Query 032728
Match_columns 135
No_of_seqs 148 out of 1642
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 05:11:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032728.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032728hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03208 E3 ubiquitin-protein 99.3 6.4E-13 1.4E-17 98.9 3.0 51 84-134 13-79 (193)
2 PF13920 zf-C3HC4_3: Zinc fing 99.3 6.2E-13 1.3E-17 78.9 1.8 47 89-135 2-49 (50)
3 PHA02929 N1R/p28-like protein; 99.3 1.5E-12 3.2E-17 100.1 3.8 48 87-134 172-227 (238)
4 PF13639 zf-RING_2: Ring finge 99.3 6.8E-13 1.5E-17 76.7 1.3 40 91-130 2-44 (44)
5 PF15227 zf-C3HC4_4: zinc fing 99.3 1.7E-12 3.7E-17 74.6 2.5 38 92-129 1-42 (42)
6 KOG0823 Predicted E3 ubiquitin 99.3 2.7E-12 5.9E-17 97.3 2.6 48 87-134 45-95 (230)
7 PF13923 zf-C3HC4_2: Zinc fing 99.2 2.9E-12 6.2E-17 72.3 2.1 38 92-129 1-39 (39)
8 KOG0317 Predicted E3 ubiquitin 99.2 4.9E-12 1.1E-16 98.6 3.7 48 87-134 237-284 (293)
9 KOG1002 Nucleotide excision re 99.2 1E-11 2.2E-16 103.6 2.4 102 18-133 479-585 (791)
10 PHA02926 zinc finger-like prot 99.1 2.1E-11 4.6E-16 92.3 2.9 48 87-134 168-230 (242)
11 PF12678 zf-rbx1: RING-H2 zinc 99.1 2.8E-11 6.1E-16 77.4 2.5 40 91-130 21-73 (73)
12 COG5243 HRD1 HRD ubiquitin lig 99.1 1E-10 2.2E-15 94.2 5.2 46 87-133 285-344 (491)
13 cd00162 RING RING-finger (Real 99.1 8.8E-11 1.9E-15 66.5 2.7 43 91-133 1-45 (45)
14 PF00097 zf-C3HC4: Zinc finger 99.1 8.5E-11 1.8E-15 66.6 2.2 38 92-129 1-41 (41)
15 smart00504 Ubox Modified RING 99.1 1.5E-10 3.3E-15 71.1 3.4 45 90-134 2-46 (63)
16 KOG0320 Predicted E3 ubiquitin 99.0 1.7E-10 3.6E-15 84.6 2.8 46 89-134 131-178 (187)
17 TIGR00599 rad18 DNA repair pro 99.0 2.8E-10 6E-15 93.2 3.5 50 85-134 22-71 (397)
18 PF12861 zf-Apc11: Anaphase-pr 98.9 5.6E-10 1.2E-14 73.0 2.7 46 89-134 21-82 (85)
19 smart00184 RING Ring finger. E 98.9 8.3E-10 1.8E-14 60.4 2.5 38 92-129 1-39 (39)
20 PF14634 zf-RING_5: zinc-RING 98.9 8.9E-10 1.9E-14 63.7 2.6 41 91-131 1-44 (44)
21 KOG2164 Predicted E3 ubiquitin 98.8 1.3E-09 2.7E-14 90.8 2.5 45 89-133 186-235 (513)
22 KOG0287 Postreplication repair 98.8 7.3E-10 1.6E-14 88.4 0.4 49 87-135 21-69 (442)
23 KOG4628 Predicted E3 ubiquitin 98.8 3.1E-09 6.7E-14 85.5 2.7 44 90-134 230-278 (348)
24 COG5574 PEX10 RING-finger-cont 98.8 3.6E-09 7.9E-14 81.8 2.3 47 87-133 213-261 (271)
25 COG5432 RAD18 RING-finger-cont 98.8 2.7E-09 5.8E-14 83.8 1.4 47 88-134 24-70 (391)
26 COG5540 RING-finger-containing 98.6 1.1E-08 2.5E-13 80.6 2.1 44 90-134 324-372 (374)
