99 70-96 (114)
191 KOG2071 mRNA cleavage and poly 61.2 7.2 0.00016 29.8 2.2 35 48-84 511-556 (579)
192 KOG4323 Polycomb-like PHD Zn-f 60.1 5.7 0.00012 29.5 1.5 37 49-85 167-204 (464)
193 PF04216 FdhE: Protein involve 59.6 0.63 1.4E-05 32.1 -3.3 48 48-97 170-220 (290)
194 smart00734 ZnF_Rad18 Rad18-lik 58.6 4.5 9.8E-05 17.5 0.5 9 90-98 3-11 (26)
195 PF03107 C1_2: C1 domain; Int 58.5 6.2 0.00013 17.5 1.0 29 52-81 2-30 (30)
196 PRK11827 hypothetical protein; 56.8 3.5 7.5E-05 21.9 -0.1 17 83-99 3-19 (60)
197 PF13248 zf-ribbon_3: zinc-rib 56.8 8.2 0.00018 16.5 1.2 9 89-97 17-25 (26)
198 KOG3799 Rab3 effector RIM1 and 56.7 2.1 4.5E-05 26.5 -1.0 42 48-97 63-116 (169)
199 PF09237 GAGA: GAGA factor; I 56.5 3.7 8.1E-05 21.1 0.0 9 90-98 26-34 (54)
200 COG4847 Uncharacterized protei 56.2 17 0.00036 21.2 2.6 36 49-86 5-40 (103)
201 KOG1356 Putative transcription 55.5 4.6 0.0001 32.1 0.4 47 49-97 228-280 (889)
202 PF02148 zf-UBP: Zn-finger in 55.5 9.5 0.00021 20.0 1.5 24 53-79 1-24 (63)
203 PLN02400 cellulose synthase 54.9 9.9 0.00021 31.2 2.1 51 49-99 35-89 (1085)
204 PRK00418 DNA gyrase inhibitor; 54.5 8.1 0.00018 20.6 1.1 11 89-99 7-17 (62)
205 KOG1538 Uncharacterized conser 53.4 6.9 0.00015 30.8 1.0 34 68-101 1046-1079(1081)
206 TIGR00627 tfb4 transcription f 51.2 11 0.00023 26.2 1.6 9 89-97 270-278 (279)
207 PRK01343 zinc-binding protein; 50.9 8.6 0.00019 20.2 0.9 12 88-99 9-20 (57)
208 PF00130 C1_1: Phorbol esters/ 50.6 16 0.00036 18.0 1.9 34 49-83 10-45 (53)
209 PF10146 zf-C4H2: Zinc finger- 50.0 12 0.00026 25.2 1.7 23 76-98 196-218 (230)
210 PF03966 Trm112p: Trm112p-like 49.1 13 0.00028 19.8 1.4 7 70-76 57-63 (68)
211 PF04710 Pellino: Pellino; In 49.1 5.7 0.00012 28.9 0.0 54 49-103 327-405 (416)
212 PF09356 Phage_BR0599: Phage c 48.8 22 0.00049 19.7 2.4 24 60-84 41-64 (80)
213 TIGR02098 MJ0042_CXXC MJ0042 f 48.6 19 0.00041 16.6 1.8 10 52-61 4-13 (38)
214 PLN02248 cellulose synthase-li 47.7 17 0.00036 30.2 2.3 28 72-99 150-177 (1135)
215 KOG2041 WD40 repeat protein [G 47.7 14 0.0003 29.5 1.8 46 49-98 1130-1184(1189)
216 PF11682 DUF3279: Protein of u 47.5 11 0.00024 23.1 1.1 22 72-102 103-124 (128)
217 PF01485 IBR: IBR domain; Int 47.3 1.5 3.3E-05 22.6 -2.5 34 51-84 19-58 (64)
218 KOG4430 Topoisomerase I-bindin 46.8 7.3 0.00016 29.6 0.3 53 48-100 258-310 (553)
219 TIGR02605 CxxC_CxxC_SSSS putat 45.9 4 8.7E-05 20.4 -0.9 25 71-96 10-34 (52)
220 KOG4451 Uncharacterized conser 45.7 14 0.00031 25.0 1.5 24 76-99 251-274 (286)
221 COG1645 Uncharacterized Zn-fin 44.9 15 0.00033 22.6 1.4 25 50-74 28-52 (131)
222 smart00109 C1 Protein kinase C 44.9 20 0.00043 17.1 1.6 33 50-83 11-44 (49)
223 COG4647 AcxC Acetone carboxyla 44.5 13 0.00029 22.9 1.1 23 52-78 59-81 (165)
224 TIGR01562 FdhE formate dehydro 44.3 4.4 9.6E-05 28.4 -1.1 48 49-97 183-233 (305)
225 PRK14559 putative protein seri 43.7 11 0.00023 29.3 0.8 10 90-99 29-38 (645)
226 PF07227 DUF1423: Protein of u 43.0 19 0.00042 26.7 1.9 32 52-84 130-164 (446)
227 PF15446 zf-PHD-like: PHD/FYVE 43.0 14 0.0003 23.8 1.1 30 53-83 2-34 (175)
228 KOG1819 FYVE finger-containing 42.4 8.8 0.00019 29.1 0.1 35 49-83 900-934 (990)
229 COG5627 MMS21 DNA repair prote 42.2 13 0.00027 25.4 0.8 41 50-93 189-231 (275)
230 PF05502 Dynactin_p62: Dynacti 41.7 13 0.00029 27.8 1.0 16 49-64 25-40 (483)
231 COG2835 Uncharacterized conser 41.4 11 0.00025 19.9 0.4 11 89-99 9-19 (60)
232 COG4306 Uncharacterized protei 41.3 16 0.00034 22.5 1.1 23 75-100 29-51 (160)
233 COG4068 Uncharacterized protei 41.1 16 0.00035 19.3 0.9 16 88-103 8-23 (64)
234 cd00029 C1 Protein kinase C co 41.0 20 0.00043 17.3 1.3 33 50-83 11-45 (50)
235 COG3357 Predicted transcriptio 40.9 13 0.00027 21.5 0.6 27 72-102 64-90 (97)
236 COG1545 Predicted nucleic-acid 40.7 14 0.00031 22.8 0.8 22 69-98 32-53 (140)
237 KOG4443 Putative transcription 40.0 17 0.00037 28.3 1.3 26 72-97 41-71 (694)
238 PF14353 CpXC: CpXC protein 39.9 21 0.00045 21.4 1.5 9 90-98 40-48 (128)
239 PRK03564 formate dehydrogenase 39.6 14 0.0003 26.1 0.8 46 49-96 186-234 (309)
240 KOG3476 Microtubule-associated 39.4 6.1 0.00013 22.6 -0.8 42 50-104 54-95 (100)
241 PF08274 PhnA_Zn_Ribbon: PhnA 39.2 8.1 0.00017 17.5 -0.3 24 52-75 4-28 (30)
242 PF15353 HECA: Headcase protei 39.0 22 0.00049 21.0 1.4 14 72-85 40-53 (107)
243 KOG4021 Mitochondrial ribosoma 38.3 14 0.00031 24.4 0.6 22 78-99 97-119 (239)
244 KOG2462 C2H2-type Zn-finger pr 38.1 19 0.00041 25.0 1.2 26 72-101 193-228 (279)
245 PF13894 zf-C2H2_4: C2H2-type 38.1 3.3 7.2E-05 16.5 -1.7 8 91-98 3-10 (24)
246 TIGR00686 phnA alkylphosphonat 37.2 20 0.00044 21.3 1.1 25 51-75 3-28 (109)
247 PF13453 zf-TFIIB: Transcripti 37.0 12 0.00025 17.9 0.1 9 91-99 2-10 (41)
248 COG5319 Uncharacterized protei 37.0 11 0.00024 23.1 -0.1 21 72-97 8-41 (142)
249 KOG1244 Predicted transcriptio 36.9 5.3 0.00011 27.7 -1.6 50 50-100 281-334 (336)
250 COG0675 Transposase and inacti 36.9 31 0.00066 23.6 2.1 32 48-82 307-338 (364)
251 PF00096 zf-C2H2: Zinc finger, 36.7 2.7 5.8E-05 17.1 -2.1 8 91-98 3-10 (23)
252 KOG1245 Chromatin remodeling c 36.1 13 0.00028 31.6 0.2 51 47-98 1105-1159(1404)
253 PF06677 Auto_anti-p27: Sjogre 35.8 26 0.00056 17.0 1.2 18 83-100 12-29 (41)
254 COG5151 SSL1 RNA polymerase II 35.2 53 0.0012 23.5 3.0 49 48-96 360-418 (421)
255 PF09538 FYDLN_acid: Protein o 35.2 27 0.00058 20.7 1.4 31 49-79 8-39 (108)
256 KOG1512 PHD Zn-finger protein 35.0 17 0.00038 25.5 0.6 32 50-82 314-345 (381)
257 KOG0955 PHD finger protein BR1 34.7 32 0.00069 28.5 2.1 35 48-82 217-252 (1051)
258 COG4357 Zinc finger domain con 34.5 32 0.00069 20.1 1.6 27 72-99 65-91 (105)
259 cd00729 rubredoxin_SM Rubredox 34.3 26 0.00057 16.1 1.0 9 89-97 19-27 (34)
260 PF10764 Gin: Inhibitor of sig 34.1 35 0.00077 16.9 1.5 30 52-86 1-30 (46)
261 PF13913 zf-C2HC_2: zinc-finge 34.0 19 0.0004 15.3 0.4 10 90-99 4-13 (25)
262 KOG1973 Chromatin remodeling p 33.2 17 0.00037 25.0 0.4 28 72-99 240-270 (274)
263 PRK00420 hypothetical protein; 32.5 39 0.00085 20.2 1.8 11 50-60 23-33 (112)
264 PF14369 zf-RING_3: zinc-finge 32.4 19 0.00041 16.7 0.4 9 91-99 24-32 (35)
265 COG2824 PhnA Uncharacterized Z 32.2 14 0.0003 21.9 -0.1 28 51-85 4-31 (112)
266 PRK10220 hypothetical protein; 31.6 39 0.00085 20.1 1.7 25 51-75 4-29 (111)
267 PTZ00303 phosphatidylinositol 31.5 31 0.00066 28.0 1.5 35 51-85 461-500 (1374)
268 PF15616 TerY-C: TerY-C metal 31.0 29 0.00064 21.3 1.1 42 48-99 75-116 (131)
269 PF09986 DUF2225: Uncharacteri 31.0 34 0.00074 22.7 1.5 14 49-62 4-17 (214)
270 PRK11595 DNA utilization prote 30.7 38 0.00081 22.5 1.7 8 52-59 7-14 (227)
271 cd00730 rubredoxin Rubredoxin; 30.5 23 0.00051 17.9 0.5 11 87-97 33-43 (50)
272 PF12660 zf-TFIIIC: Putative z 30.4 5.2 0.00011 23.3 -2.2 50 50-101 14-68 (99)
273 PF12907 zf-met2: Zinc-binding 30.3 12 0.00026 18.1 -0.5 11 51-61 2-12 (40)
274 TIGR00100 hypA hydrogenase nic 28.2 61 0.0013 19.2 2.1 20 19-38 31-50 (115)
275 PF02132 RecR: RecR protein; 27.0 18 0.0004 17.3 -0.2 12 48-59 27-38 (41)
276 KOG4684 Uncharacterized conser 26.6 44 0.00096 22.6 1.4 8 90-97 191-198 (275)
277 COG4338 Uncharacterized protei 26.3 21 0.00046 18.0 -0.0 14 48-61 10-23 (54)
278 COG5242 TFB4 RNA polymerase II 26.0 29 0.00063 23.6 0.5 11 50-60 260-270 (296)
279 COG3364 Zn-ribbon containing p 25.8 37 0.00081 20.1 0.9 8 72-79 8-15 (112)
280 KOG1818 Membrane trafficking a 25.1 36 0.00077 26.5 0.9 38 48-85 163-200 (634)
281 PF00301 Rubredoxin: Rubredoxi 24.9 33 0.00071 17.1 0.5 8 90-97 36-43 (47)
282 KOG4218 Nuclear hormone recept 24.8 29 0.00063 25.1 0.4 48 49-97 14-76 (475)
283 PF10170 C6_DPF: Cysteine-rich 24.7 98 0.0021 18.1 2.5 33 48-86 47-83 (97)
284 PF14205 Cys_rich_KTR: Cystein 24.3 36 0.00077 17.7 0.6 9 90-98 30-38 (55)
285 PF12171 zf-C2H2_jaz: Zinc-fin 24.0 12 0.00027 15.8 -1.1 11 90-100 3-13 (27)
286 PRK12380 hydrogenase nickel in 24.0 84 0.0018 18.6 2.2 20 19-38 31-50 (113)
287 PRK00241 nudC NADH pyrophospha 23.2 66 0.0014 21.9 1.9 21 79-99 90-110 (256)
288 TIGR01367 pyrE_Therm orotate p 23.2 32 0.00069 22.2 0.3 12 88-99 169-180 (187)
289 COG5216 Uncharacterized conser 23.1 52 0.0011 17.4 1.0 21 54-74 32-52 (67)
290 KOG3726 Uncharacterized conser 23.0 51 0.0011 26.0 1.4 42 50-95 654-696 (717)
291 PF08882 Acetone_carb_G: Aceto 22.8 51 0.0011 19.7 1.1 14 65-79 23-36 (112)
292 KOG2907 RNA polymerase I trans 22.3 37 0.00079 20.4 0.4 32 69-100 77-114 (116)
293 PF15025 DUF4524: Domain of un 22.2 67 0.0015 20.2 1.6 16 60-76 14-29 (148)
294 PF12088 DUF3565: Protein of u 22.1 71 0.0015 16.9 1.4 17 62-79 8-24 (61)
295 PF08209 Sgf11: Sgf11 (transcr 22.1 31 0.00067 15.9 0.1 10 90-99 6-15 (33)
296 smart00290 ZnF_UBP Ubiquitin C 22.0 83 0.0018 15.2 1.7 22 53-78 2-23 (50)
297 PF10186 Atg14: UV radiation r 21.8 65 0.0014 21.8 1.6 22 52-85 1-22 (302)
298 KOG0957 PHD finger protein [Ge 21.8 64 0.0014 24.7 1.6 33 50-82 119-152 (707)
299 PF04596 Pox_F15: Poxvirus pro 21.7 88 0.0019 19.3 2.0 34 62-99 66-99 (136)
300 KOG0803 Predicted E3 ubiquitin 21.6 38 0.00082 28.8 0.5 28 72-99 1085-1115(1312)
301 TIGR02300 FYDLN_acid conserved 21.6 62 0.0013 19.9 1.3 31 49-79 8-39 (129)
302 PF01396 zf-C4_Topoisom: Topoi 21.6 42 0.00091 15.8 0.5 10 90-99 3-12 (39)
303 PRK04023 DNA polymerase II lar 21.4 54 0.0012 27.2 1.3 47 48-100 624-675 (1121)
304 PF10013 DUF2256: Uncharacteri 21.3 47 0.001 16.3 0.6 13 49-61 7-19 (42)
305 PF00645 zf-PARP: Poly(ADP-rib 21.3 75 0.0016 17.3 1.5 36 50-86 7-51 (82)
306 PF13811 DUF4186: Domain of un 21.1 55 0.0012 19.5 1.0 12 75-86 75-86 (111)
307 TIGR01206 lysW lysine biosynth 20.9 60 0.0013 16.7 1.0 8 91-98 5-12 (54)
308 PF03850 Tfb4: Transcription f 20.8 45 0.00097 23.1 0.7 12 49-60 252-263 (276)
309 PHA03050 glutaredoxin; Provisi 20.8 31 0.00066 20.2 -0.1 9 88-96 20-28 (108)
310 smart00661 RPOL9 RNA polymeras 20.6 1.1E+02 0.0024 14.8 2.0 8 69-76 23-30 (52)
311 smart00746 TRASH metallochaper 20.3 64 0.0014 13.3 1.0 9 91-99 1-9 (39)
312 PF05353 Atracotoxin: Delta At 20.2 4.2 9E-05 19.6 -3.1 14 79-92 19-32 (42)
313 KOG0956 PHD finger protein AF1 20.2 97 0.0021 24.8 2.3 25 72-96 46-70 (900)
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=99.82 E-value=6e-21 Score=96.48 Aligned_cols=44 Identities=52% Similarity=1.208 Sum_probs=40.3
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
..|+||+++|..++.++.++ |||+||.+||.+|++.+.+||+||
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 36999999999999999999 999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=1.9e-20 Score=128.89 Aligned_cols=76 Identities=30% Similarity=0.741 Sum_probs=62.6
Q ss_pred CCCCHHHHHhhCCccccCCCCCCCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCC-CCccccccccCCC
Q 045579 25 QGLGDEALEQLMPCVNYSDQEMTPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHL-TCPVCRISCIDIE 102 (104)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~-~CP~CR~~~~~~~ 102 (104)
..+.+..+.+ +|...+...........|+||||+|..++++++|| |+|.||..||++||.... .||+|++++....
T Consensus 205 ~r~~k~~l~~-~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 205 NRLIKRLLKK-LPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhHHHHHhh-CCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 3445555655 68888887776544479999999999999999999 999999999999997664 5999999987554
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.68 E-value=3e-17 Score=108.71 Aligned_cols=76 Identities=32% Similarity=0.612 Sum_probs=53.7
Q ss_pred CCCCHHHHHhhCCccccCCCC--CCCCccccccccccccCCC----cEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 25 QGLGDEALEQLMPCVNYSDQE--MTPSSNYCVICLENFVDGE----SCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~C~ICl~~~~~~~----~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
.+.....+.. +|.+...... ....+.+|+||++.+..+. .+.+++.|+|.||..||.+|+..+.+||+||..+
T Consensus 148 ~~~~~~~i~~-lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 148 GKNYKKFLKT-IPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred cchhHHHHHh-cchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 3444555554 5666433221 2245789999999987643 1334545999999999999999999999999988
Q ss_pred cCC
Q 045579 99 IDI 101 (104)
Q Consensus 99 ~~~ 101 (104)
..+
T Consensus 227 ~~v 229 (238)
T PHA02929 227 ISV 229 (238)
T ss_pred eEE
Confidence 643
No 4
>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=99.68 E-value=3.1e-17 Score=91.10 Aligned_cols=45 Identities=47% Similarity=0.947 Sum_probs=35.7
Q ss_pred ccccccccccccCC----------CcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 50 SNYCVICLENFVDG----------ESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 50 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
+..|+||++.|... -.+...+ |||.||..||.+||+.+.+||+||
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 44699999999422 2444455 999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=4.1e-16 Score=105.16 Aligned_cols=52 Identities=37% Similarity=0.875 Sum_probs=47.5
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh-cCCCCccccccccCC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISCIDI 101 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~~ 101 (104)
.+.+|+|||+.|..++.++++| |.|.||..|+.+|+. -+..||+||..+++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 4688999999999999999999 999999999999996 677899999998753
No 6
>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=99.56 E-value=2.5e-15 Score=77.68 Aligned_cols=47 Identities=36% Similarity=0.799 Sum_probs=39.6
Q ss_pred ccccccccccccCCCcEEecCCCCCc-ccHHhHHHHHhcCCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRI-FHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
+..|.||++.+.. ++.+| |||. ||..|+.+|+.....||+||+++..
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 5689999998644 77788 9999 9999999999999999999999864
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=3.5e-15 Score=103.15 Aligned_cols=52 Identities=35% Similarity=0.883 Sum_probs=44.0
Q ss_pred CCCccccccccccc-cCCC---------cEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 47 TPSSNYCVICLENF-VDGE---------SCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 47 ~~~~~~C~ICl~~~-~~~~---------~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
..++..|.|||+++ +.+. ....|| |||+||.+|+.-|+.++.+||+||.+++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 45688999999994 4431 445788 9999999999999999999999999965
No 8
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=5.8e-15 Score=92.87 Aligned_cols=53 Identities=28% Similarity=0.601 Sum_probs=44.5
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIE 102 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~ 102 (104)
++...|+|||+.+.....+. .+|||+||..||...++....||+||+.|...+
T Consensus 129 ~~~~~CPiCl~~~sek~~vs--TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVS--TKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccccc--cccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 56789999999987765432 359999999999999999999999999876543
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=4e-15 Score=99.68 Aligned_cols=50 Identities=34% Similarity=0.714 Sum_probs=43.1
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
.....|.|||+..+. ...+| |||+||+.||..|...+..||+||..+..-
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 567899999998766 45577 999999999999999999999999988643
No 10
>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=99.52 E-value=1.1e-14 Score=71.56 Aligned_cols=39 Identities=38% Similarity=0.995 Sum_probs=32.8
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~C 94 (104)
|+||++.+.+ .+++++ |||+||.+||.+|+..+..||+|
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 8999998876 456777 99999999999999888899998
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.50 E-value=1.5e-14 Score=81.41 Aligned_cols=52 Identities=29% Similarity=0.610 Sum_probs=38.9
Q ss_pred CccccccccccccCC--------C-cEEecCCCCCcccHHhHHHHHhc---CCCCccccccccC
Q 045579 49 SSNYCVICLENFVDG--------E-SCRLFPVCYRIFHSVCIDQWLKE---HLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~--------~-~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~CR~~~~~ 100 (104)
.++.|.||...|... + -..++..|+|.||..||.+||.. +.+||+||++..-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 377899999888721 1 12233349999999999999964 4679999998753
No 12
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.49 E-value=3.2e-14 Score=71.21 Aligned_cols=44 Identities=50% Similarity=1.116 Sum_probs=36.5
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHhc-CCCCccccccc
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE-HLTCPVCRISC 98 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~ 98 (104)
.|+||++.+ ...+.+++ |||.||..|+..|+.. ...||+||..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 33455555 9999999999999986 77899999864
No 13
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.46 E-value=5.3e-14 Score=90.23 Aligned_cols=49 Identities=29% Similarity=0.645 Sum_probs=39.3
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc----------------CCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE----------------HLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~----------------~~~CP~CR~~~~~ 100 (104)
.++..|+||++.+..+ ++++ |||+||..||..|+.. ...||+||..+..