27 KOG4172 Predicted E3 ubiquitin 98.6 7.2E-09 1.6E-13 62.2 0.7 45 90-134 8-54 (62)
28 PF13445 zf-RING_UBOX: RING-ty 98.6 1.8E-08 3.9E-13 58.1 1.5 35 92-127 1-43 (43)
29 PF04564 U-box: U-box domain; 98.6 2.7E-08 5.8E-13 63.5 2.1 47 88-134 3-50 (73)
30 KOG2177 Predicted E3 ubiquitin 98.6 2.7E-08 5.8E-13 75.6 1.9 46 86-131 10-55 (386)
31 TIGR00570 cdk7 CDK-activating 98.5 6.9E-08 1.5E-12 76.7 3.9 47 89-135 3-55 (309)
32 KOG0802 E3 ubiquitin ligase [P 98.5 2.6E-08 5.6E-13 84.8 1.2 44 89-133 291-340 (543)
33 KOG1039 Predicted E3 ubiquitin 98.5 2.7E-08 5.9E-13 80.2 0.8 48 87-134 159-221 (344)
34 KOG1001 Helicase-like transcri 98.5 4.7E-08 1E-12 85.0 2.0 113 19-134 386-500 (674)
35 PF14835 zf-RING_6: zf-RING of 98.4 6.2E-08 1.3E-12 60.1 0.7 43 89-133 7-50 (65)
36 KOG4265 Predicted E3 ubiquitin 98.3 3E-07 6.5E-12 73.9 2.2 49 87-135 288-337 (349)
37 KOG4159 Predicted E3 ubiquitin 98.3 4.6E-07 9.9E-12 74.5 2.8 50 86-135 81-130 (398)
38 KOG0978 E3 ubiquitin ligase in 98.3 2.1E-07 4.6E-12 80.6 0.8 44 90-133 644-688 (698)
39 KOG0824 Predicted E3 ubiquitin 98.2 5.6E-07 1.2E-11 71.0 2.1 46 89-134 7-53 (324)
40 KOG1785 Tyrosine kinase negati 98.0 2.2E-06 4.8E-11 70.2 1.5 44 91-134 371-416 (563)
41 KOG0804 Cytoplasmic Zn-finger 98.0 3.1E-06 6.8E-11 69.9 2.2 43 88-132 174-220 (493)
42 PF11793 FANCL_C: FANCL C-term 97.9 1.7E-06 3.6E-11 54.8 -0.3 46 89-134 2-66 (70)
43 KOG0828 Predicted E3 ubiquitin 97.9 4.2E-06 9.1E-11 70.0 1.8 48 87-134 569-634 (636)
44 KOG0297 TNF receptor-associate 97.8 8.9E-06 1.9E-10 66.9 2.4 48 86-133 18-66 (391)
45 COG5219 Uncharacterized conser 97.8 1E-05 2.2E-10 72.1 2.1 48 87-134 1467-1523(1525)
46 KOG0311 Predicted E3 ubiquitin 97.8 2.2E-06 4.8E-11 68.9 -2.4 47 87-133 41-89 (381)
47 COG5152 Uncharacterized conser 97.7 1.4E-05 2.9E-10 60.1 1.8 44 89-132 196-239 (259)
48 COG5194 APC11 Component of SCF 97.7 2.4E-05 5.2E-10 50.5 2.0 31 103-133 50-80 (88)
49 KOG4692 Predicted E3 ubiquitin 97.7 3.6E-05 7.8E-10 62.3 3.4 48 86-133 419-466 (489)
50 KOG0827 Predicted E3 ubiquitin 97.7 2E-05 4.4E-10 64.2 1.9 41 90-131 5-53 (465)
51 smart00744 RINGv The RING-vari 97.6 3E-05 6.5E-10 45.7 1.9 39 91-130 1-49 (49)
52 KOG2879 Predicted E3 ubiquitin 97.6 5.7E-05 1.2E-09 59.1 3.5 49 86-134 236-287 (298)
53 KOG1813 Predicted E3 ubiquitin 97.6 3.1E-05 6.7E-10 61.1 1.4 45 89-133 241-285 (313)
54 KOG1493 Anaphase-promoting com 97.5 1.9E-05 4.1E-10 50.6 -0.1 31 103-133 47-80 (84)
55 PF11789 zf-Nse: Zinc-finger o 97.4 6.4E-05 1.4E-09 45.7 1.5 40 89-128 11-53 (57)
56 KOG4275 Predicted E3 ubiquitin 97.3 3.6E-05 7.8E-10 60.8 -1.1 43 89-135 300-343 (350)
57 KOG2660 Locus-specific chromos 97.3 5.4E-05 1.2E-09 60.5 -0.1 48 87-134 13-61 (331)
58 KOG0825 PHD Zn-finger protein 97.1 0.00015 3.2E-09 63.8 0.5 45 90-135 124-172 (1134)
59 PF14447 Prok-RING_4: Prokaryo 97.1 0.00034 7.3E-09 42.1 1.6 44 89-134 7-50 (55)
60 KOG1734 Predicted RING-contain 97.0 0.00019 4.1E-09 56.2 0.6 46 88-133 223-280 (328)
61 KOG2930 SCF ubiquitin ligase, 97.0 0.00038 8.3E-09 47.1 1.5 28 105-132 79-106 (114)
62 KOG1571 Predicted E3 ubiquitin 96.8 0.0005 1.1E-08 55.6 1.4 44 88-134 304-347 (355)
63 KOG1645 RING-finger-containing 96.7 0.001 2.2E-08 54.8 2.1 43 89-131 4-53 (463)
64 PF14570 zf-RING_4: RING/Ubox 96.6 0.0021 4.5E-08 37.8 2.7 42 92-133 1-47 (48)
65 KOG3002 Zn finger protein [Gen 96.5 0.0014 3.1E-08 52.2 2.0 42 88-133 47-90 (299)
66 PHA03096 p28-like protein; Pro 96.5 0.0013 2.8E-08 52.2 1.5 41 90-130 179-230 (284)
67 COG5236 Uncharacterized conser 96.5 0.0021 4.5E-08 52.2 2.6 48 85-132 57-106 (493)
68 KOG4739 Uncharacterized protei 96.2 0.0013 2.9E-08 50.5 0.4 42 91-134 5-48 (233)
69 KOG0826 Predicted E3 ubiquitin 96.1 0.0037 8.1E-08 50.2 2.3 41 88-128 299-340 (357)
70 KOG1428 Inhibitor of type V ad 96.1 0.0035 7.5E-08 58.9 2.3 49 86-134 3483-3544(3738)
71 KOG4185 Predicted E3 ubiquitin 96.1 0.004 8.8E-08 49.0 2.3 41 91-132 5-53 (296)
72 KOG1814 Predicted E3 ubiquitin 95.7 0.0057 1.2E-07 50.5 1.6 33 89-121 184-219 (445)
73 PHA02825 LAP/PHD finger-like p 95.7 0.015 3.3E-07 42.3 3.6 46 87-133 6-58 (162)
74 PF10367 Vps39_2: Vacuolar sor 95.6 0.023 5E-07 37.7 4.3 36 82-117 71-108 (109)
75 KOG1941 Acetylcholine receptor 95.6 0.003 6.5E-08 52.0 -0.3 45 86-131 362-413 (518)
76 PF07800 DUF1644: Protein of u 95.6 0.01 2.3E-07 43.1 2.5 34 88-121 1-47 (162)
77 PF04641 Rtf2: Rtf2 RING-finge 95.5 0.015 3.2E-07 45.4 3.4 47 87-134 111-161 (260)
78 PHA02862 5L protein; Provision 95.4 0.015 3.2E-07 41.8 2.7 43 90-133 3-52 (156)
79 KOG3039 Uncharacterized conser 95.2 0.016 3.5E-07 45.1 2.6 45 90-134 222-270 (303)
80 KOG2114 Vacuolar assembly/sort 95.0 0.032 6.9E-07 49.9 4.2 41 90-133 841-882 (933)
81 COG5222 Uncharacterized conser 94.8 0.016 3.4E-07 46.4 1.6 42 90-131 275-318 (427)
82 PF05290 Baculo_IE-1: Baculovi 94.6 0.15 3.1E-06 36.2 5.9 45 89-134 80-132 (140)
83 COG5175 MOT2 Transcriptional r 94.6 0.022 4.9E-07 46.3 2.1 46 88-133 13-63 (480)
84 PF10272 Tmpp129: Putative tra 94.4 0.033 7.1E-07 45.6 2.8 25 109-133 313-350 (358)