T Consensus 16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3578899999987653 4466 9999999999999842 2479999998854
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.46 E-value=3.9e-14 Score=92.16 Aligned_cols=52 Identities=29% Similarity=0.668 Sum_probs=40.4
Q ss_pred CCccccccccccccCC-----CcEEecCCCCCcccHHhHHHHHhcC------CCCcccccccc
Q 045579 48 PSSNYCVICLENFVDG-----ESCRLFPVCYRIFHSVCIDQWLKEH------LTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~-----~~~~~lp~C~H~fh~~Ci~~wl~~~------~~CP~CR~~~~ 99 (104)
+.+.+|+|||+..... ....+|+.|+|.||..||..|...+ .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4578999999986432 2345666699999999999999642 45999999875
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=1.3e-13 Score=90.02 Aligned_cols=51 Identities=29% Similarity=0.548 Sum_probs=39.7
Q ss_pred CCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh---cCCCCccccccccCC
Q 045579 47 TPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK---EHLTCPVCRISCIDI 101 (104)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~~~~ 101 (104)
.....+|.|||+.-++ .|+ +. |||+||+.||.+||. .+..||+|+..|...
T Consensus 44 ~~~~FdCNICLd~akd--PVv-Tl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD--PVV-TL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCC--CEE-ee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 3567899999998544 344 44 999999999999995 344699999988643
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.40 E-value=2.4e-13 Score=68.44 Aligned_cols=44 Identities=32% Similarity=0.810 Sum_probs=37.8
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.|+||++.|.......+++ |||+||..|+..+......||+||+
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 4899999996566777787 9999999999998866778999985
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.37 E-value=4.3e-13 Score=66.80 Aligned_cols=38 Identities=39% Similarity=0.939 Sum_probs=28.2
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHhcC----CCCccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH----LTCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~----~~CP~C 94 (104)
|+||++.|.. .+.|+ |||.|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 45566 99999999999999533 469987
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=1.8e-13 Score=100.37 Aligned_cols=52 Identities=38% Similarity=0.962 Sum_probs=45.1
Q ss_pred CCccccccccccccCCCc--EEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGES--CRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~--~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
..+..|+||++.+..+.. ...+| |+|+||..|+..|++++.+||+||..+..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 347899999999988755 56788 99999999999999999999999995543
No 19
>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=99.36 E-value=4.1e-13 Score=66.53 Aligned_cols=39 Identities=44% Similarity=1.096 Sum_probs=33.0
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHh--cCCCCccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK--EHLTCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~C 94 (104)
|+||++.+..+ +.+++ |||.||..||.+|+. ....||+|
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 89999998664 35677 999999999999997 55679998
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.28 E-value=3.8e-12 Score=61.50 Aligned_cols=38 Identities=45% Similarity=1.116 Sum_probs=31.9
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHh-cCCCCccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-EHLTCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~C 94 (104)
|+||++.. ..+..++ |||.||..|+..|+. ....||+|
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 78998883 3466677 999999999999997 66779987
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.26 E-value=8e-12 Score=67.17 Aligned_cols=45 Identities=29% Similarity=0.457 Sum_probs=39.4
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
..|+||++.|..+ ++++ |||+|+..||.+|+..+.+||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999998774 4567 9999999999999988889999998874
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.19 E-value=1.6e-11 Score=67.80 Aligned_cols=29 Identities=38% Similarity=0.895 Sum_probs=27.2
Q ss_pred CCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 71 VCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 71 ~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.|.|.||..||.+||..+..||++|++..
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 49999999999999999999999999874
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=99.18 E-value=1.7e-11 Score=86.66 Aligned_cols=50 Identities=32% Similarity=0.616 Sum_probs=42.2
Q ss_pred CCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 47 TPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
......|+||++.|..+ ++++ |||.||..||..|+.....||+||..+..
T Consensus 23 Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 34677999999998664 3567 99999999999999888899999998753
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=2.4e-12 Score=70.52 Aligned_cols=51 Identities=29% Similarity=0.699 Sum_probs=37.7
Q ss_pred CccccccccccccCC---------CcEEecCCCCCcccHHhHHHHHh---cCCCCcccccccc
Q 045579 49 SSNYCVICLENFVDG---------ESCRLFPVCYRIFHSVCIDQWLK---EHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~---------~~~~~lp~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~~ 99 (104)
++++|.||...|... +-..++..|.|.||..||.+|+. ++..||+||+...
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 455899999888631 22223334999999999999994 4456999999864
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.3e-11 Score=82.04 Aligned_cols=51 Identities=27% Similarity=0.628 Sum_probs=41.4
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHH-HHhcCCC-CccccccccCCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQ-WLKEHLT-CPVCRISCIDIE 102 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~-wl~~~~~-CP~CR~~~~~~~ 102 (104)
..+..|+||++..+. ...++ |||+||..||.. |-.++.. ||+||+.+...+
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 458889999988655 55566 999999999999 9866655 999999887543
No 26
>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=99.08 E-value=1e-10 Score=59.99 Aligned_cols=42 Identities=31% Similarity=0.862 Sum_probs=32.4
Q ss_pred ccccccccccCCCcEEecCCCC-----CcccHHhHHHHHhc--CCCCcccc
Q 045579 52 YCVICLENFVDGESCRLFPVCY-----RIFHSVCIDQWLKE--HLTCPVCR 95 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~~--~~~CP~CR 95 (104)
.|.||++ ...++...++| |. |.||..|+.+|+.. +.+||+|+
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 33444555778 84 89999999999954 44899995
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.06 E-value=1.5e-10 Score=57.69 Aligned_cols=38 Identities=32% Similarity=0.817 Sum_probs=22.2
Q ss_pred cccccccccC-CCcEEecCCCCCcccHHhHHHHHhcC----CCCc
Q 045579 53 CVICLENFVD-GESCRLFPVCYRIFHSVCIDQWLKEH----LTCP 92 (104)
Q Consensus 53 C~ICl~~~~~-~~~~~~lp~C~H~fh~~Ci~~wl~~~----~~CP 92 (104)
|+||++ |.. ....++|+ |||+|+.+||.+++..+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 755 34567788 99999999999999643 3576
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=2.4e-10 Score=81.80 Aligned_cols=52 Identities=38% Similarity=0.802 Sum_probs=41.0
Q ss_pred CCccccccccccccCCC--------------cEEecCCCCCcccHHhHHHHHh-cCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGE--------------SCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~--------------~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~ 100 (104)
.....|+|||.++..-. ..+++| |.|+||..|+.+|+. .+..||+||..+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 45678999998865211 233567 999999999999998 55689999999875
No 29
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=1.8e-10 Score=77.01 Aligned_cols=51 Identities=25% Similarity=0.643 Sum_probs=42.9
Q ss_pred CCccccccccccccCCC-------cEEecCCCCCcccHHhHHHHH--hcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGE-------SCRLFPVCYRIFHSVCIDQWL--KEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~fh~~Ci~~wl--~~~~~CP~CR~~~~ 99 (104)
..+..|+||-..+.... .+..|. |+|+||..||.-|- .++.+||.|+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 56778999988876554 667787 99999999999996 67889999998764
No 30
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.93 E-value=7.6e-10 Score=75.78 Aligned_cols=51 Identities=16% Similarity=0.410 Sum_probs=37.6
Q ss_pred Ccccccccccc-ccCCC-cEEecCCCCCcccHHhHHHHH-hcCCCCccccccccC
Q 045579 49 SSNYCVICLEN-FVDGE-SCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~-~~~~~-~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~ 100 (104)
++..||||+.. +..+. .+.+.+ |||.||.+||...+ .....||.|+..+..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 35689999995 33333 334445 99999999999966 555689999987754
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=5.3e-10 Score=80.25 Aligned_cols=47 Identities=32% Similarity=0.535 Sum_probs=36.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc-----CCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE-----HLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-----~~~CP~CR~~~~~ 100 (104)
+..|||||+....+ ..+. |||+||..||.+++.. -..||+||..|..
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 77899999875443 2333 9999999999998743 3469999998865
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.92 E-value=4.2e-10 Score=77.51 Aligned_cols=48 Identities=31% Similarity=0.697 Sum_probs=42.0
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.-..|.||.+.|.. .+++| |+|.||.-||..+|..+..||.|+.++.+
T Consensus 22 ~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence 45679999999877 45567 99999999999999999999999998764
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.90 E-value=2.8e-10 Score=62.62 Aligned_cols=50 Identities=30% Similarity=0.687 Sum_probs=23.1
Q ss_pred cccccccccccc-CCCc-EEec--CCCCCcccHHhHHHHHhc---C--------CCCcccccccc
Q 045579 50 SNYCVICLENFV-DGES-CRLF--PVCYRIFHSVCIDQWLKE---H--------LTCPVCRISCI 99 (104)
Q Consensus 50 ~~~C~ICl~~~~-~~~~-~~~l--p~C~H~fh~~Ci~~wl~~---~--------~~CP~CR~~~~ 99 (104)
+..|.||+..+. .+.. ..+- +.|+..||..||.+||.. . .+||.|+.+|.
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 457999999865 3222 2222 259999999999999942 1 25999999874
No 34
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=1.1e-09 Score=63.44 Aligned_cols=51 Identities=29% Similarity=0.657 Sum_probs=37.6
Q ss_pred CCcccccccccccc-------------CCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 48 PSSNYCVICLENFV-------------DGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 48 ~~~~~C~ICl~~~~-------------~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
...+.|+||..-+- ..+-.+.-..|.|.||..||.+||+.+..||+|.++-
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 34667998875431 2223333344999999999999999999999998764
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.87 E-value=7.1e-10 Score=78.55 Aligned_cols=49 Identities=29% Similarity=0.681 Sum_probs=39.3
Q ss_pred CCccccccccccccCCCc-EEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGES-CRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~-~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.+-.+|+|||+.|..... ++... |.|.||..|+.+| ...+||+||-...
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 456789999999976653 33444 9999999999999 6678999997654
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=1.3e-09 Score=73.43 Aligned_cols=45 Identities=38% Similarity=0.800 Sum_probs=39.1
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.+...|+||++.|..+ .++| |+|.||..|+..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 4677899999999887 6777 9999999999999875567999993
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.82 E-value=1.2e-09 Score=83.25 Aligned_cols=52 Identities=23% Similarity=0.660 Sum_probs=38.9
Q ss_pred CCccccccccccccC-CC--cEEecCCCCCcccHHhHHHHHhc--CCCCcccccccc
Q 045579 48 PSSNYCVICLENFVD-GE--SCRLFPVCYRIFHSVCIDQWLKE--HLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~-~~--~~~~lp~C~H~fh~~Ci~~wl~~--~~~CP~CR~~~~ 99 (104)
++.++|+||...+.. .. .-...++|.|.||..|+.+|++. +++||+||.++.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 678899999877651 11 11234459999999999999964 557999998774
No 38
>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=98.82 E-value=3.8e-09 Score=58.53 Aligned_cols=48 Identities=23% Similarity=0.363 Sum_probs=36.8
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc-CCCCccccccccC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE-HLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~~~ 100 (104)
+...|+|+.+-|.+ .+++| +||+|...+|..|+.. ..+||+++..+..
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 46789999999977 44567 9999999999999987 8899999988754
No 39
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.79 E-value=3e-09 Score=72.05 Aligned_cols=47 Identities=32% Similarity=0.474 Sum_probs=39.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.-..|-||-+.|..+ ..++ |||.||.-||...|..+..||+||.+..
T Consensus 24 s~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence 355799999888663 3345 9999999999999999999999998764
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=8e-09 Score=71.50 Aligned_cols=49 Identities=31% Similarity=0.669 Sum_probs=41.0
Q ss_pred CCccccccccccccCCCcEEecCCCCCc-ccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRI-FHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
+...+|.|||.+-.+ +.+|| |.|. .|.+|.+...-..+.||+||+.+.+
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 457799999987544 78899 9996 9999999976678889999998853
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.71 E-value=7.5e-10 Score=75.09 Aligned_cols=56 Identities=29% Similarity=0.602 Sum_probs=45.7
Q ss_pred CCCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh-----------------------cCCCCccccccccCCC
Q 045579 46 MTPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-----------------------EHLTCPVCRISCIDIE 102 (104)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-----------------------~~~~CP~CR~~~~~~~ 102 (104)
...+...|+|||-.|..+..+.+++ |-|.||..|+.++|. .+..||+||..|...+
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 3356778999999999999888998 999999999998761 1235999999886443
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.1e-09 Score=72.26 Aligned_cols=52 Identities=29% Similarity=0.752 Sum_probs=40.5
Q ss_pred CCccccccccccccCCC----cEEecCCCCCcccHHhHHHHH--hc-----CCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGE----SCRLFPVCYRIFHSVCIDQWL--KE-----HLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~----~~~~lp~C~H~fh~~Ci~~wl--~~-----~~~CP~CR~~~~ 99 (104)
..+..|.|||+...... ...++|+|.|.||..||..|- .+ ...||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 35789999999875543 234567899999999999997 33 467999998753
No 43
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1.2e-08 Score=71.36 Aligned_cols=49 Identities=29% Similarity=0.781 Sum_probs=36.5
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc---CCCCccccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE---HLTCPVCRISC 98 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~---~~~CP~CR~~~ 98 (104)
...|.||-+.+.....+.....|||+||..|+..|+.. ...||+|+-.+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 45799996666555555555459999999999999953 25799999443
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=2.6e-09 Score=73.85 Aligned_cols=50 Identities=26% Similarity=0.471 Sum_probs=40.7
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh-cCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~ 100 (104)
..+..|+|||+-+... +..+.|.|.||.+||..-|+ ..++||.||+.+..
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 4578899999988663 33445999999999999985 56789999998864
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.62 E-value=1.7e-08 Score=75.88 Aligned_cols=53 Identities=25% Similarity=0.382 Sum_probs=43.8
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
.....|++|+..+.........+ |+|.||..||..|-+...+||+||..+..+
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 34567999998887665554555 999999999999999999999999988654
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=5.2e-08 Score=68.63 Aligned_cols=50 Identities=30% Similarity=0.803 Sum_probs=37.6
Q ss_pred CccccccccccccC-CCcEEecCCCCCcccHHhHHHHHh--cCCCCccccccc
Q 045579 49 SSNYCVICLENFVD-GESCRLFPVCYRIFHSVCIDQWLK--EHLTCPVCRISC 98 (104)
Q Consensus 49 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~CR~~~ 98 (104)
...+|+|||+.+.- ++..++.+.|||.|-.+||++||. ....||.|..+.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 35689999998864 344444445999999999999994 234699997653
No 47
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.53 E-value=1.3e-08 Score=54.41 Aligned_cols=46 Identities=28% Similarity=0.594 Sum_probs=23.0
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
-..|++|.+-|..+.. +.+|.|+||..||..-+. ..||+|+.+.-.
T Consensus 7 lLrCs~C~~~l~~pv~---l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~ 52 (65)
T PF14835_consen 7 LLRCSICFDILKEPVC---LGGCEHIFCSSCIRDCIG--SECPVCHTPAWI 52 (65)
T ss_dssp TTS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-S-
T ss_pred hcCCcHHHHHhcCCce---eccCccHHHHHHhHHhcC--CCCCCcCChHHH
Confidence 3579999998877532 234999999999988543 359999988743
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=1.6e-08 Score=52.17 Aligned_cols=47 Identities=34% Similarity=0.623 Sum_probs=34.9
Q ss_pred ccccccccccccCCCcEEecCCCCCc-ccHHhHHHHHh-cCCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRI-FHSVCIDQWLK-EHLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~-fh~~Ci~~wl~-~~~~CP~CR~~~~~ 100 (104)
+.+|.||++.-.+. |.. .|||. .|.+|..+.++ .+..||+||+++.+
T Consensus 7 ~dECTICye~pvds--VlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDS--VLY--TCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchH--HHH--HcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 47899998764332 222 39995 89999877655 78899999998854
No 49
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=9.1e-08 Score=65.09 Aligned_cols=48 Identities=27% Similarity=0.550 Sum_probs=38.2
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh-cCCCCccccccccC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~~ 100 (104)
...+|+||+....-+ +.|+ |+|.||.-||.--.. ...+|++||.+|.+
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 356899999886554 5566 999999999988764 45569999999864
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=1.9e-07 Score=66.35 Aligned_cols=49 Identities=27% Similarity=0.615 Sum_probs=42.2
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
..+..|.||+.-+.. .+++| |||.||..||.+-+.....||+||..+..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 568899999888766 45567 99999999999988888889999998874
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.36 E-value=1.5e-07 Score=66.36 Aligned_cols=51 Identities=31% Similarity=0.778 Sum_probs=40.9
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh--cCCCCccccccccCCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK--EHLTCPVCRISCIDIE 102 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~CR~~~~~~~ 102 (104)
..-.-|.||-+. ...|.+-| |||..|..|+..|-. ...+||.||.+|...|
T Consensus 367 sTFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 367 STFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred chHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 345679999764 44577888 999999999999973 3568999999997655
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=3.3e-07 Score=68.72 Aligned_cols=49 Identities=18% Similarity=0.471 Sum_probs=37.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHH-hcCCCCccccccccCC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCIDI 101 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~~ 101 (104)
+-..|++|-..+.+ ++++ +|||+||..||.+-+ .+...||.|-+.|..-
T Consensus 642 ~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred hceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 35689999865433 3333 499999999999988 4677899998887643
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.21 E-value=6.8e-07 Score=63.72 Aligned_cols=53 Identities=28% Similarity=0.561 Sum_probs=44.0
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIEN 103 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~ 103 (104)
..+..|+||+..+..+... +. |||.||..|+..|+..+..||.|+..+...+.
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhc
Confidence 5678999999998776443 33 99999999999999998999999988865543
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.08 E-value=1.8e-06 Score=45.50 Aligned_cols=42 Identities=31% Similarity=0.494 Sum_probs=27.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh--cCCCCcc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK--EHLTCPV 93 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~ 93 (104)
....|||-+..|.++ +.... |||+|-.+.|..||. ....||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 467899999998774 55444 999999999999993 3446998
No 55
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=98.04 E-value=2.1e-06 Score=65.34 Aligned_cols=50 Identities=28% Similarity=0.745 Sum_probs=39.2
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcC-------CCCcccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH-------LTCPVCRIS 97 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~-------~~CP~CR~~ 97 (104)
....+|.||.+.+.....+-.-..|-|+||..||.+|.+.. -.||.|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 45778999999998777665544599999999999998432 149999843
No 56
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=8.6e-06 Score=55.03 Aligned_cols=51 Identities=24% Similarity=0.403 Sum_probs=39.3
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh--cCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK--EHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--~~~~CP~CR~~~~~~ 101 (104)
..+.+|++|-+.-..+ -...+ |||+||.-||..-+. ...+||.|-..+.+.
T Consensus 237 t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred cCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 5688999998875554 33444 999999999998764 457899998887643
No 57
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.99 E-value=6.2e-06 Score=41.80 Aligned_cols=45 Identities=24% Similarity=0.493 Sum_probs=23.0
Q ss_pred cccccccccCCC-cEEecCCCCCcccHHhHHHHHh-cCCCCccccccc
Q 045579 53 CVICLENFVDGE-SCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISC 98 (104)
Q Consensus 53 C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~ 98 (104)
|++|.+++...+ .+.--+ ||+.+|..|...-+. ....||-||+++
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984443 444344 899999999999775 577899999875
No 58
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.95 E-value=1.4e-06 Score=60.00 Aligned_cols=49 Identities=27% Similarity=0.612 Sum_probs=41.0
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
...+|.+|-..|.....+.- |-|.||..||.+.|....+||.|...+..