85 KOG3800 Predicted E3 ubiquitin 94.4 0.026 5.7E-07 44.7 2.0 43 91-134 2-51 (300)
86 KOG3268 Predicted E3 ubiquitin 93.3 0.055 1.2E-06 40.3 2.0 43 91-133 167-227 (234)
87 KOG4367 Predicted Zn-finger pr 93.3 0.042 9.1E-07 46.1 1.5 36 87-122 2-37 (699)
88 KOG1812 Predicted E3 ubiquitin 93.1 0.15 3.2E-06 42.1 4.4 33 89-121 146-182 (384)
89 KOG4445 Uncharacterized conser 92.5 0.03 6.5E-07 44.8 -0.4 45 90-134 116-186 (368)
90 KOG1100 Predicted E3 ubiquitin 92.4 0.048 1E-06 41.4 0.6 40 91-134 160-200 (207)
91 PF03854 zf-P11: P-11 zinc fin 92.4 0.064 1.4E-06 31.4 0.9 31 104-134 15-46 (50)
92 KOG2932 E3 ubiquitin ligase in 92.3 0.049 1.1E-06 43.7 0.5 28 106-135 108-135 (389)
93 KOG0298 DEAD box-containing he 91.8 0.036 7.7E-07 51.5 -0.8 43 89-131 1153-1196(1394)
94 PF12906 RINGv: RING-variant d 91.3 0.15 3.2E-06 29.6 1.7 38 92-129 1-47 (47)
95 KOG1940 Zn-finger protein [Gen 90.9 0.19 4.1E-06 39.8 2.5 43 89-131 158-204 (276)
96 PF08746 zf-RING-like: RING-li 90.9 0.25 5.4E-06 28.1 2.4 38 92-129 1-43 (43)
97 KOG4362 Transcriptional regula 89.8 0.077 1.7E-06 46.6 -0.6 46 89-134 21-69 (684)
98 KOG1952 Transcription factor N 88.9 0.19 4.2E-06 45.1 1.2 46 88-133 190-246 (950)
99 COG5220 TFB3 Cdk activating ki 88.9 0.077 1.7E-06 41.3 -1.1 43 89-131 10-61 (314)
100 PF05883 Baculo_RING: Baculovi 88.8 0.12 2.7E-06 36.6 -0.0 32 89-120 26-66 (134)
101 KOG3970 Predicted E3 ubiquitin 88.6 0.36 7.8E-06 37.3 2.3 46 88-133 49-104 (299)
102 KOG1815 Predicted E3 ubiquitin 88.5 0.31 6.7E-06 40.8 2.2 36 87-122 68-104 (444)
103 KOG2034 Vacuolar sorting prote 88.5 0.88 1.9E-05 41.2 5.0 33 86-119 814-849 (911)
104 KOG2817 Predicted E3 ubiquitin 87.7 0.45 9.8E-06 39.3 2.5 42 91-132 336-383 (394)
105 KOG0309 Conserved WD40 repeat- 85.7 0.5 1.1E-05 42.3 1.9 38 91-128 1030-1069(1081)
106 KOG3053 Uncharacterized conser 85.3 0.42 9.1E-06 37.5 1.1 47 86-133 17-81 (293)
107 KOG0269 WD40 repeat-containing 84.4 1.1 2.3E-05 40.1 3.3 38 91-128 781-820 (839)
108 COG5183 SSM4 Protein involved 83.2 0.97 2.1E-05 40.9 2.6 47 88-134 11-66 (1175)
109 KOG3161 Predicted E3 ubiquitin 82.2 0.48 1.1E-05 41.6 0.4 36 90-127 12-51 (861)
110 KOG3899 Uncharacterized conser 81.4 0.82 1.8E-05 36.7 1.3 27 107-133 325-364 (381)
111 PF07191 zinc-ribbons_6: zinc- 81.4 0.14 3E-06 32.4 -2.4 40 90-134 2-41 (70)
112 KOG3039 Uncharacterized conser 81.1 1.8 3.8E-05 34.0 3.0 36 85-120 39-74 (303)
113 KOG3799 Rab3 effector RIM1 and 78.1 6.9 0.00015 28.0 5.0 31 84-119 60-91 (169)
114 KOG0825 PHD Zn-finger protein 76.4 1.5 3.2E-05 39.6 1.6 28 105-132 119-152 (1134)
115 smart00647 IBR In Between Ring 74.2 0.66 1.4E-05 27.6 -0.8 16 105-120 44-59 (64)
116 PF07975 C1_4: TFIIH C1-like d 73.9 2.5 5.4E-05 25.0 1.6 26 105-130 25-50 (51)
117 PF06844 DUF1244: Protein of u 72.7 1.9 4.2E-05 26.9 1.0 12 110-121 11-22 (68)
118 KOG2068 MOT2 transcription fac 69.6 4.2 9.1E-05 33.0 2.5 45 90-134 250-298 (327)
119 KOG4718 Non-SMC (structural ma 69.1 3.4 7.3E-05 31.7 1.8 41 90-130 182-223 (235)
120 PF02318 FYVE_2: FYVE-type zin 69.0 9.4 0.0002 26.1 3.9 45 87-131 52-102 (118)
121 KOG3579 Predicted E3 ubiquitin 68.8 2.4 5.2E-05 33.9 1.0 33 90-122 269-305 (352)
122 PF09723 Zn-ribbon_8: Zinc rib 68.7 1.2 2.6E-05 25.0 -0.5 29 105-135 9-39 (42)
123 PF14569 zf-UDP: Zinc-binding 66.0 5.2 0.00011 25.8 1.9 46 90-135 10-63 (80)
124 KOG1815 Predicted E3 ubiquitin 65.5 3.2 7E-05 34.8 1.2 21 100-120 177-197 (444)
125 PF13240 zinc_ribbon_2: zinc-r 65.1 1.4 2.9E-05 21.7 -0.7 13 120-132 10-22 (23)
126 PF01359 Transposase_1: Transp 65.1 20 0.00042 23.0 4.6 27 1-30 32-58 (81)
127 PF10146 zf-C4H2: Zinc finger- 65.1 4.3 9.3E-05 31.3 1.7 22 111-132 196-217 (230)
128 KOG3113 Uncharacterized conser 63.0 5.5 0.00012 31.4 1.9 44 89-134 111-158 (293)
129 PF06906 DUF1272: Protein of u 62.1 7.2 0.00016 23.6 1.9 26 107-134 25-52 (57)
130 PF01363 FYVE: FYVE zinc finge 61.9 3 6.5E-05 25.4 0.3 32 89-120 9-44 (69)
131 PF02891 zf-MIZ: MIZ/SP-RING z 61.6 5.3 0.00011 23.3 1.3 41 91-132 4-50 (50)
132 KOG1812 Predicted E3 ubiquitin 61.4 3.2 7E-05 34.3 0.5 40 89-129 306-351 (384)
133 TIGR00622 ssl1 transcription f 60.7 11 0.00023 26.0 2.9 28 104-131 84-111 (112)
134 PF10497 zf-4CXXC_R1: Zinc-fin 60.1 8.9 0.00019 25.9 2.4 24 108-131 37-69 (105)
135 PF04710 Pellino: Pellino; In 59.1 3.1 6.7E-05 34.6 0.0 29 101-132 303-337 (416)
136 KOG3842 Adaptor protein Pellin 58.2 11 0.00024 30.8 2.9 30 104-133 375-413 (429)
137 COG3813 Uncharacterized protei 58.0 7.3 0.00016 24.9 1.5 24 108-133 28-51 (84)
138 smart00834 CxxC_CXXC_SSSS Puta 57.8 3.4 7.3E-05 22.4 -0.0 29 105-135 9-38 (41)
139 PF04216 FdhE: Protein involve 56.4 1.6 3.5E-05 34.4 -2.0 43 89-131 172-219 (290)
140 PLN02189 cellulose synthase 55.6 8.9 0.00019 35.7 2.3 47 89-135 34-88 (1040)
141 PF14311 DUF4379: Domain of un 55.4 8.5 0.00018 22.5 1.5 23 106-129 33-55 (55)
142 KOG4451 Uncharacterized conser 55.4 7.3 0.00016 30.3 1.5 22 111-132 251-272 (286)
143 KOG2231 Predicted E3 ubiquitin 53.9 11 0.00023 33.6 2.4 44 91-134 2-52 (669)