T Consensus 14 ~~itC~LC~GYliDATTI~e---CLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITE---CLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecchhHHH---HHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 56689999888877655442 99999999999999999999999887753
No 59
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=9.6e-06 Score=53.53 Aligned_cols=52 Identities=25% Similarity=0.680 Sum_probs=42.6
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc--------CCCCccccccccCCC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE--------HLTCPVCRISCIDIE 102 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--------~~~CP~CR~~~~~~~ 102 (104)
....|..|-..+..++.++.. |-|+||.+|+..|... ...||.|-.+|...-
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 455799999999999988763 9999999999999732 346999999986543
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.91 E-value=1.2e-05 Score=53.76 Aligned_cols=54 Identities=11% Similarity=0.365 Sum_probs=48.6
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIE 102 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~ 102 (104)
....|+||.+.+.+.....+|.+|||+|+.+|+++.+.....||+|-.++.+.+
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 567899999999999988888779999999999999999999999998887654
No 61
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.90 E-value=1.9e-05 Score=55.22 Aligned_cols=49 Identities=22% Similarity=0.506 Sum_probs=38.9
Q ss_pred CCCCccccccccccccCCCcEEecCCCCCcccHHhHHHH--HhcCCCCccccccc
Q 045579 46 MTPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQW--LKEHLTCPVCRISC 98 (104)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~w--l~~~~~CP~CR~~~ 98 (104)
..++...|.||-+.+.- +.++| |+|..|..|..+. |-.+..||+||..-
T Consensus 57 tDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 57 TDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 33677889999877543 56788 9999999999764 46788899999864
No 62
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=3.7e-06 Score=52.80 Aligned_cols=41 Identities=34% Similarity=0.829 Sum_probs=34.6
Q ss_pred CccccCCCCCCCCccccccccccccCCCcEEecCCCCCcccH
Q 045579 37 PCVNYSDQEMTPSSNYCVICLENFVDGESCRLFPVCYRIFHS 78 (104)
Q Consensus 37 ~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~ 78 (104)
|.+.|.+........+|.||||+++.++.+..|| |-.+||.
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 5556666666677889999999999999999999 9999985
No 63
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.86 E-value=4.9e-06 Score=58.77 Aligned_cols=47 Identities=34% Similarity=0.786 Sum_probs=38.0
Q ss_pred CccccccccccccC-CCcEEecCCCCCcccHHhHHHHHhcC--CCCccccc
Q 045579 49 SSNYCVICLENFVD-GESCRLFPVCYRIFHSVCIDQWLKEH--LTCPVCRI 96 (104)
Q Consensus 49 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~Ci~~wl~~~--~~CP~CR~ 96 (104)
-+..|..|=+.+.. ++.+-.|| |.|+||..|+...|.++ .+||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 36679999888754 45677788 99999999999999544 47999994
No 64
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.84 E-value=1.2e-05 Score=64.66 Aligned_cols=52 Identities=23% Similarity=0.678 Sum_probs=40.9
Q ss_pred CCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc----------CCCCcccccccc
Q 045579 47 TPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE----------HLTCPVCRISCI 99 (104)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~----------~~~CP~CR~~~~ 99 (104)
...++.|.||+.+--.....+.|. |+|+||..|...-|.+ -.+||+|+.+|.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 356889999998876666777887 9999999999775532 236999998874
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.80 E-value=2.1e-05 Score=39.88 Aligned_cols=40 Identities=33% Similarity=0.923 Sum_probs=26.7
Q ss_pred cccccccccCCCcEEecCCCC--C---cccHHhHHHHHh--cCCCCccc
Q 045579 53 CVICLENFVDGESCRLFPVCY--R---IFHSVCIDQWLK--EHLTCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~--H---~fh~~Ci~~wl~--~~~~CP~C 94 (104)
|-||++.-.... ..+.| |+ = ..|.+|+.+|+. .+.+|++|
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 779999876665 34455 63 2 689999999995 55679987
No 66
>PHA02862 5L protein; Provisional
Probab=97.79 E-value=1.6e-05 Score=49.07 Aligned_cols=45 Identities=22% Similarity=0.625 Sum_probs=33.5
Q ss_pred ccccccccccccCCCcEEecCCCC-----CcccHHhHHHHHh--cCCCCcccccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCY-----RIFHSVCIDQWLK--EHLTCPVCRISCI 99 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~-----H~fh~~Ci~~wl~--~~~~CP~CR~~~~ 99 (104)
+..|-||+++-.+. + -| |. ...|.+|+.+|+. ++..||+|+.++.
T Consensus 2 ~diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 45799999885332 2 34 53 4699999999995 4557999999875
No 67
>PHA03096 p28-like protein; Provisional
Probab=97.72 E-value=1.7e-05 Score=54.42 Aligned_cols=36 Identities=28% Similarity=0.617 Sum_probs=29.1
Q ss_pred cccccccccccCC----CcEEecCCCCCcccHHhHHHHHh
Q 045579 51 NYCVICLENFVDG----ESCRLFPVCYRIFHSVCIDQWLK 86 (104)
Q Consensus 51 ~~C~ICl~~~~~~----~~~~~lp~C~H~fh~~Ci~~wl~ 86 (104)
..|.|||+..... ....+|+.|.|.||..|+..|..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 6899999976532 24456788999999999999984
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=2.8e-05 Score=54.48 Aligned_cols=49 Identities=29% Similarity=0.547 Sum_probs=41.3
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.++..|+||... +-..+..| |+|.-|..||.+.|.+...|=.|+..+.+
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 678899999654 33455677 99999999999999999999999998874
No 69
>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=97.69 E-value=1.2e-05 Score=49.02 Aligned_cols=35 Identities=17% Similarity=0.503 Sum_probs=28.8
Q ss_pred ccccccccccccCCCcEEecCCCC------CcccHHhHHHHH
Q 045579 50 SNYCVICLENFVDGESCRLFPVCY------RIFHSVCIDQWL 85 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~------H~fh~~Ci~~wl 85 (104)
..+|.||++.+.....++.++ || |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 668999999998855666666 74 679999999994
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=97.67 E-value=1.5e-05 Score=46.73 Aligned_cols=33 Identities=27% Similarity=0.667 Sum_probs=27.5
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCID 82 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~ 82 (104)
.++..|++|-..+.. ..+.+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 557789999999877 4566778 99999999975
No 71
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.63 E-value=4.4e-05 Score=47.84 Aligned_cols=47 Identities=21% Similarity=0.619 Sum_probs=34.2
Q ss_pred CCccccccccccccCCCcEEecCCC--CC---cccHHhHHHHHhc--CCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVC--YR---IFHSVCIDQWLKE--HLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C--~H---~fh~~Ci~~wl~~--~~~CP~CR~~~~ 99 (104)
..+..|-||.++... . ..| | .. ..|.+|+.+|+.. ..+|++|+.++.
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 457789999988432 1 234 5 34 5699999999954 456999998874
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=4.2e-05 Score=54.35 Aligned_cols=48 Identities=25% Similarity=0.671 Sum_probs=37.7
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh--------cCCCCccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK--------EHLTCPVCRI 96 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~--------~~~~CP~CR~ 96 (104)
..-..|.||++.......+..+| |+|+||..|+..++. +...||-+.-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 44678999999886667888898 999999999999983 1234876654
No 73
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.52 E-value=3.6e-05 Score=49.98 Aligned_cols=45 Identities=22% Similarity=0.459 Sum_probs=37.5
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
...|.||-.+|..+ +++. |||.||..|.-+-++....|-+|-+..
T Consensus 196 PF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 45899999999774 3344 999999999999888888999997654
No 74
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=4.8e-05 Score=51.96 Aligned_cols=47 Identities=23% Similarity=0.414 Sum_probs=39.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
...|-||...|..+ +++. |+|.||..|..+-++....|++|-+.+..
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 45699999999874 3344 99999999999999888999999887654
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=2.1e-05 Score=53.72 Aligned_cols=42 Identities=24% Similarity=0.726 Sum_probs=32.4
Q ss_pred ccccccccccccCCCcEEecCCCCC-cccHHhHHHHHhcCCCCcccccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYR-IFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
..-|.|||+.- .....|+ ||| +-|..|-.+- +.||+||+.|+
T Consensus 300 ~~LC~ICmDaP---~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC---cceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 66799998763 4477788 999 4788887652 27999999875
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.00015 Score=50.71 Aligned_cols=45 Identities=31% Similarity=0.693 Sum_probs=32.6
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.....|.||+++..+ ...+| |||+-| |..-. +.-.+||+||+.+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 456789999998766 55677 999866 55543 23345999999874
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.37 E-value=0.00011 Score=38.16 Aligned_cols=48 Identities=21% Similarity=0.414 Sum_probs=34.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIEN 103 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~ 103 (104)
...|..|... +..-.++| |||+.+..|..-+ +-+-||+|-+++...+.
T Consensus 7 ~~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred ceeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCCC
Confidence 4456666432 33455677 9999999998864 66789999999876554
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.29 E-value=0.0004 Score=47.17 Aligned_cols=54 Identities=17% Similarity=0.364 Sum_probs=42.1
Q ss_pred CCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 47 TPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
......|||....|......+.+-+|||+|-..+|..- .....||+|-.++...
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 35678999999999665555555449999999999996 3456799999887643
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.27 E-value=7.2e-05 Score=49.74 Aligned_cols=45 Identities=22% Similarity=0.479 Sum_probs=32.7
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.|--|.--- .++...++. |+|+||..|...- ....||+|++.+..
T Consensus 5 hCn~C~~~~-~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFP-SQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccC-CCCceeeee-chhhhhhhhcccC--Cccccccccceeee
Confidence 466665433 366777777 9999999999863 22389999998754
No 80
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.25 E-value=0.00012 Score=53.91 Aligned_cols=47 Identities=28% Similarity=0.665 Sum_probs=36.2
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh-----cCCCCccccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK-----EHLTCPVCRISC 98 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~-----~~~~CP~CR~~~ 98 (104)
.+...|.+|.++-+. .+... |.|.||.-||..+.. .+.+||.|-..+
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 567789999987544 34444 999999999988872 346899997665
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.09 E-value=0.00032 Score=48.23 Aligned_cols=48 Identities=25% Similarity=0.610 Sum_probs=37.5
Q ss_pred ccccccccccccCCC---cEEecCCCCCcccHHhHHHHHhc-CCCCccccccc
Q 045579 50 SNYCVICLENFVDGE---SCRLFPVCYRIFHSVCIDQWLKE-HLTCPVCRISC 98 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~---~~~~lp~C~H~fh~~Ci~~wl~~-~~~CP~CR~~~ 98 (104)
...|-||-++|...+ ..++|. |||.|+..|+.+.+.. ...||.||...
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 357999999998763 334555 9999999999998754 44699999984
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=97.05 E-value=0.00031 Score=34.87 Aligned_cols=41 Identities=27% Similarity=0.768 Sum_probs=22.5
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHhcCC--CCccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHL--TCPVC 94 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP~C 94 (104)
|.+|.+-...+....... |+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 567777665554433223 888999999999996555 79987
No 83
>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=97.02 E-value=0.00041 Score=34.87 Aligned_cols=43 Identities=21% Similarity=0.528 Sum_probs=25.5
Q ss_pred ccccccccccCCCcEEecCCC-CCcccHHhHHHHHhcCCCCccccccccC
Q 045579 52 YCVICLENFVDGESCRLFPVC-YRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C-~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.|--|+ |.....+. | .|..|..|+..-|..+..||+|..+++.
T Consensus 4 nCKsCW--f~~k~Li~----C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FANKGLIK----CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S--SSEEE-----SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhh--hcCCCeee----ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 466666 43443443 7 5999999999999999999999998864
No 84
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.98 E-value=0.0002 Score=48.85 Aligned_cols=46 Identities=28% Similarity=0.624 Sum_probs=37.0
Q ss_pred ccccccccccccCCC-cEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 50 SNYCVICLENFVDGE-SCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
...||||.+.+.... .+..++ |||..|..|........-+||+|.+
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 444999999876655 444566 9999999999998876799999988
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.97 E-value=0.00036 Score=53.62 Aligned_cols=43 Identities=21% Similarity=0.465 Sum_probs=33.6
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
...|.+|-..++.+. +-.. |||.||..|+. .+...||-|+.++
T Consensus 840 ~skCs~C~~~LdlP~--VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPF--VHFL-CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccce--eeee-cccHHHHHhhc---cCcccCCccchhh
Confidence 468999988877653 3333 99999999999 4666799998754
No 86
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.94 E-value=0.0013 Score=34.16 Aligned_cols=35 Identities=26% Similarity=0.650 Sum_probs=30.9
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHH
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
....|++|-+.|..++.+++-|.||-.+|++|..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 35679999999998888888888999999999875
No 87
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.86 E-value=0.0007 Score=46.71 Aligned_cols=45 Identities=27% Similarity=0.550 Sum_probs=35.2
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRIS 97 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~ 97 (104)
...|+.|..-+.++.. +|.|+|.||.+||...| .....||.|-..
T Consensus 274 ~LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~rk 319 (427)
T COG5222 274 SLKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSRK 319 (427)
T ss_pred cccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCcccc
Confidence 3789999887766433 35699999999999887 456679999764
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.83 E-value=0.0011 Score=46.56 Aligned_cols=52 Identities=23% Similarity=0.481 Sum_probs=37.4
Q ss_pred CccccccccccccCCCcEE-ecCCCCCcccHHhHHHHH-hcCCCCccccccccCC
Q 045579 49 SSNYCVICLENFVDGESCR-LFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCIDI 101 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~-~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~~ 101 (104)
+++.|+.|+++|...++-. -.| ||-..|.-|...-- .-+..||-||+.+.+.
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 4556999999998776433 345 89888888876543 2456899999987654
No 89
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.0017 Score=45.23 Aligned_cols=46 Identities=22% Similarity=0.454 Sum_probs=37.4
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.....|+||+-...++..+.+ =|-+||..||..++.+.+.||+=-.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~ 343 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGY 343 (357)
T ss_pred CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCC
Confidence 456789999998877655443 6899999999999999999997543
No 90
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.77 E-value=6.2e-05 Score=53.26 Aligned_cols=52 Identities=21% Similarity=0.448 Sum_probs=42.5
Q ss_pred CCccccccccccccCC-CcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDG-ESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.....|+||.+.+... +.+..+- |||.+|.+||.+||.....||.|+..+.-
T Consensus 194 slv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 194 SLVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 3466899999988765 4455554 99999999999999888899999998753
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.76 E-value=0.0003 Score=53.50 Aligned_cols=45 Identities=24% Similarity=0.639 Sum_probs=34.8
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHhc--CCCCccccccccC
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE--HLTCPVCRISCID 100 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~--~~~CP~CR~~~~~ 100 (104)
..|.||++ .+...+.+ |+|.||.+|+..-+.. ...||+||..+..
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 78999998 33455566 9999999999998743 3359999987653
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.73 E-value=0.00076 Score=45.45 Aligned_cols=53 Identities=26% Similarity=0.743 Sum_probs=36.9
Q ss_pred CCCCccccccccccccCCCcE-EecCCC-----CCcccHHhHHHHHhcC--------CCCcccccccc
Q 045579 46 MTPSSNYCVICLENFVDGESC-RLFPVC-----YRIFHSVCIDQWLKEH--------LTCPVCRISCI 99 (104)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~-~~lp~C-----~H~fh~~Ci~~wl~~~--------~~CP~CR~~~~ 99 (104)
..+.+..|-||+..=++...- -+-| | .|..|.+|+..|+..+ .+||.|++++.
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 345688999999875443322 2334 6 4789999999999322 25999998764
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.70 E-value=0.00075 Score=52.14 Aligned_cols=36 Identities=22% Similarity=0.523 Sum_probs=29.3
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
++++.|.+|.-.+... ...+.| |||.||++||.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 5788999998887554 555677 99999999998764
No 94
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.70 E-value=0.0019 Score=40.55 Aligned_cols=36 Identities=28% Similarity=0.408 Sum_probs=22.0
Q ss_pred ccccccccccccCCCcEEec---CC-----CC-CcccHHhHHHHH
Q 045579 50 SNYCVICLENFVDGESCRLF---PV-----CY-RIFHSVCIDQWL 85 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l---p~-----C~-H~fh~~Ci~~wl 85 (104)
+..|+|||+--.+...+... .+ |+ -.-|..|++++-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 56899999876554322210 01 32 236889999875
No 95
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=96.52 E-value=0.0019 Score=45.68 Aligned_cols=26 Identities=23% Similarity=0.800 Sum_probs=20.2
Q ss_pred CcccHHhHHHHHh-------------cCCCCcccccccc
Q 045579 74 RIFHSVCIDQWLK-------------EHLTCPVCRISCI 99 (104)
Q Consensus 74 H~fh~~Ci~~wl~-------------~~~~CP~CR~~~~ 99 (104)
=..|.+|+.+||. ++.+||+||+.+.
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 3578999999983 2347999999874
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=96.40 E-value=0.0011 Score=53.04 Aligned_cols=47 Identities=23% Similarity=0.501 Sum_probs=39.0
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
....|.||++.+..-..+.. |||.||..|+..|+..+..||+|+...
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~---cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAG---CGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCeee---echhHhhhHHHHHHHHhccCcchhhhh
Confidence 34589999999885444443 999999999999999999999998543
No 97
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.40 E-value=0.0029 Score=40.62 Aligned_cols=28 Identities=32% Similarity=0.950 Sum_probs=22.8
Q ss_pred CCCcccHHhHHHHHhc-----C------CCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLKE-----H------LTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~-----~------~~CP~CR~~~~ 99 (104)
||..||.-|+..||+. + ..||.|-.++.
T Consensus 190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 9999999999999942 1 25999988764
No 98
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.0037 Score=42.85 Aligned_cols=47 Identities=17% Similarity=0.492 Sum_probs=33.5
Q ss_pred cccccccc-ccCCCcEEecCCCCCcccHHhHHHHH-hcCCCCccccccc
Q 045579 52 YCVICLEN-FVDGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISC 98 (104)
Q Consensus 52 ~C~ICl~~-~~~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~ 98 (104)
.|++|... |-+++.......|+|..|.+|+..-+ .+...||-|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888875 33444333332399999999999988 5667899996544
No 99
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=96.13 E-value=0.0037 Score=48.03 Aligned_cols=40 Identities=28% Similarity=0.619 Sum_probs=27.5
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcc
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPV 93 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~ 93 (104)
.|.||--.+ .+...+... |+|+.|.+|...|+.....||.
T Consensus 1030 ~C~~C~l~V-~gss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAV-RGSSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEe-eccchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 355553332 222333444 9999999999999999999984
No 100
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0035 Score=41.30 Aligned_cols=39 Identities=28% Similarity=0.708 Sum_probs=29.8
Q ss_pred cccccccccCCCcEEecCCCCC-cccHHhHHHHHhcCCCCcccccccc
Q 045579 53 CVICLENFVDGESCRLFPVCYR-IFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
|-+|-+ .+..|.++| |.| .+|..|-.. -..||+|+....
T Consensus 161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 888854 456688899 998 589999875 335999987764
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.0022 Score=44.43 Aligned_cols=48 Identities=25% Similarity=0.573 Sum_probs=31.8
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIE 102 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~ 102 (104)
.-.|--|=-.+ ..--+..| |+|+||.+|... ..-+.||.|--.|..++
T Consensus 90 VHfCd~Cd~PI--~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe 137 (389)
T KOG2932|consen 90 VHFCDRCDFPI--AIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQRIE 137 (389)
T ss_pred eEeecccCCcc--eeeecccc-cchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence 45676664332 22334567 999999999875 34567999987765443
No 102
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.78 E-value=0.0054 Score=42.53 Aligned_cols=46 Identities=22% Similarity=0.455 Sum_probs=35.8
Q ss_pred CCccccccccccccCCCcEEecCCC--CCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVC--YRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C--~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
..-.+||||.+.+..+ +.. | ||+-|..|-.+ ....||.||.++..+
T Consensus 46 ~~lleCPvC~~~l~~P--i~Q---C~nGHlaCssC~~~---~~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP--IFQ---CDNGHLACSSCRTK---VSNKCPTCRLPIGNI 93 (299)
T ss_pred hhhccCchhhccCccc--cee---cCCCcEehhhhhhh---hcccCCccccccccH
Confidence 4566899999998775 332 6 89999999874 567799999998754
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.0038 Score=44.71 Aligned_cols=37 Identities=19% Similarity=0.482 Sum_probs=27.1
Q ss_pred CccccccccccccCC-CcEEecCCCCCcccHHhHHHHHh
Q 045579 49 SSNYCVICLENFVDG-ESCRLFPVCYRIFHSVCIDQWLK 86 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~~wl~ 86 (104)
...+|.||+.++... ....++. |+|.||.+|+.+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhh
Confidence 467899999444333 3444444 999999999999885
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.55 E-value=0.0075 Score=41.61 Aligned_cols=28 Identities=25% Similarity=0.685 Sum_probs=22.2
Q ss_pred CCCcccHHhHHHHHh-------------cCCCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLK-------------EHLTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~-------------~~~~CP~CR~~~~ 99 (104)
|.-..|.+|+.+|+. ++-+||+||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 456789999999982 4558999999874
No 105
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.36 E-value=0.015 Score=41.45 Aligned_cols=49 Identities=18% Similarity=0.405 Sum_probs=39.5
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcC---CCCcccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH---LTCPVCRIS 97 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~---~~CP~CR~~ 97 (104)
.....|||=.+.-......+.|. |||+...+-+.+..++. ..||+|=..
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 45778999888877778888888 99999999999977543 359999443
No 106
>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=95.30 E-value=0.0063 Score=40.89 Aligned_cols=48 Identities=21% Similarity=0.585 Sum_probs=35.4
Q ss_pred Ccccccccccccc-CCC-cEEecCCCCCcccHHhHHHHHh-cCCCCc--cccc
Q 045579 49 SSNYCVICLENFV-DGE-SCRLFPVCYRIFHSVCIDQWLK-EHLTCP--VCRI 96 (104)
Q Consensus 49 ~~~~C~ICl~~~~-~~~-~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP--~CR~ 96 (104)
.+..||||..+.. +++ .+.+-|-|-|..|.+|+.+-|. ....|| -|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 4668999998643 333 4445566999999999999984 556799 6644
No 107
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.06 E-value=0.013 Score=40.38 Aligned_cols=49 Identities=27% Similarity=0.741 Sum_probs=35.6
Q ss_pred ccccccccccccCCCc-EEecCCCC-----CcccHHhHHHHHh--cCCCCcccccccc
Q 045579 50 SNYCVICLENFVDGES-CRLFPVCY-----RIFHSVCIDQWLK--EHLTCPVCRISCI 99 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~fh~~Ci~~wl~--~~~~CP~CR~~~~ 99 (104)
+..|-||+.+...... ....| |. +..|..|+..|+. ...+|.+|...+.
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 5789999997654321 34455 63 4589999999996 6667999987654
No 108
>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=94.96 E-value=0.021 Score=29.32 Aligned_cols=43 Identities=30% Similarity=0.525 Sum_probs=22.6
Q ss_pred cccccccccCC------CcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 53 CVICLENFVDG------ESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 53 C~ICl~~~~~~------~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
|.-|+..|..+ .....-|.|++.||.+|=.--=..=..||-|-
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 55677776654 24566677999999999664223334699873
No 109
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.84 E-value=0.022 Score=34.86 Aligned_cols=53 Identities=23% Similarity=0.361 Sum_probs=37.3
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh---cCCCCccccccccCC
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK---EHLTCPVCRISCIDI 101 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~~~~ 101 (104)
.-.+|-||.|...+...+.---.||-..|..|.....+ ...+||+|+.++...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 57899999988554433221112899999999876543 456799999998643
No 110
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=94.64 E-value=0.017 Score=42.05 Aligned_cols=34 Identities=18% Similarity=0.454 Sum_probs=28.3
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
+++..|+||-.-|.+ .++|| |+|..|..|...-+
T Consensus 2 eeelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILP-CSHNLCQACARNIL 35 (699)
T ss_pred cccccCceehhhccC---ceEee-cccHHHHHHHHhhc
Confidence 457789999988876 56778 99999999998765
No 111
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.63 E-value=0.037 Score=43.15 Aligned_cols=54 Identities=19% Similarity=0.483 Sum_probs=38.5
Q ss_pred CCccccccccccccCCCcEEecCCCCC-----cccHHhHHHHHhc--CCCCccccccccCCCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYR-----IFHSVCIDQWLKE--HLTCPVCRISCIDIEN 103 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H-----~fh~~Ci~~wl~~--~~~CP~CR~~~~~~~~ 103 (104)
+++..|-||..+=..++.+.- | |+. ..|.+|+.+|+.- ...|-+|..++.-.+.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh-P-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH-P-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc-c-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 567899999987655554432 3 543 4899999999954 4459999988754443
No 112
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.18 E-value=0.027 Score=43.72 Aligned_cols=53 Identities=9% Similarity=0.112 Sum_probs=37.1
Q ss_pred CCccccccccccccCC---CcEEecCCCCCcccHHhHHHHHh------cCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDG---ESCRLFPVCYRIFHSVCIDQWLK------EHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~---~~~~~lp~C~H~fh~~Ci~~wl~------~~~~CP~CR~~~~~ 100 (104)
.+...|.||.-++..+ ..+-.+..|+|.||..||..|+. ..-.|++|..-|..
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 4566788888887762 22323335999999999999983 23358998776653
No 113
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.02 E-value=0.018 Score=43.66 Aligned_cols=41 Identities=24% Similarity=0.459 Sum_probs=31.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCP 92 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP 92 (104)
-..|.||+..|......-+.+.|||+.|..|+.... +.+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 457999999887665554555699999999999864 44677
No 114
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.81 E-value=0.11 Score=31.05 Aligned_cols=46 Identities=24% Similarity=0.450 Sum_probs=35.0
Q ss_pred ccccccccccccCC----------CcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 50 SNYCVICLENFVDG----------ESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 50 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
...|.-|+..|... .....-++|++.||.+|=.-+-..=..||-|-
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 45699999988643 12334566999999999988877777899985
No 115
>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=93.14 E-value=0.063 Score=27.34 Aligned_cols=43 Identities=16% Similarity=0.403 Sum_probs=19.7
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHh---c--CCCCcccccc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK---E--HLTCPVCRIS 97 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~---~--~~~CP~CR~~ 97 (104)
..|+|-...+..+ ++... |.|.-|.+ +..||. . .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888777663 44444 99986554 555652 2 2259999763
No 116
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=92.94 E-value=0.033 Score=41.87 Aligned_cols=44 Identities=27% Similarity=0.740 Sum_probs=28.2
Q ss_pred CCcccccccccc-----ccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 48 PSSNYCVICLEN-----FVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 48 ~~~~~C~ICl~~-----~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
.....|.||... |+. +.+.....|+++||..|+.. .+.-||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~-~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFET-RNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCccccccc-ccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 457788888432 222 22233223999999999886 444499993
No 117
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.06 Score=40.29 Aligned_cols=46 Identities=30% Similarity=0.882 Sum_probs=37.7
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
.....|.||+..+ ..++.+ |. |..|+..|+..+.+||+|+..+...
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence 5677899999988 344555 77 8999999999999999999887643
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.54 E-value=0.075 Score=38.82 Aligned_cols=36 Identities=22% Similarity=0.435 Sum_probs=28.9
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHh
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK 86 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 86 (104)
.....|-||.+.+.. .+..+. |||.|+..|+...+.
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLG 103 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhh
Confidence 456789999988765 444555 999999999999984
No 119
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.43 E-value=0.03 Score=42.76 Aligned_cols=46 Identities=26% Similarity=0.657 Sum_probs=35.5
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh---cCCCCccccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK---EHLTCPVCRISC 98 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~---~~~~CP~CR~~~ 98 (104)
-..+|+||+..+..+ ..+ +|.|.|+..|+..-|. ....||+|+..+
T Consensus 20 k~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 356899999998776 333 4999999999988763 345699998655
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=92.33 E-value=0.15 Score=39.42 Aligned_cols=41 Identities=20% Similarity=0.346 Sum_probs=29.0
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPV 93 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~ 93 (104)
..|.+|-..+. +. ....+.|||.-|.+|+.+|+....-||.
T Consensus 780 ~~CtVC~~vi~-G~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GV-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee-ee-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 36888865432 22 2234559999999999999987776665
No 121
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=92.17 E-value=0.12 Score=33.97 Aligned_cols=43 Identities=28% Similarity=0.703 Sum_probs=30.3
Q ss_pred CCcccccccccc-----ccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 48 PSSNYCVICLEN-----FVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 48 ~~~~~C~ICl~~-----~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
..+..|-||-++ |+. +.+..-+.|+-+||..|..+ ..||-|-+
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 346788888753 333 24555566999999999883 56999953
No 122
>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=91.93 E-value=0.091 Score=26.43 Aligned_cols=44 Identities=32% Similarity=0.672 Sum_probs=29.4
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHh------cCCCCccccc
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK------EHLTCPVCRI 96 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~------~~~~CP~CR~ 96 (104)
.|.||......+..+.-- .|+-.||..|+..-.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 488998844444444444 4999999999976442 2346888864
No 123
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=91.84 E-value=0.25 Score=25.73 Aligned_cols=43 Identities=21% Similarity=0.521 Sum_probs=29.7
Q ss_pred ccccccccccCCC-cEEecCCCCC--cccHHhHHHHHhcCCCCcccccccc
Q 045579 52 YCVICLENFVDGE-SCRLFPVCYR--IFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 52 ~C~ICl~~~~~~~-~~~~lp~C~H--~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.|-.|-.++.... ...+ |.+ +||.+|...-| ...||.|-..++
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 4556666665444 2222 654 79999999965 678999988775
No 124
>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 PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=91.27 E-value=0.18 Score=23.82 Aligned_cols=26 Identities=15% Similarity=0.349 Sum_probs=15.7
Q ss_pred ccccccccccCCCc-------EEecCCCCCccc
Q 045579 52 YCVICLENFVDGES-------CRLFPVCYRIFH 77 (104)
Q Consensus 52 ~C~ICl~~~~~~~~-------~~~lp~C~H~fh 77 (104)
.|+=|...|..++. .+.-+.|+|+|+
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 57778877765542 122344888774
No 126
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.20 E-value=0.31 Score=33.78 Aligned_cols=41 Identities=20% Similarity=0.317 Sum_probs=31.1
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH 88 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~ 88 (104)
.....|.+|.|.+++...|..-..=.|.||.-|-.+-++.+
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 34578999999998877665222238999999999988643
No 127
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=90.72 E-value=0.2 Score=23.82 Aligned_cols=26 Identities=23% Similarity=0.459 Sum_probs=16.0
Q ss_pred ccccccccccCCCc-------EEecCCCCCccc
Q 045579 52 YCVICLENFVDGES-------CRLFPVCYRIFH 77 (104)
Q Consensus 52 ~C~ICl~~~~~~~~-------~~~lp~C~H~fh 77 (104)
.|+-|...|..++. .+.-+.|+|+|.
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 57778777765542 223445788774
No 128
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=90.67 E-value=0.29 Score=34.50 Aligned_cols=60 Identities=20% Similarity=0.426 Sum_probs=39.1
Q ss_pred CCccccCCCCCC--CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 36 MPCVNYSDQEMT--PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 36 ~~~~~~~~~~~~--~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.|...+.+.... .....|-.|.++.......+.-. |.+.||.+|=.---..=..||.|-.
T Consensus 314 ~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 314 FPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred cCCcchhhccccccCCCcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCC
Confidence 344444443333 35556999987776665555544 9999999997653344456999964
No 129
>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=90.49 E-value=0.15 Score=22.35 Aligned_cols=23 Identities=26% Similarity=0.511 Sum_probs=12.6
Q ss_pred ccccccccccCCCcEEecCCCCCcc
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIF 76 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~f 76 (104)
.||-|-..+.. ....-|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 46667655432 233444577776
No 130
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=90.34 E-value=0.13 Score=33.98 Aligned_cols=43 Identities=26% Similarity=0.619 Sum_probs=33.8
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVC 94 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~C 94 (104)
.-..|-+|..-.-.+.. .-. |+-.+|..|+...+.....||.|
T Consensus 180 nlk~Cn~Ch~LvIqg~r--Cg~-c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIR--CGS-CNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHHhHhHHHhheeec--cCc-ccchhhhHHHHHHhcccCcCCch
Confidence 35579999887655433 223 88889999999999998899999
No 131
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.97 E-value=0.17 Score=36.39 Aligned_cols=44 Identities=18% Similarity=0.270 Sum_probs=31.3
Q ss_pred CccccccccccccCCC--cEEecCCCCCcccHHhHHHHHhcCCCCcc
Q 045579 49 SSNYCVICLENFVDGE--SCRLFPVCYRIFHSVCIDQWLKEHLTCPV 93 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~--~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~ 93 (104)
.-..|++|.-.++... .-+... |||.||..|...|...+..|..
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~ 350 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYE 350 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccC
Confidence 3567888887665433 333444 8999999999999877776643
No 132
>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=89.95 E-value=0.16 Score=27.23 Aligned_cols=37 Identities=24% Similarity=0.416 Sum_probs=19.5
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
....|.+|...|..-..-..-..||++||..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4668999999997654444444599999999987544
No 133
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.14 E-value=0.53 Score=32.10 Aligned_cols=52 Identities=12% Similarity=0.201 Sum_probs=36.9
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
.....|+|=--+|........+-.|||+|-..-+.+- ...+|++|.+.+.+.
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 4466899876666555555555459999987766663 577899999887654
No 134
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.96 E-value=0.16 Score=39.49 Aligned_cols=45 Identities=20% Similarity=0.481 Sum_probs=31.7
Q ss_pred CccccccccccccCC----CcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 49 SSNYCVICLENFVDG----ESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~----~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
-+..|.-|++..... ..++++. |||.||..|+.--+.++. |-.|-
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChhh
Confidence 455899998876422 4667776 999999999987764443 55443
No 135
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=88.69 E-value=0.7 Score=32.60 Aligned_cols=56 Identities=20% Similarity=0.482 Sum_probs=37.5
Q ss_pred CCcccccccccccc---------------CCC-cEEecCCCCCcccHHhHHHHHhc---------CCCCccccccccCCC
Q 045579 48 PSSNYCVICLENFV---------------DGE-SCRLFPVCYRIFHSVCIDQWLKE---------HLTCPVCRISCIDIE 102 (104)
Q Consensus 48 ~~~~~C~ICl~~~~---------------~~~-~~~~lp~C~H~fh~~Ci~~wl~~---------~~~CP~CR~~~~~~~ 102 (104)
..+..|++|+..-. .+. .-...| |||+--..-+.-|.+. +..||.|-..+....
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 45778999986411 000 111345 9999888888889732 346999988887665
Q ss_pred CC
Q 045579 103 NY 104 (104)
Q Consensus 103 ~~ 104 (104)
+|
T Consensus 418 ~~ 419 (429)
T KOG3842|consen 418 GY 419 (429)
T ss_pred ce
Confidence 54
No 136
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=88.34 E-value=0.61 Score=32.83 Aligned_cols=51 Identities=24% Similarity=0.364 Sum_probs=37.4
Q ss_pred CCccccccccccccCCCcEE-ecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGESCR-LFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~-~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.-...|+||-+.....+... -.| |++..|..|+..-.....+||.||+...
T Consensus 247 ~v~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 247 SVPPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred ccCCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccc
Confidence 34568999999874444332 334 8888888888887788889999997654
No 137
>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=88.12 E-value=0.4 Score=24.55 Aligned_cols=36 Identities=25% Similarity=0.420 Sum_probs=25.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
...|.+|-..|.....-.....||++|+.+|.....
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 346889988776644333333499999999998765
No 138
>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=88.09 E-value=0.35 Score=22.29 Aligned_cols=37 Identities=22% Similarity=0.446 Sum_probs=23.0
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
|..|-..+...+..... =+..||.+|.. |..|...|.
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf~--------C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPECFK--------CSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccCCC--------CcccCCcCc
Confidence 77787777665233222 35778877754 777776653
No 139
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=87.32 E-value=0.41 Score=25.79 Aligned_cols=11 Identities=27% Similarity=1.105 Sum_probs=8.2
Q ss_pred ccHHhHHHHHh
Q 045579 76 FHSVCIDQWLK 86 (104)
Q Consensus 76 fh~~Ci~~wl~ 86 (104)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 140
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=86.52 E-value=1.3 Score=24.66 Aligned_cols=51 Identities=22% Similarity=0.377 Sum_probs=21.2
Q ss_pred CccccccccccccC---CCcEEecCCCCCcccHHhHHHHHh-cCCCCcccccccc
Q 045579 49 SSNYCVICLENFVD---GESCRLFPVCYRIFHSVCIDQWLK-EHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~lp~C~H~fh~~Ci~~wl~-~~~~CP~CR~~~~ 99 (104)
....|-||=+++.. ++..+....|+--.|..|.+-=.+ ....||.|+..+.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46789999988753 333333233777899999876554 5567999998764
No 141
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=84.99 E-value=0.62 Score=31.95 Aligned_cols=49 Identities=22% Similarity=0.471 Sum_probs=34.3
Q ss_pred ccccccccccccCCCcEEe---cCCCCCcccHHhHHHHHh---------cCCCCccccccc
Q 045579 50 SNYCVICLENFVDGESCRL---FPVCYRIFHSVCIDQWLK---------EHLTCPVCRISC 98 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~---lp~C~H~fh~~Ci~~wl~---------~~~~CP~CR~~~ 98 (104)
...|-+|..++.+.+..+. -+.|+-++|..|+..-+. ....||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3689999999954443332 233788899999998542 244699998754
No 142
>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 COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.23 E-value=1.1 Score=31.64 Aligned_cols=47 Identities=17% Similarity=0.356 Sum_probs=34.8
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcC---CCCcccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH---LTCPVCR 95 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~---~~CP~CR 95 (104)
..-..||+=-+.-......+.|. |||+.-.+-+....++. ..||.|=
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 45678998777666666777777 99999988888865432 3499993
No 144
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=82.85 E-value=0.35 Score=25.15 Aligned_cols=21 Identities=24% Similarity=0.341 Sum_probs=16.1
Q ss_pred CcEEecCCCCCcccHHhHHHH
Q 045579 64 ESCRLFPVCYRIFHSVCIDQW 84 (104)
Q Consensus 64 ~~~~~lp~C~H~fh~~Ci~~w 84 (104)
...+..+.|+|.||..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344555459999999999888
No 145
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=82.30 E-value=0.6 Score=23.81 Aligned_cols=38 Identities=21% Similarity=0.438 Sum_probs=18.6
Q ss_pred cccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
|..|-..+.....++.. -+..||.+|.. |-.|+..|.+
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf~--------C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECFK--------CSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTSB--------ETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccccc--------cCCCCCccCC
Confidence 44555555544433211 45566655542 5556555543
No 146
>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=82.18 E-value=0.95 Score=26.00 Aligned_cols=42 Identities=24% Similarity=0.505 Sum_probs=31.8
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIENY 104 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~ 104 (104)
...|-||-..+.. =||.||..|..+ +..|.+|-..|.+.-.|
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAYk----kGiCamCGKki~dtk~y 85 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAYK----KGICAMCGKKILDTKNY 85 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhcc----cCcccccCCeecccccc
Confidence 5679999765322 477899999764 67899999999876654
No 147
>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=81.55 E-value=0.084 Score=28.84 Aligned_cols=39 Identities=21% Similarity=0.394 Sum_probs=18.9
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
..||.|..++.... +|.+|..|-.. +.....||-|..++
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHH
Confidence 46888888765433 44555555554 34556688887765
No 148
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.97 E-value=3.3 Score=28.35 Aligned_cols=34 Identities=18% Similarity=0.305 Sum_probs=27.2
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
.+...|+.||.++..+ ++.| =||+|+.+||.+++
T Consensus 41 K~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYI 74 (303)
T ss_pred CCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHH
Confidence 3567899999998773 3445 69999999999987
No 149
>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=80.39 E-value=1.7 Score=19.36 Aligned_cols=29 Identities=17% Similarity=0.221 Sum_probs=10.0
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhH
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCI 81 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci 81 (104)
.|.+|...... .....-+.|.-.+|..|+
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 57788777655 233333348889999885
No 150
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.75 E-value=1.3 Score=24.40 Aligned_cols=25 Identities=24% Similarity=0.442 Sum_probs=20.1
Q ss_pred CCcccHHhHHHHHhcCCCCcccccccc
Q 045579 73 YRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 73 ~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.|.||.+|.+.- -...||.|-..++
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhh
Confidence 588999999974 4568999987765
No 151
>PLN02189 cellulose synthase
Probab=79.69 E-value=2.2 Score=34.62 Aligned_cols=51 Identities=20% Similarity=0.380 Sum_probs=36.2
Q ss_pred Ccccccccccccc---CCCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccccc
Q 045579 49 SSNYCVICLENFV---DGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~ 99 (104)
....|.||-+++. .++..+...-|+--.|..|.+.=. ..+..||.|++.+.
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4568999999875 344444444488889999995433 34567999998875
No 152
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=79.48 E-value=1.6 Score=25.52 Aligned_cols=34 Identities=26% Similarity=0.562 Sum_probs=22.5
Q ss_pred CccccccccccccCCCcEEe-cCCCCCcccHHhHHHH
Q 045579 49 SSNYCVICLENFVDGESCRL-FPVCYRIFHSVCIDQW 84 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~-lp~C~H~fh~~Ci~~w 84 (104)
....|.||... .|..+.- -+.|...||..|....
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 46789999876 2322221 1237789999999764
No 153
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=79.31 E-value=1.4 Score=22.57 Aligned_cols=24 Identities=25% Similarity=0.635 Sum_probs=15.0
Q ss_pred CCCCCcccHHhHHHHHhcCCCCccc
Q 045579 70 PVCYRIFHSVCIDQWLKEHLTCPVC 94 (104)
Q Consensus 70 p~C~H~fh~~Ci~~wl~~~~~CP~C 94 (104)
+.|||.|-..=-.+ ......||.|
T Consensus 32 ~~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEccHhhh-ccCCCCCCCC
Confidence 44888776553322 3556679988
No 154
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.37 E-value=0.8 Score=31.98 Aligned_cols=48 Identities=23% Similarity=0.497 Sum_probs=38.8
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
.....|.||...+..+...- +|.|.|+..|...|.....-||.|+..+
T Consensus 103 ~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCc
Confidence 56778999988876654432 4999999999999999888899988654
No 155
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=77.74 E-value=2.6 Score=26.15 Aligned_cols=37 Identities=22% Similarity=0.382 Sum_probs=20.7
Q ss_pred EEecCCCCCcccHHhHHHHH--hcCCCCccccccccCCC
Q 045579 66 CRLFPVCYRIFHSVCIDQWL--KEHLTCPVCRISCIDIE 102 (104)
Q Consensus 66 ~~~lp~C~H~fh~~Ci~~wl--~~~~~CP~CR~~~~~~~ 102 (104)
....|.|+..|=..=..... .....||.|...+...+
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEEDD 137 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEcC
Confidence 44445576666543222221 12267999999987554
No 156
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=77.40 E-value=0.79 Score=23.45 Aligned_cols=11 Identities=27% Similarity=0.582 Sum_probs=5.7
Q ss_pred CCCcccccccc
Q 045579 89 LTCPVCRISCI 99 (104)
Q Consensus 89 ~~CP~CR~~~~ 99 (104)
..||+|.++|.
T Consensus 21 ~~CPlC~r~l~ 31 (54)
T PF04423_consen 21 GCCPLCGRPLD 31 (54)
T ss_dssp EE-TTT--EE-
T ss_pred CcCCCCCCCCC
Confidence 37999998875
No 157
>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=76.13 E-value=0.14 Score=26.29 Aligned_cols=11 Identities=27% Similarity=1.044 Sum_probs=7.7
Q ss_pred CCCCccccccc
Q 045579 88 HLTCPVCRISC 98 (104)
Q Consensus 88 ~~~CP~CR~~~ 98 (104)
...||+|...+
T Consensus 31 ~v~CPiC~~~~ 41 (54)
T PF05605_consen 31 NVVCPICSSRV 41 (54)
T ss_pred CccCCCchhhh
Confidence 45699997654
No 158
>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=75.03 E-value=5.3 Score=23.52 Aligned_cols=24 Identities=29% Similarity=0.601 Sum_probs=18.3
Q ss_pred CCcccHHhHHHHHhc---------CCCCccccc
Q 045579 73 YRIFHSVCIDQWLKE---------HLTCPVCRI 96 (104)
Q Consensus 73 ~H~fh~~Ci~~wl~~---------~~~CP~CR~ 96 (104)
.=.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988732 235999985
No 159
>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=74.27 E-value=1.8 Score=19.85 Aligned_cols=20 Identities=30% Similarity=0.692 Sum_probs=12.3
Q ss_pred CCCcccHHhHHHHHhcCCCCcccccc
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRIS 97 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~~ 97 (104)
|||++-..- ....||+|...
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCEECCCc------CCCcCcCCCCc
Confidence 777664332 33479999764
No 160
>PLN02436 cellulose synthase A
Probab=72.85 E-value=4.2 Score=33.20 Aligned_cols=51 Identities=24% Similarity=0.442 Sum_probs=36.3
Q ss_pred Ccccccccccccc---CCCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccccc
Q 045579 49 SSNYCVICLENFV---DGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~ 99 (104)
....|-||-+++. .++..+....|+--.|..|.+.=. ..+..||.|++.+.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4568999999864 444444444478789999995433 34567999998875
No 161
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=72.17 E-value=3 Score=28.30 Aligned_cols=26 Identities=19% Similarity=0.410 Sum_probs=19.0
Q ss_pred cccccccccccCCCcEEecCCCCCccc
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFH 77 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh 77 (104)
..||||...+.........+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 47999999997655555544 589883
No 162
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=72.09 E-value=2.6 Score=23.56 Aligned_cols=33 Identities=30% Similarity=0.585 Sum_probs=22.0
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHH
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
...|.+|........... .++|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 557999986633222222 345899999999876
No 163
>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=71.81 E-value=2.8 Score=25.07 Aligned_cols=46 Identities=20% Similarity=0.282 Sum_probs=28.0
Q ss_pred Ccccccccccccc--CCCcEEecCCCCCcccHHhHHHHHhcCC--CCccccc
Q 045579 49 SSNYCVICLENFV--DGESCRLFPVCYRIFHSVCIDQWLKEHL--TCPVCRI 96 (104)
Q Consensus 49 ~~~~C~ICl~~~~--~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP~CR~ 96 (104)
.+..|.+|...|. .+...... .|+|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~-~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCV-DCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEET-TTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCC-cCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5678999998764 23344444 4999999999765 11112 3777754
No 164
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=71.79 E-value=0.91 Score=31.60 Aligned_cols=45 Identities=18% Similarity=0.441 Sum_probs=28.8
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIENY 104 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~ 104 (104)
...|+.|.+.+.....|+.. =.|+||..|.. |-+|+..+..-+.|
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TGdEF 136 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATGDEF 136 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccCCee
Confidence 44677777776554444432 46888888875 77887777655443
No 165
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=70.81 E-value=2.7 Score=28.74 Aligned_cols=42 Identities=26% Similarity=0.344 Sum_probs=29.3
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCC--CCccc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHL--TCPVC 94 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP~C 94 (104)
...|||=.-.+..+ ++. .+|||+|-++=|...+.... .||+=
T Consensus 176 s~rdPis~~~I~nP--viS-kkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VIS-KKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cccCchhhhhhhch--hhh-cCcCcchhhhhHHHHhccCceeecccc
Confidence 45688766666553 333 34999999999999986533 48863
No 166
>PLN02195 cellulose synthase A
Probab=70.66 E-value=7.3 Score=31.58 Aligned_cols=52 Identities=17% Similarity=0.307 Sum_probs=35.9
Q ss_pred CccccccccccccC---CCcEEecCCCCCcccHHhHHHHH-hcCCCCccccccccC
Q 045579 49 SSNYCVICLENFVD---GESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCID 100 (104)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~~ 100 (104)
....|-||=+.+.. ++..+...-|+--.|+.|.+-=- ..+..||.|++.+.+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 45689999887643 34333333488889999995433 245579999998873
No 167
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=70.19 E-value=4.8 Score=23.62 Aligned_cols=33 Identities=18% Similarity=0.297 Sum_probs=27.4
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
..|.||-.++..|+....+++ -..|.+|+..=.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 479999999999988877764 569999998755
No 168
>PF12773 DZR: Double zinc ribbon
Probab=70.15 E-value=3.6 Score=20.38 Aligned_cols=15 Identities=20% Similarity=0.379 Sum_probs=8.9
Q ss_pred CCCccccccccCCCC
Q 045579 89 LTCPVCRISCIDIEN 103 (104)
Q Consensus 89 ~~CP~CR~~~~~~~~ 103 (104)
..||.|...+.....
T Consensus 30 ~~C~~Cg~~~~~~~~ 44 (50)
T PF12773_consen 30 KICPNCGAENPPNAK 44 (50)
T ss_pred CCCcCCcCCCcCCcC
Confidence 457777776554443
No 169
>PRK05978 hypothetical protein; Provisional
Probab=70.00 E-value=3.1 Score=26.14 Aligned_cols=24 Identities=21% Similarity=0.416 Sum_probs=19.2
Q ss_pred CCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 73 YRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 73 ~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
|+.|. .+|+.+..||.|-.++...
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccC
Confidence 57785 7788999999999888644
No 170
>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=69.28 E-value=2.7 Score=26.61 Aligned_cols=44 Identities=27% Similarity=0.434 Sum_probs=28.5
Q ss_pred ccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 54 VICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 54 ~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.||+..=...+....-|.=.+.||..|-.+-.. .||.|..+|..
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG 51 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRG 51 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCC
Confidence 367665444444333332345699999988654 49999988864
No 171
>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=68.74 E-value=5 Score=27.70 Aligned_cols=44 Identities=20% Similarity=0.448 Sum_probs=26.2
Q ss_pred CccccccccccccCCCcEEecCCC-CCcccHHhHHHHH-hcCCCCc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVC-YRIFHSVCIDQWL-KEHLTCP 92 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C-~H~fh~~Ci~~wl-~~~~~CP 92 (104)
.-..|.||++--..+..-..|..= .=.-|.+|.++|- ..+..||
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 345688888765444332222201 1137899999995 5666788
No 172
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.67 E-value=2.9 Score=24.08 Aligned_cols=11 Identities=27% Similarity=1.081 Sum_probs=10.2
Q ss_pred ccHHhHHHHHh
Q 045579 76 FHSVCIDQWLK 86 (104)
Q Consensus 76 fh~~Ci~~wl~ 86 (104)
||..|+..|..
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 173
>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=67.79 E-value=1.7 Score=27.23 Aligned_cols=23 Identities=26% Similarity=0.784 Sum_probs=16.2
Q ss_pred CCCcccHHhHHHHHhc-----------CCCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLKE-----------HLTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~-----------~~~CP~CR~~~~ 99 (104)
+||.| +.||.. -.+||+|-..-+
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V 43 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEV 43 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeE
Confidence 58988 789832 347999976543
No 174
>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=67.73 E-value=5.8 Score=21.04 Aligned_cols=35 Identities=14% Similarity=0.097 Sum_probs=24.6
Q ss_pred CccccccccccccC--CCcEEecCCCCCcccHHhHHH
Q 045579 49 SSNYCVICLENFVD--GESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 49 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
....|+.|-..... .......|.||+.++.+-...
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 46689999877665 445556666898888875443
No 175
>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=67.63 E-value=2 Score=19.07 Aligned_cols=11 Identities=45% Similarity=1.062 Sum_probs=5.6
Q ss_pred CCccccccccC
Q 045579 90 TCPVCRISCID 100 (104)
Q Consensus 90 ~CP~CR~~~~~ 100 (104)
+||.|-..+..
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 48888887763
No 176
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=66.83 E-value=2 Score=27.51 Aligned_cols=25 Identities=24% Similarity=0.611 Sum_probs=13.0
Q ss_pred EEecCCCCCcccHHhHHHHHhcCCCCcccccc
Q 045579 66 CRLFPVCYRIFHSVCIDQWLKEHLTCPVCRIS 97 (104)
Q Consensus 66 ~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 97 (104)
+-+.+.|||++=. ..-..||+|..+
T Consensus 134 ~~vC~vCGy~~~g-------e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-------EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-------CCCCcCCCCCCh
Confidence 3344457775421 123468888654
No 177
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=66.38 E-value=3.9 Score=17.20 Aligned_cols=10 Identities=30% Similarity=0.737 Sum_probs=5.4
Q ss_pred CCCCcccccc
Q 045579 88 HLTCPVCRIS 97 (104)
Q Consensus 88 ~~~CP~CR~~ 97 (104)
...||.|-.+
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3446666544
No 178
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=66.27 E-value=2.7 Score=22.20 Aligned_cols=14 Identities=29% Similarity=0.906 Sum_probs=10.0
Q ss_pred cCCCCccccccccC
Q 045579 87 EHLTCPVCRISCID 100 (104)
Q Consensus 87 ~~~~CP~CR~~~~~ 100 (104)
...+||+|..++..
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 34579999887753
No 179
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=65.95 E-value=6.9 Score=27.77 Aligned_cols=44 Identities=9% Similarity=-0.134 Sum_probs=30.3
Q ss_pred CccccccccccccCCCcEEecCCCCC-cccHHhHHHHHhcCCCCccccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYR-IFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
....|..|-+.... .+..+ |+| .|+.+|.. +....+||+|-...
T Consensus 342 s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 35567777544322 33455 998 69999988 56778999997654
No 180
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=65.06 E-value=12 Score=24.11 Aligned_cols=31 Identities=23% Similarity=0.420 Sum_probs=19.2
Q ss_pred CCCCCcccHHhHHHHHhcCCCCccccccccCCCC
Q 045579 70 PVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIEN 103 (104)
Q Consensus 70 p~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~ 103 (104)
|.|+..|=.. ..+.....||.|-..+...++
T Consensus 121 p~C~~rytf~---eA~~~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 121 PNCHIRFTFD---EAMEYGFRCPQCGEMLEEYDN 151 (178)
T ss_pred CCCCcEEeHH---HHhhcCCcCCCCCCCCeeccc
Confidence 3355444332 234567889999998876553
No 181
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=65.02 E-value=12 Score=30.66 Aligned_cols=52 Identities=19% Similarity=0.395 Sum_probs=36.3
Q ss_pred CCcccccccccccc---CCCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFV---DGESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~---~~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~ 99 (104)
-....|-||=+++. +++..+...-|+--.|..|.+-=. ..+..||.|++.+.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35778999998865 344444333377779999995433 34567999998875
No 182
>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=64.41 E-value=2.4 Score=19.96 Aligned_cols=28 Identities=29% Similarity=0.462 Sum_probs=17.5
Q ss_pred CCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 70 PVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 70 p~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
+.||++||..=--+ +....|..|..+|+
T Consensus 5 ~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 5 PKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp TTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 45999999442211 45567888877664
No 183
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.38 E-value=5.4 Score=30.97 Aligned_cols=44 Identities=23% Similarity=0.344 Sum_probs=31.2
Q ss_pred ccccccccccCCCcEEecCCCCC-cccHHhHHHHH--hc----CCCCcccccccc
Q 045579 52 YCVICLENFVDGESCRLFPVCYR-IFHSVCIDQWL--KE----HLTCPVCRISCI 99 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H-~fh~~Ci~~wl--~~----~~~CP~CR~~~~ 99 (104)
.|+||-..+.. ++.- .||| ..+..|..+.. .. ...||+||..+.
T Consensus 2 ~c~ic~~s~~~---~~~~-s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDF---VGRG-SCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccc---cccc-cccccccchhhhhhhhhhcccccccccCccccccee
Confidence 48898765432 3333 4999 89999999875 23 456899999764
No 184
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=63.59 E-value=13 Score=23.47 Aligned_cols=19 Identities=26% Similarity=0.588 Sum_probs=14.1
Q ss_pred HhcCCCCccccccccCCCC
Q 045579 85 LKEHLTCPVCRISCIDIEN 103 (104)
Q Consensus 85 l~~~~~CP~CR~~~~~~~~ 103 (104)
+....+||.|-..+...++
T Consensus 125 ~~~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 125 MELNFTCPRCGAMLDYLDN 143 (158)
T ss_pred HHcCCcCCCCCCEeeeccC
Confidence 3457889999998876553
No 185
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=63.49 E-value=9.1 Score=31.42 Aligned_cols=51 Identities=24% Similarity=0.451 Sum_probs=35.3
Q ss_pred CccccccccccccC---CCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccccc
Q 045579 49 SSNYCVICLENFVD---GESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~ 99 (104)
....|-||=+++.. ++..+...-|+--.|..|.+-=. ..+..||.|++.+.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45689999998753 34443333377779999995432 34567999998875
No 186
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.29 E-value=2.1 Score=31.43 Aligned_cols=37 Identities=19% Similarity=0.418 Sum_probs=26.4
Q ss_pred ccccccccccccCCCcEE-----ecCCCCCcccHHhHHHHHhc
Q 045579 50 SNYCVICLENFVDGESCR-----LFPVCYRIFHSVCIDQWLKE 87 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~-----~lp~C~H~fh~~Ci~~wl~~ 87 (104)
...||.|....+...... ..+ |+|.||.-|+..|...
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~-c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSAS-CKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCC-cCCeeceeeecccccc
Confidence 334999998887655221 223 9999999999888643
No 187
>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=62.93 E-value=8.8 Score=21.98 Aligned_cols=38 Identities=18% Similarity=0.259 Sum_probs=27.6
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
+-..|+-|...+.--+. .| |-.|+..+..|..|++++.
T Consensus 32 ~rS~C~~C~~~L~~~~l---IP----------i~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDL---IP----------ILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CCCcCcCCCCcCccccc---ch----------HHHHHHhCCCCcccCCCCC
Confidence 34567777766554333 34 7889999999999999875
No 188
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=62.07 E-value=1.3 Score=30.75 Aligned_cols=38 Identities=26% Similarity=0.608 Sum_probs=28.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHhc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKE 87 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~ 87 (104)
....|.+|+++|..+.....+. |--+||..|+-.|+..
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred CceecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 3448999999997654444444 5559999999999854
No 189
>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=61.92 E-value=1.4 Score=21.45 Aligned_cols=25 Identities=20% Similarity=0.395 Sum_probs=13.8
Q ss_pred CCCCcccHHhHHHHHhcCCCCccccc
Q 045579 71 VCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 71 ~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.|||.|-.---..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 38887753321110 23446999987
No 190
>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=61.85 E-value=8.2 Score=23.10 Aligned_cols=27 Identities=19% Similarity=0.290 Sum_probs=18.6
Q ss_pred EecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 67 RLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 67 ~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
+..|.|++. .+-+.+...|+.|++++.
T Consensus 70 V~CP~C~K~------TKmLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 70 VECPNCGKQ------TKMLGRVDACMHCKEPLT 96 (114)
T ss_pred eECCCCCCh------HhhhchhhccCcCCCcCc
Confidence 345667773 344556678999999885
No 191
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=61.19 E-value=7.2 Score=29.75 Aligned_cols=35 Identities=34% Similarity=0.541 Sum_probs=24.4
Q ss_pred CCccccccccccccCC-----------CcEEecCCCCCcccHHhHHHH
Q 045579 48 PSSNYCVICLENFVDG-----------ESCRLFPVCYRIFHSVCIDQW 84 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~-----------~~~~~lp~C~H~fh~~Ci~~w 84 (104)
+....|+||.+.|+.- +.|.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 4577899999998631 133332 3779999999764
No 192
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=60.06 E-value=5.7 Score=29.50 Aligned_cols=37 Identities=16% Similarity=0.372 Sum_probs=25.6
Q ss_pred Cccccccccccc-cCCCcEEecCCCCCcccHHhHHHHH
Q 045579 49 SSNYCVICLENF-VDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 49 ~~~~C~ICl~~~-~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
.+..|.+|.... .....++..-+|+-.||..|-....
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i 204 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLI 204 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCC
Confidence 355699998543 3444555555689999999987654
No 193
>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=59.61 E-value=0.63 Score=32.09 Aligned_cols=48 Identities=21% Similarity=0.342 Sum_probs=21.2
Q ss_pred CCccccccccccccCCCcEEecC---CCCCcccHHhHHHHHhcCCCCcccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFP---VCYRIFHSVCIDQWLKEHLTCPVCRIS 97 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp---~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 97 (104)
.....||||=..-..+ ++.-. +=.|.+|.-|-..|--....||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s--~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS--VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEE--EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceE--EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 3457899996553221 11111 124678888999998778889999543
No 194
>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=58.60 E-value=4.5 Score=17.51 Aligned_cols=9 Identities=44% Similarity=1.058 Sum_probs=6.5
Q ss_pred CCccccccc
Q 045579 90 TCPVCRISC 98 (104)
Q Consensus 90 ~CP~CR~~~ 98 (104)
.||+|-+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588887665
No 195
>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=58.46 E-value=6.2 Score=17.53 Aligned_cols=29 Identities=17% Similarity=0.377 Sum_probs=17.0
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhH
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCI 81 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci 81 (104)
.|.||...+.... ...-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 4788866654432 3332337777887763
No 196
>PRK11827 hypothetical protein; Provisional
Probab=56.81 E-value=3.5 Score=21.86 Aligned_cols=17 Identities=35% Similarity=0.645 Sum_probs=11.8
Q ss_pred HHHhcCCCCcccccccc
Q 045579 83 QWLKEHLTCPVCRISCI 99 (104)
Q Consensus 83 ~wl~~~~~CP~CR~~~~ 99 (104)
+||..--.||+|+.++.
T Consensus 3 ~~LLeILaCP~ckg~L~ 19 (60)
T PRK11827 3 HRLLEIIACPVCNGKLW 19 (60)
T ss_pred hHHHhheECCCCCCcCe
Confidence 45555567888888774
No 197
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=56.77 E-value=8.2 Score=16.53 Aligned_cols=9 Identities=33% Similarity=0.829 Sum_probs=4.4
Q ss_pred CCCcccccc
Q 045579 89 LTCPVCRIS 97 (104)
Q Consensus 89 ~~CP~CR~~ 97 (104)
..||.|-++
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 346655443
No 198
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.68 E-value=2.1 Score=26.53 Aligned_cols=42 Identities=26% Similarity=0.535 Sum_probs=24.3
Q ss_pred CCcccccccccc-ccCCCcEEecCCCCCc-------ccHHhHHHHHhc-CC---CCcccccc
Q 045579 48 PSSNYCVICLEN-FVDGESCRLFPVCYRI-------FHSVCIDQWLKE-HL---TCPVCRIS 97 (104)
Q Consensus 48 ~~~~~C~ICl~~-~~~~~~~~~lp~C~H~-------fh~~Ci~~wl~~-~~---~CP~CR~~ 97 (104)
..+.+|.||+-. |.+ +|||. ||..|--+--.+ +. .|-+|+..
T Consensus 63 ~ddatC~IC~KTKFAD--------G~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD--------GCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred CcCcchhhhhhccccc--------ccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 578899999863 333 37774 555554443212 21 47777754
No 199
>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=56.52 E-value=3.7 Score=21.09 Aligned_cols=9 Identities=44% Similarity=1.195 Sum_probs=2.7
Q ss_pred CCccccccc
Q 045579 90 TCPVCRISC 98 (104)
Q Consensus 90 ~CP~CR~~~ 98 (104)
+||+|...+
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 355554443
No 200
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=56.16 E-value=17 Score=21.16 Aligned_cols=36 Identities=14% Similarity=0.360 Sum_probs=28.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHHh
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK 86 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 86 (104)
....|.||-..+..++.....+ .-..|.+|+..-..
T Consensus 5 kewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 3568999999999988777665 55689999987654
No 201
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=55.55 E-value=4.6 Score=32.09 Aligned_cols=47 Identities=15% Similarity=0.316 Sum_probs=30.8
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHHHH------hcCCCCcccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL------KEHLTCPVCRIS 97 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl------~~~~~CP~CR~~ 97 (104)
....|-.|.....+ ..-+.+.|++.||..|+..|. .....|++|+..
T Consensus 228 ~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~ 280 (889)
T KOG1356|consen 228 IREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLK 280 (889)
T ss_pred cchhhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHh
Confidence 45678888765432 133445699999999999994 122347777643
No 202
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=55.46 E-value=9.5 Score=19.99 Aligned_cols=24 Identities=13% Similarity=0.292 Sum_probs=14.9
Q ss_pred cccccccccCCCcEEecCCCCCcccHH
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHSV 79 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~~ 79 (104)
|..|... .+...+-|. ||+++|..
T Consensus 1 C~~C~~~--~~~lw~CL~-Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLT-CGYVGCGR 24 (63)
T ss_dssp -SSSHTC--SSSEEEETT-TS-EEETT
T ss_pred CCCCCCc--CCceEEeCC-CCcccccC
Confidence 5566643 345666776 99999885
No 203
>PLN02400 cellulose synthase
Probab=54.94 E-value=9.9 Score=31.24 Aligned_cols=51 Identities=18% Similarity=0.347 Sum_probs=35.0
Q ss_pred CccccccccccccC---CCcEEecCCCCCcccHHhHHHHH-hcCCCCcccccccc
Q 045579 49 SSNYCVICLENFVD---GESCRLFPVCYRIFHSVCIDQWL-KEHLTCPVCRISCI 99 (104)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~lp~C~H~fh~~Ci~~wl-~~~~~CP~CR~~~~ 99 (104)
....|-||=+++.. ++..+....|+--.|+.|.+-=- ..+..||.|++.+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 45689999998753 34433333377779999995322 34567999999875
No 204
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=54.46 E-value=8.1 Score=20.60 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=7.2
Q ss_pred CCCcccccccc
Q 045579 89 LTCPVCRISCI 99 (104)
Q Consensus 89 ~~CP~CR~~~~ 99 (104)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 45777777653
No 205
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=53.37 E-value=6.9 Score=30.76 Aligned_cols=34 Identities=32% Similarity=0.691 Sum_probs=23.3
Q ss_pred ecCCCCCcccHHhHHHHHhcCCCCccccccccCC
Q 045579 68 LFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDI 101 (104)
Q Consensus 68 ~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~ 101 (104)
..|.|.-+||.+=.+--..++..||.||.+..+.
T Consensus 1046 ~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~dd~ 1079 (1081)
T KOG1538|consen 1046 MCPSCFQMFHSEDFELLVLQKGHCPFCRTSKDDP 1079 (1081)
T ss_pred hCchHHhhhccchhhHHHHhcCCCCcccccccCC
Confidence 3444666677665555556788999999987644
No 206
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.18 E-value=11 Score=26.21 Aligned_cols=9 Identities=22% Similarity=0.840 Sum_probs=6.2
Q ss_pred CCCcccccc
Q 045579 89 LTCPVCRIS 97 (104)
Q Consensus 89 ~~CP~CR~~ 97 (104)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 468888764
No 207
>PRK01343 zinc-binding protein; Provisional
Probab=50.92 E-value=8.6 Score=20.15 Aligned_cols=12 Identities=25% Similarity=0.642 Sum_probs=8.1
Q ss_pred CCCCcccccccc
Q 045579 88 HLTCPVCRISCI 99 (104)
Q Consensus 88 ~~~CP~CR~~~~ 99 (104)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 345888887754
No 208
>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=50.62 E-value=16 Score=18.05 Aligned_cols=34 Identities=21% Similarity=0.518 Sum_probs=23.1
Q ss_pred Cccccccccccc--cCCCcEEecCCCCCcccHHhHHH
Q 045579 49 SSNYCVICLENF--VDGESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 49 ~~~~C~ICl~~~--~~~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
....|.+|-+.+ .....+.-.- |+-.+|..|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 456799998887 3344455554 999999999875
No 209
>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=49.99 E-value=12 Score=25.20 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=16.5
Q ss_pred ccHHhHHHHHhcCCCCccccccc
Q 045579 76 FHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 76 fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
-|.+|-..--++...||+|++.=
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~Ks 218 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKS 218 (230)
T ss_pred hhHhHHHHHhcCCCCCccccccc
Confidence 45666666546777899998764
No 210
>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=49.15 E-value=13 Score=19.81 Aligned_cols=7 Identities=43% Similarity=0.966 Sum_probs=3.4
Q ss_pred CCCCCcc
Q 045579 70 PVCYRIF 76 (104)
Q Consensus 70 p~C~H~f 76 (104)
|.|||.|
T Consensus 57 p~c~r~Y 63 (68)
T PF03966_consen 57 PECGREY 63 (68)
T ss_dssp TTTTEEE
T ss_pred CCCCCEE
Confidence 3455544
No 211
>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=49.12 E-value=5.7 Score=28.95 Aligned_cols=54 Identities=19% Similarity=0.401 Sum_probs=0.0
Q ss_pred Ccccccccccccc-------------CCC---cEEecCCCCCcccHHhHHHHHhc---------CCCCccccccccCCCC
Q 045579 49 SSNYCVICLENFV-------------DGE---SCRLFPVCYRIFHSVCIDQWLKE---------HLTCPVCRISCIDIEN 103 (104)
Q Consensus 49 ~~~~C~ICl~~~~-------------~~~---~~~~lp~C~H~fh~~Ci~~wl~~---------~~~CP~CR~~~~~~~~ 103 (104)
....|++|+..-. ... .....| |||+-=.....-|.+. +..||.|-..|....+
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g 405 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQG 405 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCC
Confidence 3778999986411 000 112346 9999988999999732 2469999888765433
No 212
>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=48.79 E-value=22 Score=19.74 Aligned_cols=24 Identities=25% Similarity=0.778 Sum_probs=19.3
Q ss_pred ccCCCcEEecCCCCCcccHHhHHHH
Q 045579 60 FVDGESCRLFPVCYRIFHSVCIDQW 84 (104)
Q Consensus 60 ~~~~~~~~~lp~C~H~fh~~Ci~~w 84 (104)
+..++.+.+.|.|.|.| ..|..++
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 45677888899999988 7887774
No 213
>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=48.60 E-value=19 Score=16.61 Aligned_cols=10 Identities=30% Similarity=0.680 Sum_probs=4.9
Q ss_pred cccccccccc
Q 045579 52 YCVICLENFV 61 (104)
Q Consensus 52 ~C~ICl~~~~ 61 (104)
.|+-|-..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4555555443
No 214
>PLN02248 cellulose synthase-like protein
Probab=47.71 E-value=17 Score=30.15 Aligned_cols=28 Identities=21% Similarity=0.323 Sum_probs=25.4
Q ss_pred CCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
|++..|.+|..--++....||-|+.++.
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYK 177 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCccccc
Confidence 7889999999999988889999998874
No 215
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=47.71 E-value=14 Score=29.50 Aligned_cols=46 Identities=26% Similarity=0.434 Sum_probs=27.8
Q ss_pred CccccccccccccC----CC-----cEEecCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 49 SSNYCVICLENFVD----GE-----SCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 49 ~~~~C~ICl~~~~~----~~-----~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
.+..|+-|...|-. +. ..-..|.|.|.-|..=|.+ .+.||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 34566666666531 11 1223456999888766553 56899997654
No 216
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=47.53 E-value=11 Score=23.08 Aligned_cols=22 Identities=32% Similarity=0.702 Sum_probs=15.4
Q ss_pred CCCcccHHhHHHHHhcCCCCccccccccCCC
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRISCIDIE 102 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~ 102 (104)
|++-|| .+..||.|+.-+..++
T Consensus 103 C~~~Y~---------GeK~C~~C~tGiYS~e 124 (128)
T PF11682_consen 103 CGNHYH---------GEKYCPKCGTGIYSIE 124 (128)
T ss_pred CCCccC---------cCEecCCCCCccccee
Confidence 666665 3456999988887654
No 217
>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=47.29 E-value=1.5 Score=22.64 Aligned_cols=34 Identities=21% Similarity=0.485 Sum_probs=17.9
Q ss_pred ccccc--ccccccCCCc--E--EecCCCCCcccHHhHHHH
Q 045579 51 NYCVI--CLENFVDGES--C--RLFPVCYRIFHSVCIDQW 84 (104)
Q Consensus 51 ~~C~I--Cl~~~~~~~~--~--~~lp~C~H~fh~~Ci~~w 84 (104)
..|+- |-..+..... . +.-+.|++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36766 7665543331 1 334448999999888777
No 218
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=46.79 E-value=7.3 Score=29.56 Aligned_cols=53 Identities=17% Similarity=0.131 Sum_probs=44.4
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.....|.+|+..+........+..+.|.+...++..|-.....|+.+++.+..
T Consensus 258 ~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~ 310 (553)
T KOG4430|consen 258 ENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRT 310 (553)
T ss_pred hcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccc
Confidence 44668999999887777777777688999999999998888899999988753
No 219
>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=45.92 E-value=4 Score=20.43 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=12.6
Q ss_pred CCCCcccHHhHHHHHhcCCCCccccc
Q 045579 71 VCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 71 ~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.|||.|-..--.. -.....||.|..
T Consensus 10 ~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 10 ACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 3888774220000 012336999986
No 220
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=45.65 E-value=14 Score=25.01 Aligned_cols=24 Identities=21% Similarity=0.513 Sum_probs=17.2
Q ss_pred ccHHhHHHHHhcCCCCcccccccc
Q 045579 76 FHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 76 fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.|.+|-..--++...||+|+..-.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccc
Confidence 456666665567788999987654
No 221
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=44.87 E-value=15 Score=22.57 Aligned_cols=25 Identities=20% Similarity=0.402 Sum_probs=13.3
Q ss_pred ccccccccccccCCCcEEecCCCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYR 74 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H 74 (104)
+..|+.|-.++...+.-+..|.|+|
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 5568887665443333334444554
No 222
>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=44.86 E-value=20 Score=17.06 Aligned_cols=33 Identities=18% Similarity=0.408 Sum_probs=23.0
Q ss_pred ccccccccccccCCC-cEEecCCCCCcccHHhHHH
Q 045579 50 SNYCVICLENFVDGE-SCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~ 83 (104)
...|.+|.+.+.... .+... .|+=..|..|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~-~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCS-WCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCC-CCCchHHHHHHhh
Confidence 457999988876432 33333 3888899999876
No 223
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=44.55 E-value=13 Score=22.87 Aligned_cols=23 Identities=17% Similarity=0.244 Sum_probs=14.2
Q ss_pred ccccccccccCCCcEEecCCCCCcccH
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHS 78 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~ 78 (104)
.=-||.+. ...++... |||.|+.
T Consensus 59 hlfi~qs~---~~rv~rce-cghsf~d 81 (165)
T COG4647 59 HLFICQSA---QKRVIRCE-CGHSFGD 81 (165)
T ss_pred cEEEEecc---cccEEEEe-ccccccC
Confidence 34566544 22466666 9999984
No 224
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=44.34 E-value=4.4 Score=28.44 Aligned_cols=48 Identities=23% Similarity=0.364 Sum_probs=29.5
Q ss_pred CccccccccccccCCCcEEec---CCCCCcccHHhHHHHHhcCCCCcccccc
Q 045579 49 SSNYCVICLENFVDGESCRLF---PVCYRIFHSVCIDQWLKEHLTCPVCRIS 97 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l---p~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 97 (104)
....||||=..-..+. +... .+=.+.+|.-|-..|--....||.|-..
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 3458999966532111 1110 1123567777889998788889999653
No 225
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=43.71 E-value=11 Score=29.32 Aligned_cols=10 Identities=30% Similarity=0.840 Sum_probs=5.0
Q ss_pred CCcccccccc
Q 045579 90 TCPVCRISCI 99 (104)
Q Consensus 90 ~CP~CR~~~~ 99 (104)
.||.|-..+.
T Consensus 29 ~Cp~CG~~~~ 38 (645)
T PRK14559 29 PCPQCGTEVP 38 (645)
T ss_pred cCCCCCCCCC
Confidence 4555555444
No 226
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=42.99 E-value=19 Score=26.68 Aligned_cols=32 Identities=31% Similarity=0.426 Sum_probs=20.8
Q ss_pred ccccccccccC---CCcEEecCCCCCcccHHhHHHH
Q 045579 52 YCVICLENFVD---GESCRLFPVCYRIFHSVCIDQW 84 (104)
Q Consensus 52 ~C~ICl~~~~~---~~~~~~lp~C~H~fh~~Ci~~w 84 (104)
.|.||.. |.. +-..+....|||+-|.+|..+-
T Consensus 130 ~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 130 MCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRH 164 (446)
T ss_pred CccccCC-cccCCCCeeEEeccCCCceehhhhhccc
Confidence 5778854 432 2234444449999999998764
No 227
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=42.97 E-value=14 Score=23.80 Aligned_cols=30 Identities=20% Similarity=0.497 Sum_probs=19.8
Q ss_pred ccccc---ccccCCCcEEecCCCCCcccHHhHHH
Q 045579 53 CVICL---ENFVDGESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 53 C~ICl---~~~~~~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
|-.|. ++...+..|.... |.-.||..||-.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcCC
Confidence 56664 4445555555554 889999999865
No 228
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=42.43 E-value=8.8 Score=29.13 Aligned_cols=35 Identities=20% Similarity=0.319 Sum_probs=21.4
Q ss_pred CccccccccccccCCCcEEecCCCCCcccHHhHHH
Q 045579 49 SSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~ 83 (104)
....|..|...|..-..---...||-+||..|-..
T Consensus 900 ~a~~cmacq~pf~afrrrhhcrncggifcg~cs~a 934 (990)
T KOG1819|consen 900 DAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSCA 934 (990)
T ss_pred cchhhhhccCcHHHHHHhhhhcccCceeecccccC
Confidence 45568888777753221111224999999888643
No 229
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=42.24 E-value=13 Score=25.39 Aligned_cols=41 Identities=27% Similarity=0.283 Sum_probs=29.1
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCC--CCcc
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHL--TCPV 93 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~--~CP~ 93 (104)
+..|+|=+.++..+ + +..+|.|.|-.+=|...|...- .||.
T Consensus 189 ~nrCpitl~p~~~p--i-ls~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--I-LSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--H-HHhhhcccccHHHHHHHhcCCceeecch
Confidence 55799977765442 3 2334999999999999987544 4763
No 230
>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=41.69 E-value=13 Score=27.77 Aligned_cols=16 Identities=38% Similarity=0.652 Sum_probs=10.6
Q ss_pred CccccccccccccCCC
Q 045579 49 SSNYCVICLENFVDGE 64 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~ 64 (104)
....|+-||+++...+
T Consensus 25 ~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE 40 (483)
T ss_pred ceeECccccccCChhh
Confidence 4567888887775544
No 231
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=41.35 E-value=11 Score=19.91 Aligned_cols=11 Identities=45% Similarity=1.174 Sum_probs=8.4
Q ss_pred CCCcccccccc
Q 045579 89 LTCPVCRISCI 99 (104)
Q Consensus 89 ~~CP~CR~~~~ 99 (104)
-.||+||.++.
T Consensus 9 LaCP~~kg~L~ 19 (60)
T COG2835 9 LACPVCKGPLV 19 (60)
T ss_pred eeccCcCCcce
Confidence 35999998864
No 232
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.29 E-value=16 Score=22.46 Aligned_cols=23 Identities=30% Similarity=0.664 Sum_probs=16.8
Q ss_pred cccHHhHHHHHhcCCCCccccccccC
Q 045579 75 IFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 75 ~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.||..|-..-+. .||+|..+|..
T Consensus 29 afcskcgeati~---qcp~csasirg 51 (160)
T COG4306 29 AFCSKCGEATIT---QCPICSASIRG 51 (160)
T ss_pred HHHhhhchHHHh---cCCccCCcccc
Confidence 488888776443 49999988764
No 233
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=41.07 E-value=16 Score=19.29 Aligned_cols=16 Identities=31% Similarity=0.463 Sum_probs=11.2
Q ss_pred CCCCccccccccCCCC
Q 045579 88 HLTCPVCRISCIDIEN 103 (104)
Q Consensus 88 ~~~CP~CR~~~~~~~~ 103 (104)
+..||+|-+.++..+.
T Consensus 8 H~HC~VCg~aIp~de~ 23 (64)
T COG4068 8 HRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CccccccCCcCCCccc
Confidence 3458888888876654
No 234
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=41.03 E-value=20 Score=17.25 Aligned_cols=33 Identities=21% Similarity=0.480 Sum_probs=22.7
Q ss_pred ccccccccccccCC--CcEEecCCCCCcccHHhHHH
Q 045579 50 SNYCVICLENFVDG--ESCRLFPVCYRIFHSVCIDQ 83 (104)
Q Consensus 50 ~~~C~ICl~~~~~~--~~~~~lp~C~H~fh~~Ci~~ 83 (104)
...|.+|...+... ...... .|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~-~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCS-WCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcC-CCCCchhhhhhcc
Confidence 45699998887642 333333 3888899999865
No 235
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=40.90 E-value=13 Score=21.50 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=17.1
Q ss_pred CCCcccHHhHHHHHhcCCCCccccccccCCC
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRISCIDIE 102 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~ 102 (104)
||-.|-.+= ++.-+.||.|+..-++.-
T Consensus 64 CGfef~~~~----ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 64 CGFEFRDDK----IKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cCccccccc----cCCcccCCcchhhcccCC
Confidence 676665421 234567999998876543
No 236
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=40.68 E-value=14 Score=22.82 Aligned_cols=22 Identities=23% Similarity=0.612 Sum_probs=15.7
Q ss_pred cCCCCCcccHHhHHHHHhcCCCCccccccc
Q 045579 69 FPVCYRIFHSVCIDQWLKEHLTCPVCRISC 98 (104)
Q Consensus 69 lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~ 98 (104)
.++|||+|+- -+..||.|..+.
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 3459998863 455699998873
No 237
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=40.01 E-value=17 Score=28.31 Aligned_cols=26 Identities=31% Similarity=1.053 Sum_probs=20.4
Q ss_pred CCCcccHHhHHHHHhc-----CCCCcccccc
Q 045579 72 CYRIFHSVCIDQWLKE-----HLTCPVCRIS 97 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~-----~~~CP~CR~~ 97 (104)
|+-.||..|+..|+.. .-.||-||.-
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 8999999999999842 2358888754
No 238
>PF14353 CpXC: CpXC protein
Probab=39.86 E-value=21 Score=21.40 Aligned_cols=9 Identities=44% Similarity=1.043 Sum_probs=5.7
Q ss_pred CCccccccc
Q 045579 90 TCPVCRISC 98 (104)
Q Consensus 90 ~CP~CR~~~ 98 (104)
+||.|...+
T Consensus 40 ~CP~Cg~~~ 48 (128)
T PF14353_consen 40 TCPSCGHKF 48 (128)
T ss_pred ECCCCCCce
Confidence 577776654
No 239
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.61 E-value=14 Score=26.07 Aligned_cols=46 Identities=15% Similarity=0.429 Sum_probs=29.8
Q ss_pred CccccccccccccCCCcEEec---CCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 49 SSNYCVICLENFVDGESCRLF---PVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l---p~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
....||||=..-... ++.+ .+=.+.+|.-|-..|--....||.|-.
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 467899996552211 1111 112356777889999888888999965
No 240
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=39.38 E-value=6.1 Score=22.55 Aligned_cols=42 Identities=21% Similarity=0.536 Sum_probs=30.4
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCccccccccCCCCC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCIDIENY 104 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~~~~~~ 104 (104)
...|-||...+.. | =.| ||..|..+ +..|-+|-+.+.+..+|
T Consensus 54 ~~kC~iCk~~vHQ-------~-Gsh-YC~tCAY~----KgiCAMCGKki~nTK~y 95 (100)
T KOG3476|consen 54 LAKCRICKQLVHQ-------P-GSH-YCQTCAYK----KGICAMCGKKILNTKNY 95 (100)
T ss_pred cchhHHHHHHhcC-------C-cch-hHhHhhhh----hhHHHHhhhHhhccccc
Confidence 4679999766433 2 334 88888875 56799999988877665
No 241
>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=39.18 E-value=8.1 Score=17.46 Aligned_cols=24 Identities=17% Similarity=0.401 Sum_probs=7.9
Q ss_pred ccccccccccC-CCcEEecCCCCCc
Q 045579 52 YCVICLENFVD-GESCRLFPVCYRI 75 (104)
Q Consensus 52 ~C~ICl~~~~~-~~~~~~lp~C~H~ 75 (104)
.|+.|-.++.- ...+.+-|.|+|-
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 47777766532 1223334446664
No 242
>PF15353 HECA: Headcase protein family homologue
Probab=38.98 E-value=22 Score=21.03 Aligned_cols=14 Identities=21% Similarity=0.705 Sum_probs=12.4
Q ss_pred CCCcccHHhHHHHH
Q 045579 72 CYRIFHSVCIDQWL 85 (104)
Q Consensus 72 C~H~fh~~Ci~~wl 85 (104)
.++..|.+|...|-
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 48899999999994
No 243
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=38.33 E-value=14 Score=24.40 Aligned_cols=22 Identities=27% Similarity=0.629 Sum_probs=14.2
Q ss_pred HHhHHHHHh-cCCCCcccccccc
Q 045579 78 SVCIDQWLK-EHLTCPVCRISCI 99 (104)
Q Consensus 78 ~~Ci~~wl~-~~~~CP~CR~~~~ 99 (104)
..||.+--. ..+-||+||-...
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 457776422 3456999997754
No 244
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=38.14 E-value=19 Score=25.03 Aligned_cols=26 Identities=31% Similarity=0.810 Sum_probs=18.2
Q ss_pred CCCcccHHhHHHHHhc----------CCCCccccccccCC
Q 045579 72 CYRIFHSVCIDQWLKE----------HLTCPVCRISCIDI 101 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~----------~~~CP~CR~~~~~~ 101 (104)
||-.|. ..||.+ -..||.|.+.+.+-
T Consensus 193 CGKaFS----RPWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 193 CGKAFS----RPWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred cccccc----chHHhhcccccccCCCCccCCcccchhcch
Confidence 666776 689832 23699999887653
No 245
>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=38.05 E-value=3.3 Score=16.49 Aligned_cols=8 Identities=50% Similarity=1.331 Sum_probs=2.7
Q ss_pred Cccccccc
Q 045579 91 CPVCRISC 98 (104)
Q Consensus 91 CP~CR~~~ 98 (104)
||+|...+
T Consensus 3 C~~C~~~~ 10 (24)
T PF13894_consen 3 CPICGKSF 10 (24)
T ss_dssp -SSTS-EE
T ss_pred CcCCCCcC
Confidence 44444433
No 246
>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=37.21 E-value=20 Score=21.28 Aligned_cols=25 Identities=16% Similarity=0.392 Sum_probs=13.9
Q ss_pred cccccccccccCCC-cEEecCCCCCc
Q 045579 51 NYCVICLENFVDGE-SCRLFPVCYRI 75 (104)
Q Consensus 51 ~~C~ICl~~~~~~~-~~~~lp~C~H~ 75 (104)
..||-|..+|.-.+ ...+.|-|+|-
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccc
Confidence 35888988764322 23344446653
No 247
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=37.03 E-value=12 Score=17.85 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=6.2
Q ss_pred Ccccccccc
Q 045579 91 CPVCRISCI 99 (104)
Q Consensus 91 CP~CR~~~~ 99 (104)
||.|+..+.
T Consensus 2 CP~C~~~l~ 10 (41)
T PF13453_consen 2 CPRCGTELE 10 (41)
T ss_pred cCCCCcccc
Confidence 777777554
No 248
>COG5319 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.00 E-value=11 Score=23.14 Aligned_cols=21 Identities=38% Similarity=1.050 Sum_probs=14.1
Q ss_pred C--CCcccHHhHHHHHhcC-----------CCCcccccc
Q 045579 72 C--YRIFHSVCIDQWLKEH-----------LTCPVCRIS 97 (104)
Q Consensus 72 C--~H~fh~~Ci~~wl~~~-----------~~CP~CR~~ 97 (104)
| ||-| +-||..+ .+||+|-..
T Consensus 8 Cd~~HeF-----EGWF~ssaDfd~Q~~rgLv~CPvCgs~ 41 (142)
T COG5319 8 CDKGHEF-----EGWFGSSADFDRQRERGLVTCPVCGST 41 (142)
T ss_pred ccCCCcc-----cccccCchhHHHHHHcCceeCCCCCcH
Confidence 7 6766 6788322 369999754
No 249
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=36.89 E-value=5.3 Score=27.74 Aligned_cols=50 Identities=20% Similarity=0.497 Sum_probs=33.0
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHHHHHh----cCCCCccccccccC
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK----EHLTCPVCRISCID 100 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~----~~~~CP~CR~~~~~ 100 (104)
-..|+||-.. ++.+.+.....|.--||..|+.+=+. .+-+|-+|-..+.+
T Consensus 281 ck~csicgts-enddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~e 334 (336)
T KOG1244|consen 281 CKYCSICGTS-ENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELKE 334 (336)
T ss_pred cceeccccCc-CCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHhh
Confidence 4468888544 34455555555888899999988662 34468888665543
No 250
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=36.87 E-value=31 Score=23.59 Aligned_cols=32 Identities=16% Similarity=0.111 Sum_probs=21.0
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCID 82 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~ 82 (104)
.....|++|-. ........|.||+.+|++=..
T Consensus 307 ~tS~~C~~cg~---~~~r~~~C~~cg~~~~rD~na 338 (364)
T COG0675 307 YTSKTCPCCGH---LSGRLFKCPRCGFVHDRDVNA 338 (364)
T ss_pred CCcccccccCC---ccceeEECCCCCCeehhhHHH
Confidence 34578999977 223344555699999987443
No 251
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=36.72 E-value=2.7 Score=17.06 Aligned_cols=8 Identities=50% Similarity=1.331 Sum_probs=3.8
Q ss_pred Cccccccc
Q 045579 91 CPVCRISC 98 (104)
Q Consensus 91 CP~CR~~~ 98 (104)
||.|.+.+
T Consensus 3 C~~C~~~f 10 (23)
T PF00096_consen 3 CPICGKSF 10 (23)
T ss_dssp ETTTTEEE
T ss_pred CCCCCCcc
Confidence 45554444
No 252
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=36.09 E-value=13 Score=31.56 Aligned_cols=51 Identities=24% Similarity=0.482 Sum_probs=37.0
Q ss_pred CCCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcC----CCCccccccc
Q 045579 47 TPSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEH----LTCPVCRISC 98 (104)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~----~~CP~CR~~~ 98 (104)
+.....|.||.........+...- |.-.||..|+..-+... =.||-||..-
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 345678999998876655554444 78889999999977432 3699998754
No 253
>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=35.79 E-value=26 Score=16.98 Aligned_cols=18 Identities=22% Similarity=0.597 Sum_probs=10.9
Q ss_pred HHHhcCCCCccccccccC
Q 045579 83 QWLKEHLTCPVCRISCID 100 (104)
Q Consensus 83 ~wl~~~~~CP~CR~~~~~ 100 (104)
-|-.-..+||.|..++..
T Consensus 12 G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 12 GWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred hHhHhcCccCCCCCeeEE
Confidence 344455678888666654
No 254
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=35.21 E-value=53 Score=23.49 Aligned_cols=49 Identities=22% Similarity=0.392 Sum_probs=31.4
Q ss_pred CCccccccccccccCCC----------cEEecCCCCCcccHHhHHHHHhcCCCCccccc
Q 045579 48 PSSNYCVICLENFVDGE----------SCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~----------~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
.....|-.|+..|-... .-...+-|.-.||.+|-.---..-..||.|-.
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 45667999999775321 12223348888999997654344456888843
No 255
>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=35.17 E-value=27 Score=20.70 Aligned_cols=31 Identities=23% Similarity=0.419 Sum_probs=18.5
Q ss_pred CccccccccccccC-CCcEEecCCCCCcccHH
Q 045579 49 SSNYCVICLENFVD-GESCRLFPVCYRIFHSV 79 (104)
Q Consensus 49 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~ 79 (104)
....|+-|-..|.. +...++.|+||..|...
T Consensus 8 tKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 34567777666642 22445566777777655
No 256
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=34.98 E-value=17 Score=25.50 Aligned_cols=32 Identities=28% Similarity=0.569 Sum_probs=23.0
Q ss_pred ccccccccccccCCCcEEecCCCCCcccHHhHH
Q 045579 50 SNYCVICLENFVDGESCRLFPVCYRIFHSVCID 82 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~ 82 (104)
-..|.||+.+-.+.+.+..-- |.--||.-|+.
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 457999998877776665443 87777777774
No 257
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=34.75 E-value=32 Score=28.47 Aligned_cols=35 Identities=20% Similarity=0.446 Sum_probs=25.5
Q ss_pred CCccccccccccccCC-CcEEecCCCCCcccHHhHH
Q 045579 48 PSSNYCVICLENFVDG-ESCRLFPVCYRIFHSVCID 82 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~ 82 (104)
+.+..|.||++.=... ..++....|+=..|.+|..
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 6788999999865442 3344444588899999987
No 258
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=34.53 E-value=32 Score=20.09 Aligned_cols=27 Identities=15% Similarity=0.283 Sum_probs=15.9
Q ss_pred CCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
||+--|.--+.++ ....+||.|+.++.
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFN 91 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFN 91 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCC
Confidence 5554443334443 33556999998875
No 259
>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=34.25 E-value=26 Score=16.06 Aligned_cols=9 Identities=33% Similarity=1.095 Sum_probs=5.9
Q ss_pred CCCcccccc
Q 045579 89 LTCPVCRIS 97 (104)
Q Consensus 89 ~~CP~CR~~ 97 (104)
..||+|.++
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 368888654
No 260
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=34.09 E-value=35 Score=16.92 Aligned_cols=30 Identities=17% Similarity=0.400 Sum_probs=20.7
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHHh
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLK 86 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~ 86 (104)
.|.||-..-.. .+.+ .|..+|.+|-..-..
T Consensus 1 ~CiiC~~~~~~--GI~I---~~~fIC~~CE~~iv~ 30 (46)
T PF10764_consen 1 KCIICGKEKEE--GIHI---YGKFICSDCEKEIVN 30 (46)
T ss_pred CeEeCCCcCCC--CEEE---ECeEehHHHHHHhcc
Confidence 48888776444 3444 778899999877543
No 261
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=33.96 E-value=19 Score=15.28 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=6.7
Q ss_pred CCcccccccc
Q 045579 90 TCPVCRISCI 99 (104)
Q Consensus 90 ~CP~CR~~~~ 99 (104)
.||+|.+.+.
T Consensus 4 ~C~~CgR~F~ 13 (25)
T PF13913_consen 4 PCPICGRKFN 13 (25)
T ss_pred cCCCCCCEEC
Confidence 4777777663
No 262
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=33.20 E-value=17 Score=25.02 Aligned_cols=28 Identities=29% Similarity=0.628 Sum_probs=19.4
Q ss_pred CC-CcccHHhHHHHHh--cCCCCcccccccc
Q 045579 72 CY-RIFHSVCIDQWLK--EHLTCPVCRISCI 99 (104)
Q Consensus 72 C~-H~fh~~Ci~~wl~--~~~~CP~CR~~~~ 99 (104)
|. -.||..|+---.. .+=.||-|+....
T Consensus 240 C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 240 CPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred CCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 77 7999999964321 2225999987653
No 263
>PRK00420 hypothetical protein; Validated
Probab=32.53 E-value=39 Score=20.20 Aligned_cols=11 Identities=27% Similarity=0.576 Sum_probs=7.6
Q ss_pred ccccccccccc
Q 045579 50 SNYCVICLENF 60 (104)
Q Consensus 50 ~~~C~ICl~~~ 60 (104)
...||+|-.++
T Consensus 23 ~~~CP~Cg~pL 33 (112)
T PRK00420 23 SKHCPVCGLPL 33 (112)
T ss_pred cCCCCCCCCcc
Confidence 46788886654
No 264
>PF14369 zf-RING_3: zinc-finger
Probab=32.36 E-value=19 Score=16.71 Aligned_cols=9 Identities=33% Similarity=1.014 Sum_probs=4.3
Q ss_pred Ccccccccc
Q 045579 91 CPVCRISCI 99 (104)
Q Consensus 91 CP~CR~~~~ 99 (104)
||.|...++
T Consensus 24 CP~C~~gFv 32 (35)
T PF14369_consen 24 CPRCHGGFV 32 (35)
T ss_pred CcCCCCcEe
Confidence 555554443
No 265
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=32.22 E-value=14 Score=21.93 Aligned_cols=28 Identities=14% Similarity=0.504 Sum_probs=17.3
Q ss_pred cccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 51 NYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
..|+.|-.+|.-.+.. +.+|.+|..+|-
T Consensus 4 p~cp~c~sEytYed~~-------~~~cpec~~ew~ 31 (112)
T COG2824 4 PPCPKCNSEYTYEDGG-------QLICPECAHEWN 31 (112)
T ss_pred CCCCccCCceEEecCc-------eEeCchhccccc
Confidence 4699998887543322 345556666774
No 266
>PRK10220 hypothetical protein; Provisional
Probab=31.56 E-value=39 Score=20.15 Aligned_cols=25 Identities=16% Similarity=0.413 Sum_probs=14.1
Q ss_pred cccccccccccCCC-cEEecCCCCCc
Q 045579 51 NYCVICLENFVDGE-SCRLFPVCYRI 75 (104)
Q Consensus 51 ~~C~ICl~~~~~~~-~~~~lp~C~H~ 75 (104)
..||-|-.+|.-.+ ...+.|-|+|-
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hE 29 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHE 29 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCc
Confidence 46888888764322 23344446663
No 267
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=31.46 E-value=31 Score=27.96 Aligned_cols=35 Identities=20% Similarity=0.369 Sum_probs=24.0
Q ss_pred cccccccccccCCCc---EEe--cCCCCCcccHHhHHHHH
Q 045579 51 NYCVICLENFVDGES---CRL--FPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 51 ~~C~ICl~~~~~~~~---~~~--lp~C~H~fh~~Ci~~wl 85 (104)
..|..|-..|..-.+ .+. ...||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 569999999853211 111 22499999999997764
No 268
>PF15616 TerY-C: TerY-C metal binding domain
Probab=31.04 E-value=29 Score=21.34 Aligned_cols=42 Identities=19% Similarity=0.422 Sum_probs=28.2
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.+...||-|-..+ .+.+.. ||++||.+ . ....+||-|-....
T Consensus 75 ~g~PgCP~CGn~~----~fa~C~-CGkl~Ci~---g--~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 75 IGAPGCPHCGNQY----AFAVCG-CGKLFCID---G--EGEVTCPWCGNEGS 116 (131)
T ss_pred cCCCCCCCCcChh----cEEEec-CCCEEEeC---C--CCCEECCCCCCeee
Confidence 4567899996653 344444 99999743 2 24567999987653
No 269
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=31.04 E-value=34 Score=22.65 Aligned_cols=14 Identities=21% Similarity=0.543 Sum_probs=10.8
Q ss_pred CccccccccccccC
Q 045579 49 SSNYCVICLENFVD 62 (104)
Q Consensus 49 ~~~~C~ICl~~~~~ 62 (104)
....||+|-..|..
T Consensus 4 k~~~CPvC~~~F~~ 17 (214)
T PF09986_consen 4 KKITCPVCGKEFKT 17 (214)
T ss_pred CceECCCCCCeeee
Confidence 35689999988864
No 270
>PRK11595 DNA utilization protein GntX; Provisional
Probab=30.73 E-value=38 Score=22.49 Aligned_cols=8 Identities=25% Similarity=0.754 Sum_probs=4.3
Q ss_pred cccccccc
Q 045579 52 YCVICLEN 59 (104)
Q Consensus 52 ~C~ICl~~ 59 (104)
.|.+|-..
T Consensus 7 ~C~~C~~~ 14 (227)
T PRK11595 7 LCWLCRMP 14 (227)
T ss_pred cCccCCCc
Confidence 46666544
No 271
>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=30.50 E-value=23 Score=17.90 Aligned_cols=11 Identities=36% Similarity=1.060 Sum_probs=7.5
Q ss_pred cCCCCcccccc
Q 045579 87 EHLTCPVCRIS 97 (104)
Q Consensus 87 ~~~~CP~CR~~ 97 (104)
..-+||+|...
T Consensus 33 ~~w~CP~C~a~ 43 (50)
T cd00730 33 DDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCc
Confidence 34479999764
No 272
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=30.41 E-value=5.2 Score=23.25 Aligned_cols=50 Identities=20% Similarity=0.337 Sum_probs=14.4
Q ss_pred ccccccccccccCCC-cEEecCCCCCcccHHhHHHHHh----cCCCCccccccccCC
Q 045579 50 SNYCVICLENFVDGE-SCRLFPVCYRIFHSVCIDQWLK----EHLTCPVCRISCIDI 101 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~-~~~~lp~C~H~fh~~Ci~~wl~----~~~~CP~CR~~~~~~ 101 (104)
.+.|+||.+.+...+ .....+ =||+|- .|....|. .-..|++|...+...
T Consensus 14 ~E~C~~C~~~i~~~~~~~~~C~-~GH~w~-RC~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 14 FEKCPICGAPIPFDDLDEAQCE-NGHVWP-RCALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp ---------------SSEEE-T-TS-EEE-B-SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred cccccccccccccCCcCEeECC-CCCEEe-eeeeeeeeeccCCeeEcCCCCCEEecC
Confidence 378999998875443 333322 389864 55555552 125699998877643
No 273
>PF12907 zf-met2: Zinc-binding
Probab=30.30 E-value=12 Score=18.10 Aligned_cols=11 Identities=36% Similarity=0.920 Sum_probs=7.4
Q ss_pred ccccccccccc
Q 045579 51 NYCVICLENFV 61 (104)
Q Consensus 51 ~~C~ICl~~~~ 61 (104)
..|.||+..|.
T Consensus 2 i~C~iC~qtF~ 12 (40)
T PF12907_consen 2 IICKICRQTFM 12 (40)
T ss_pred cCcHHhhHHHH
Confidence 35888886664
No 274
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=28.19 E-value=61 Score=19.23 Aligned_cols=20 Identities=25% Similarity=0.358 Sum_probs=13.0
Q ss_pred ccccccCCCCHHHHHhhCCc
Q 045579 19 LEVGERQGLGDEALEQLMPC 38 (104)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~ 38 (104)
+..+.-.+..++.+...++.
T Consensus 31 l~iG~ls~V~p~~L~faf~~ 50 (115)
T TIGR00100 31 LEIGELSCVNPSQLQFAFEV 50 (115)
T ss_pred EEEccccccCHHHHHHHHHH
Confidence 44566677888887765443
No 275
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=26.99 E-value=18 Score=17.25 Aligned_cols=12 Identities=25% Similarity=0.686 Sum_probs=6.9
Q ss_pred CCcccccccccc
Q 045579 48 PSSNYCVICLEN 59 (104)
Q Consensus 48 ~~~~~C~ICl~~ 59 (104)
.+...|.||.+.
T Consensus 27 se~~~C~IC~d~ 38 (41)
T PF02132_consen 27 SEEDPCEICSDP 38 (41)
T ss_dssp ESSSS-HHHH-T
T ss_pred CCCCcCcCCCCC
Confidence 346689999765
No 276
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=26.57 E-value=44 Score=22.55 Aligned_cols=8 Identities=50% Similarity=1.248 Sum_probs=6.3
Q ss_pred CCcccccc
Q 045579 90 TCPVCRIS 97 (104)
Q Consensus 90 ~CP~CR~~ 97 (104)
.||.||+.
T Consensus 191 rCPHCrKv 198 (275)
T KOG4684|consen 191 RCPHCRKV 198 (275)
T ss_pred cCCcccch
Confidence 49999863
No 277
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.27 E-value=21 Score=18.03 Aligned_cols=14 Identities=21% Similarity=0.641 Sum_probs=10.6
Q ss_pred CCcccccccccccc
Q 045579 48 PSSNYCVICLENFV 61 (104)
Q Consensus 48 ~~~~~C~ICl~~~~ 61 (104)
.++..|++|..+|.
T Consensus 10 lp~KICpvCqRPFs 23 (54)
T COG4338 10 LPDKICPVCQRPFS 23 (54)
T ss_pred cchhhhhhhcCchH
Confidence 35778999987774
No 278
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=26.02 E-value=29 Score=23.62 Aligned_cols=11 Identities=36% Similarity=0.917 Sum_probs=7.2
Q ss_pred ccccccccccc
Q 045579 50 SNYCVICLENF 60 (104)
Q Consensus 50 ~~~C~ICl~~~ 60 (104)
+..|+|||..|
T Consensus 260 GfvCsVCLsvf 270 (296)
T COG5242 260 GFVCSVCLSVF 270 (296)
T ss_pred eeehhhhheee
Confidence 45677777665
No 279
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=25.85 E-value=37 Score=20.05 Aligned_cols=8 Identities=25% Similarity=0.650 Sum_probs=5.5
Q ss_pred CCCcccHH
Q 045579 72 CYRIFHSV 79 (104)
Q Consensus 72 C~H~fh~~ 79 (104)
|||+|-..
T Consensus 8 CG~vf~~g 15 (112)
T COG3364 8 CGEVFDDG 15 (112)
T ss_pred cccccccc
Confidence 78877653
No 280
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.11 E-value=36 Score=26.54 Aligned_cols=38 Identities=21% Similarity=0.333 Sum_probs=26.8
Q ss_pred CCccccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
.....|-+|...|..-..-.-.-.||-+||..|...-+
T Consensus 163 ~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~ 200 (634)
T KOG1818|consen 163 IDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSL 200 (634)
T ss_pred ccccccceeeeeeeeccccccccccchhhccCcccccc
Confidence 45688999999987543222222399999999988765
No 281
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=24.90 E-value=33 Score=17.13 Aligned_cols=8 Identities=50% Similarity=1.356 Sum_probs=5.0
Q ss_pred CCcccccc
Q 045579 90 TCPVCRIS 97 (104)
Q Consensus 90 ~CP~CR~~ 97 (104)
+||+|.+.
T Consensus 36 ~CP~C~a~ 43 (47)
T PF00301_consen 36 VCPVCGAP 43 (47)
T ss_dssp B-TTTSSB
T ss_pred cCcCCCCc
Confidence 68888654
No 282
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=24.78 E-value=29 Score=25.14 Aligned_cols=48 Identities=23% Similarity=0.612 Sum_probs=25.1
Q ss_pred CccccccccccccCCCcEEecC--CCCCccc--------HHhHHHHH-----hcCCCCcccccc
Q 045579 49 SSNYCVICLENFVDGESCRLFP--VCYRIFH--------SVCIDQWL-----KEHLTCPVCRIS 97 (104)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~lp--~C~H~fh--------~~Ci~~wl-----~~~~~CP~CR~~ 97 (104)
.++-||+|=+... |-....|. .|+-.|. ..|+..-- .....||.||..
T Consensus 14 l~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 14 LGELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 4778999977653 33333443 1444442 23333211 123469999864
No 283
>PF10170 C6_DPF: Cysteine-rich domain; InterPro: IPR018785 This entry represents the N-terminal approximately 100 amino acids of a family of proteins found in a range of organisms, including human, chicken and Drosophila [, , ]. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Probab=24.74 E-value=98 Score=18.07 Aligned_cols=33 Identities=24% Similarity=0.410 Sum_probs=21.4
Q ss_pred CCccccccccccccCCCcEEecCCC----CCcccHHhHHHHHh
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVC----YRIFHSVCIDQWLK 86 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C----~H~fh~~Ci~~wl~ 86 (104)
.-+..|+||-...= +-+.| +-.||..|+.++++
T Consensus 47 vLGa~CS~C~~~VC------~~~~CSlFYtkrFC~pC~~~~~~ 83 (97)
T PF10170_consen 47 VLGAPCSICGKPVC------VGQDCSLFYTKRFCLPCVKRNLK 83 (97)
T ss_pred EECccccccCCceE------cCCCccEEeeCceeHHHHHHHHH
Confidence 34567999865432 22235 34699999999874
No 284
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=24.32 E-value=36 Score=17.68 Aligned_cols=9 Identities=33% Similarity=1.018 Sum_probs=6.0
Q ss_pred CCccccccc
Q 045579 90 TCPVCRISC 98 (104)
Q Consensus 90 ~CP~CR~~~ 98 (104)
.||-|+++-
T Consensus 30 yCpKCK~Et 38 (55)
T PF14205_consen 30 YCPKCKQET 38 (55)
T ss_pred cCCCCCceE
Confidence 378887654
No 285
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=24.05 E-value=12 Score=15.84 Aligned_cols=11 Identities=18% Similarity=0.428 Sum_probs=6.0
Q ss_pred CCccccccccC
Q 045579 90 TCPVCRISCID 100 (104)
Q Consensus 90 ~CP~CR~~~~~ 100 (104)
.|++|...+.+
T Consensus 3 ~C~~C~k~f~~ 13 (27)
T PF12171_consen 3 YCDACDKYFSS 13 (27)
T ss_dssp BBTTTTBBBSS
T ss_pred CcccCCCCcCC
Confidence 46666555543
No 286
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=24.04 E-value=84 Score=18.59 Aligned_cols=20 Identities=20% Similarity=0.287 Sum_probs=12.4
Q ss_pred ccccccCCCCHHHHHhhCCc
Q 045579 19 LEVGERQGLGDEALEQLMPC 38 (104)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~ 38 (104)
+..+.-.+..++.+...+..
T Consensus 31 l~iG~ls~v~pe~L~f~f~~ 50 (113)
T PRK12380 31 LEIGALSCVEESAVRFSFEI 50 (113)
T ss_pred EEEcCccccCHHHHHHHHHH
Confidence 44556677777777765443
No 287
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=23.23 E-value=66 Score=21.92 Aligned_cols=21 Identities=19% Similarity=0.441 Sum_probs=14.5
Q ss_pred HhHHHHHhcCCCCcccccccc
Q 045579 79 VCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 79 ~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.=+..|...+..||.|-..+.
T Consensus 90 ~~l~~w~~~~~fC~~CG~~~~ 110 (256)
T PRK00241 90 VQLAEFYRSHRFCGYCGHPMH 110 (256)
T ss_pred HHHHHHhhcCccccccCCCCe
Confidence 345667777777888877654
No 288
>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=23.23 E-value=32 Score=22.25 Aligned_cols=12 Identities=25% Similarity=0.664 Sum_probs=9.6
Q ss_pred CCCCcccccccc
Q 045579 88 HLTCPVCRISCI 99 (104)
Q Consensus 88 ~~~CP~CR~~~~ 99 (104)
...||+|++.++
T Consensus 169 ~~~c~~~~~~~~ 180 (187)
T TIGR01367 169 SHECPLCLAGIP 180 (187)
T ss_pred cccCChhhcCCC
Confidence 446999999886
No 289
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=23.15 E-value=52 Score=17.40 Aligned_cols=21 Identities=33% Similarity=0.537 Sum_probs=15.3
Q ss_pred ccccccccCCCcEEecCCCCC
Q 045579 54 VICLENFVDGESCRLFPVCYR 74 (104)
Q Consensus 54 ~ICl~~~~~~~~~~~lp~C~H 74 (104)
-|=|+++..++.+...|.|+-
T Consensus 32 eIsLeDl~~GE~VArCPSCSL 52 (67)
T COG5216 32 EISLEDLRNGEVVARCPSCSL 52 (67)
T ss_pred EEEHHHhhCCceEEEcCCceE
Confidence 366778888888887776654
No 290
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.97 E-value=51 Score=25.96 Aligned_cols=42 Identities=21% Similarity=0.433 Sum_probs=26.3
Q ss_pred cccccccccccc-CCCcEEecCCCCCcccHHhHHHHHhcCCCCcccc
Q 045579 50 SNYCVICLENFV-DGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCR 95 (104)
Q Consensus 50 ~~~C~ICl~~~~-~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR 95 (104)
...|.+|...=. ..+..+.+. |+-.||.+|... -.+.||+|-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~-C~~~~C~~c~~~---~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTF-CYTPYCVACSLD---YASISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccc-cCCcchHhhhhh---hhccCcccC
Confidence 457888876533 222233334 888898887554 456688884
No 291
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=22.85 E-value=51 Score=19.75 Aligned_cols=14 Identities=14% Similarity=0.150 Sum_probs=9.5
Q ss_pred cEEecCCCCCcccHH
Q 045579 65 SCRLFPVCYRIFHSV 79 (104)
Q Consensus 65 ~~~~lp~C~H~fh~~ 79 (104)
+++... |||.|+..
T Consensus 23 k~vkc~-CGh~f~d~ 36 (112)
T PF08882_consen 23 KVVKCD-CGHEFCDA 36 (112)
T ss_pred ceeecc-CCCeecCh
Confidence 355554 99999853
No 292
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=22.26 E-value=37 Score=20.40 Aligned_cols=32 Identities=22% Similarity=0.572 Sum_probs=17.4
Q ss_pred cCCCCC---cccHHhHHHHHhcC---CCCccccccccC
Q 045579 69 FPVCYR---IFHSVCIDQWLKEH---LTCPVCRISCID 100 (104)
Q Consensus 69 lp~C~H---~fh~~Ci~~wl~~~---~~CP~CR~~~~~ 100 (104)
.|+||| .||.-=++..=..+ .+||.|.....+
T Consensus 77 CpkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 77 CPKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred CcccCCchhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 456888 46644333321111 259999776543
No 293
>PF15025 DUF4524: Domain of unknown function (DUF4524)
Probab=22.17 E-value=67 Score=20.21 Aligned_cols=16 Identities=44% Similarity=0.785 Sum_probs=10.4
Q ss_pred ccCCCcEEecCCCCCcc
Q 045579 60 FVDGESCRLFPVCYRIF 76 (104)
Q Consensus 60 ~~~~~~~~~lp~C~H~f 76 (104)
|.++..+.+.| ||+.|
T Consensus 14 f~Dgs~l~Lsp-cGs~f 29 (148)
T PF15025_consen 14 FSDGSRLQLSP-CGSEF 29 (148)
T ss_pred EcCCCEEEEcC-CCccE
Confidence 45566666666 88854
No 294
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=22.12 E-value=71 Score=16.93 Aligned_cols=17 Identities=18% Similarity=0.262 Sum_probs=11.6
Q ss_pred CCCcEEecCCCCCcccHH
Q 045579 62 DGESCRLFPVCYRIFHSV 79 (104)
Q Consensus 62 ~~~~~~~lp~C~H~fh~~ 79 (104)
++.=|..|. |||.=|..
T Consensus 8 e~hWVA~L~-CGH~QHvR 24 (61)
T PF12088_consen 8 EGHWVAELS-CGHTQHVR 24 (61)
T ss_pred cCCEEEEec-cccccccc
Confidence 344577787 99976643
No 295
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=22.09 E-value=31 Score=15.89 Aligned_cols=10 Identities=30% Similarity=0.816 Sum_probs=6.1
Q ss_pred CCcccccccc
Q 045579 90 TCPVCRISCI 99 (104)
Q Consensus 90 ~CP~CR~~~~ 99 (104)
.||.|...|.
T Consensus 6 ~C~nC~R~v~ 15 (33)
T PF08209_consen 6 ECPNCGRPVA 15 (33)
T ss_dssp E-TTTSSEEE
T ss_pred ECCCCcCCcc
Confidence 4888877664
No 296
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=21.99 E-value=83 Score=15.17 Aligned_cols=22 Identities=14% Similarity=0.292 Sum_probs=12.9
Q ss_pred cccccccccCCCcEEecCCCCCcccH
Q 045579 53 CVICLENFVDGESCRLFPVCYRIFHS 78 (104)
Q Consensus 53 C~ICl~~~~~~~~~~~lp~C~H~fh~ 78 (104)
|..|... .+..+.|. |+|+++.
T Consensus 2 C~~C~~~---~~l~~CL~-C~~~~c~ 23 (50)
T smart00290 2 CSVCGTI---ENLWLCLT-CGQVGCG 23 (50)
T ss_pred cccCCCc---CCeEEecC-CCCcccC
Confidence 6666532 23445555 8888873
No 297
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=21.83 E-value=65 Score=21.79 Aligned_cols=22 Identities=27% Similarity=0.694 Sum_probs=15.3
Q ss_pred ccccccccccCCCcEEecCCCCCcccHHhHHHHH
Q 045579 52 YCVICLENFVDGESCRLFPVCYRIFHSVCIDQWL 85 (104)
Q Consensus 52 ~C~ICl~~~~~~~~~~~lp~C~H~fh~~Ci~~wl 85 (104)
.|+||.. .-.+.||..|+..-|
T Consensus 1 ~C~iC~~------------~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICHN------------SRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCCC------------CCCCeECHHHHHHHH
Confidence 4889961 155678888987654
No 298
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=21.80 E-value=64 Score=24.72 Aligned_cols=33 Identities=18% Similarity=0.291 Sum_probs=22.4
Q ss_pred ccccccccccccCC-CcEEecCCCCCcccHHhHH
Q 045579 50 SNYCVICLENFVDG-ESCRLFPVCYRIFHSVCID 82 (104)
Q Consensus 50 ~~~C~ICl~~~~~~-~~~~~lp~C~H~fh~~Ci~ 82 (104)
-..|.+||.+-... ..++...+||-..|..|.-
T Consensus 119 ~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYG 152 (707)
T KOG0957|consen 119 AVICCVCLGQRSVDAGEILQCDKCGINVHEGCYG 152 (707)
T ss_pred ceEEEEeecCccccccceeeccccCceecccccc
Confidence 44899999875332 2344444599999999974
No 299
>PF04596 Pox_F15: Poxvirus protein F15; InterPro: IPR007675 Protein F15 is found in a number of Poxviruses.
Probab=21.74 E-value=88 Score=19.32 Aligned_cols=34 Identities=26% Similarity=0.397 Sum_probs=26.0
Q ss_pred CCCcEEecCCCCCcccHHhHHHHHhcCCCCcccccccc
Q 045579 62 DGESCRLFPVCYRIFHSVCIDQWLKEHLTCPVCRISCI 99 (104)
Q Consensus 62 ~~~~~~~lp~C~H~fh~~Ci~~wl~~~~~CP~CR~~~~ 99 (104)
.+..-.++| .|=..||+...+.+.+|-.|-..-.
T Consensus 66 q~q~QYllP----~FVl~cI~eA~kn~~~c~Yc~~~~~ 99 (136)
T PF04596_consen 66 QPQYQYLLP----SFVLKCIDEANKNKKICKYCIVDKG 99 (136)
T ss_pred cccceEEcC----HHHHHHHHHHHhcCCEEEEEEEcCC
Confidence 444455677 6889999999899999999866543
No 300
>KOG0803 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.65 E-value=38 Score=28.77 Aligned_cols=28 Identities=32% Similarity=0.866 Sum_probs=22.8
Q ss_pred CCCcccHHhHHHHHhc---CCCCcccccccc
Q 045579 72 CYRIFHSVCIDQWLKE---HLTCPVCRISCI 99 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~---~~~CP~CR~~~~ 99 (104)
|.-.||..|+..|... +..||+||....
T Consensus 1085 c~~~f~~~~l~~w~s~ed~s~~~~~~r~~~~ 1115 (1312)
T KOG0803|consen 1085 CPNKFHTECLVKWKSGEDISENCPLCRELST 1115 (1312)
T ss_pred hhhhhhchhhHHhhccccccccccchhhhhH
Confidence 7889999999999842 347999998754
No 301
>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=21.62 E-value=62 Score=19.90 Aligned_cols=31 Identities=16% Similarity=0.170 Sum_probs=19.3
Q ss_pred CccccccccccccC-CCcEEecCCCCCcccHH
Q 045579 49 SSNYCVICLENFVD-GESCRLFPVCYRIFHSV 79 (104)
Q Consensus 49 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~fh~~ 79 (104)
....|+-|-..|.. +...++.|+||..|...
T Consensus 8 tKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 34568777776643 33455666788777655
No 302
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=21.60 E-value=42 Score=15.84 Aligned_cols=10 Identities=30% Similarity=0.849 Sum_probs=6.8
Q ss_pred CCcccccccc
Q 045579 90 TCPVCRISCI 99 (104)
Q Consensus 90 ~CP~CR~~~~ 99 (104)
.||.|...|+
T Consensus 3 ~CP~Cg~~lv 12 (39)
T PF01396_consen 3 KCPKCGGPLV 12 (39)
T ss_pred CCCCCCceeE
Confidence 5788876654
No 303
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.41 E-value=54 Score=27.19 Aligned_cols=47 Identities=19% Similarity=0.208 Sum_probs=30.5
Q ss_pred CCccccccccccccCCCcEEecCCCCC-----cccHHhHHHHHhcCCCCccccccccC
Q 045579 48 PSSNYCVICLENFVDGESCRLFPVCYR-----IFHSVCIDQWLKEHLTCPVCRISCID 100 (104)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~lp~C~H-----~fh~~Ci~~wl~~~~~CP~CR~~~~~ 100 (104)
.....|+=|=... .....|.||. .||..|-. ......||-|-..+..
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~--~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGI--EVEEDECEKCGREPTP 675 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCccccC--cCCCCcCCCCCCCCCc
Confidence 4566788886553 2234556874 59999933 3445679999887653
No 304
>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=21.32 E-value=47 Score=16.25 Aligned_cols=13 Identities=31% Similarity=0.746 Sum_probs=9.4
Q ss_pred Ccccccccccccc
Q 045579 49 SSNYCVICLENFV 61 (104)
Q Consensus 49 ~~~~C~ICl~~~~ 61 (104)
+...|++|.-+|.
T Consensus 7 p~K~C~~C~rpf~ 19 (42)
T PF10013_consen 7 PSKICPVCGRPFT 19 (42)
T ss_pred CCCcCcccCCcch
Confidence 4567888877764
No 305
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=21.30 E-value=75 Score=17.28 Aligned_cols=36 Identities=19% Similarity=0.213 Sum_probs=23.1
Q ss_pred ccccccccccccCCCcEE----ecCCCC-----CcccHHhHHHHHh
Q 045579 50 SNYCVICLENFVDGESCR----LFPVCY-----RIFHSVCIDQWLK 86 (104)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~----~lp~C~-----H~fh~~Ci~~wl~ 86 (104)
-..|..|...+..++.-+ ..+ -+ ..||..|+..++.
T Consensus 7 Ra~Ck~C~~~I~kg~lRiG~~~~~~-~~~~~~~~W~H~~C~~~~~~ 51 (82)
T PF00645_consen 7 RAKCKGCKKKIAKGELRIGKIVPSP-EGDGDIPKWYHWDCFFKKQL 51 (82)
T ss_dssp TEBETTTSCBE-TTSEEEEEEEEET-TSSCEEEEEEEHHHHHHTTC
T ss_pred CccCcccCCcCCCCCEEEEEEeccc-ccCCCCCceECccccccchh
Confidence 447889988887665211 122 33 4799999999764
No 306
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=21.10 E-value=55 Score=19.55 Aligned_cols=12 Identities=17% Similarity=0.653 Sum_probs=9.8
Q ss_pred cccHHhHHHHHh
Q 045579 75 IFHSVCIDQWLK 86 (104)
Q Consensus 75 ~fh~~Ci~~wl~ 86 (104)
.-|..||.+|-.
T Consensus 75 tCCRgCL~KWH~ 86 (111)
T PF13811_consen 75 TCCRGCLEKWHG 86 (111)
T ss_pred cchHHHHHHHhC
Confidence 468999999963
No 307
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=20.88 E-value=60 Score=16.70 Aligned_cols=8 Identities=38% Similarity=1.041 Sum_probs=3.4
Q ss_pred Cccccccc
Q 045579 91 CPVCRISC 98 (104)
Q Consensus 91 CP~CR~~~ 98 (104)
||.|-+.|
T Consensus 5 CP~CG~~i 12 (54)
T TIGR01206 5 CPDCGAEI 12 (54)
T ss_pred CCCCCCEE
Confidence 44444433
No 308
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=20.78 E-value=45 Score=23.11 Aligned_cols=12 Identities=33% Similarity=0.822 Sum_probs=7.7
Q ss_pred Cccccccccccc
Q 045579 49 SSNYCVICLENF 60 (104)
Q Consensus 49 ~~~~C~ICl~~~ 60 (104)
-+..|+|||.-|
T Consensus 252 ~g~vCsvCLsIf 263 (276)
T PF03850_consen 252 IGYVCSVCLSIF 263 (276)
T ss_pred ceeEchhhhhhh
Confidence 366677776654
No 309
>PHA03050 glutaredoxin; Provisional
Probab=20.77 E-value=31 Score=20.22 Aligned_cols=9 Identities=56% Similarity=1.394 Sum_probs=6.2
Q ss_pred CCCCccccc
Q 045579 88 HLTCPVCRI 96 (104)
Q Consensus 88 ~~~CP~CR~ 96 (104)
...||.|+.
T Consensus 20 ~~~CPyC~~ 28 (108)
T PHA03050 20 KFTCPFCRN 28 (108)
T ss_pred CCCChHHHH
Confidence 446888874
No 310
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=20.64 E-value=1.1e+02 Score=14.83 Aligned_cols=8 Identities=13% Similarity=-0.176 Sum_probs=3.6
Q ss_pred cCCCCCcc
Q 045579 69 FPVCYRIF 76 (104)
Q Consensus 69 lp~C~H~f 76 (104)
-|.|||.+
T Consensus 23 C~~Cg~~~ 30 (52)
T smart00661 23 CRKCGYEE 30 (52)
T ss_pred CCcCCCeE
Confidence 33455543
No 311
>smart00746 TRASH metallochaperone-like domain.
Probab=20.33 E-value=64 Score=13.34 Aligned_cols=9 Identities=22% Similarity=0.707 Sum_probs=5.3
Q ss_pred Ccccccccc
Q 045579 91 CPVCRISCI 99 (104)
Q Consensus 91 CP~CR~~~~ 99 (104)
||+|...+.
T Consensus 1 c~~C~~~~~ 9 (39)
T smart00746 1 CSFCGKDIY 9 (39)
T ss_pred CCCCCCCcc
Confidence 566665554
No 312
>PF05353 Atracotoxin: Delta Atracotoxin; InterPro: IPR008017 Delta atracotoxin produces potentially fatal neurotoxic symptoms in primates by slowing the inactivation of voltage-gated sodium channels []. The structure of atracotoxin comprises a core beta region containing a triple-stranded a thumb-like extension protruding from the beta region and a C-terminal helix. The beta region contains a cystine knot motif, a feature seen in other neurotoxic polypeptides [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2ROO_A 1VTX_A 1QDP_A.
Probab=20.19 E-value=4.2 Score=19.62 Aligned_cols=14 Identities=29% Similarity=0.937 Sum_probs=9.8
Q ss_pred HhHHHHHhcCCCCc
Q 045579 79 VCIDQWLKEHLTCP 92 (104)
Q Consensus 79 ~Ci~~wl~~~~~CP 92 (104)
.||..|...+.+|-
T Consensus 19 kCiyAWYnqq~sCq 32 (42)
T PF05353_consen 19 KCIYAWYNQQSSCQ 32 (42)
T ss_dssp EEEE-SSGSTEEEE
T ss_pred HHHHHHHccCCchH
Confidence 57888888877773
No 313
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=20.16 E-value=97 Score=24.77 Aligned_cols=25 Identities=20% Similarity=0.336 Sum_probs=13.7
Q ss_pred CCCcccHHhHHHHHhcCCCCccccc
Q 045579 72 CYRIFHSVCIDQWLKEHLTCPVCRI 96 (104)
Q Consensus 72 C~H~fh~~Ci~~wl~~~~~CP~CR~ 96 (104)
=|-+||+.|-.+=-.....|-+|=.
T Consensus 46 tGpWfCrKCesqeraarvrCeLCP~ 70 (900)
T KOG0956|consen 46 TGPWFCRKCESQERAARVRCELCPH 70 (900)
T ss_pred CCchhhhhhhhhhhhccceeecccC
Confidence 4555666665553334455777743
Done!