144 KOG2979 Protein involved in DN 53.9 8 0.00017 30.4 1.5 39 90-128 177-218 (262)
145 KOG0827 Predicted E3 ubiquitin 53.8 2.9 6.4E-05 34.8 -0.9 44 91-134 198-245 (465)
146 PF01485 IBR: IBR domain; Int 53.5 1.9 4E-05 25.5 -1.7 16 105-120 44-59 (64)
147 PF10571 UPF0547: Uncharacteri 52.9 3.9 8.5E-05 20.7 -0.2 21 91-111 2-24 (26)
148 KOG0824 Predicted E3 ubiquitin 52.0 4.8 0.0001 32.4 0.0 46 88-133 104-150 (324)
149 COG4647 AcxC Acetone carboxyla 49.4 7 0.00015 27.8 0.5 21 93-113 61-81 (165)
150 PF04423 Rad50_zn_hook: Rad50 48.9 6.9 0.00015 22.9 0.4 10 125-134 22-31 (54)
151 smart00064 FYVE Protein presen 48.8 17 0.00038 21.8 2.2 32 89-120 10-45 (68)
152 PRK03564 formate dehydrogenase 48.7 6.4 0.00014 31.7 0.2 44 88-131 186-234 (309)
153 COG5109 Uncharacterized conser 48.7 11 0.00024 30.7 1.6 41 91-131 338-384 (396)
154 TIGR01562 FdhE formate dehydro 47.5 5.6 0.00012 32.0 -0.2 43 89-131 184-232 (305)
155 PF11023 DUF2614: Protein of u 47.4 14 0.0003 25.5 1.7 24 105-134 73-96 (114)
156 PLN02638 cellulose synthase A 47.4 14 0.00031 34.6 2.2 46 90-135 18-71 (1079)
157 PLN02436 cellulose synthase A 47.2 15 0.00031 34.5 2.3 46 90-135 37-90 (1094)
158 KOG2113 Predicted RNA binding 46.9 15 0.00032 30.0 2.0 42 89-132 343-385 (394)
159 PF05605 zf-Di19: Drought indu 46.2 12 0.00025 21.9 1.1 11 123-133 31-41 (54)
160 PF10083 DUF2321: Uncharacteri 46.0 10 0.00022 27.6 0.9 24 108-134 27-50 (158)
161 COG3492 Uncharacterized protei 45.7 9.4 0.0002 25.4 0.7 12 110-121 42-53 (104)
162 KOG2113 Predicted RNA binding 43.6 6 0.00013 32.2 -0.6 46 88-133 135-182 (394)
163 KOG1609 Protein involved in mR 42.9 16 0.00035 28.4 1.7 45 89-133 78-133 (323)
164 PLN02400 cellulose synthase 42.8 16 0.00034 34.3 1.8 47 89-135 36-90 (1085)
165 cd00350 rubredoxin_like Rubred 41.5 19 0.0004 18.9 1.3 10 123-132 17-26 (33)
166 PF14446 Prok-RING_1: Prokaryo 40.9 28 0.0006 20.8 2.1 30 89-118 5-38 (54)
167 KOG1829 Uncharacterized conser 40.2 9.6 0.00021 33.3 0.1 21 106-129 536-556 (580)
168 KOG2066 Vacuolar assembly/sort 39.9 31 0.00067 31.4 3.1 41 88-129 783-830 (846)
169 PF10235 Cript: Microtubule-as 36.9 20 0.00043 23.7 1.1 35 90-133 45-79 (90)
170 cd00065 FYVE FYVE domain; Zinc 36.8 16 0.00035 21.1 0.6 30 91-120 4-37 (57)
171 PF13248 zf-ribbon_3: zinc-rib 36.7 8.2 0.00018 19.2 -0.6 8 124-131 17-24 (26)
172 PLN02915 cellulose synthase A 35.5 28 0.00061 32.6 2.2 47 89-135 15-69 (1044)
173 PF14169 YdjO: Cold-inducible 34.9 23 0.00049 21.6 1.1 12 123-134 39-50 (59)
174 TIGR02605 CxxC_CxxC_SSSS putat 34.7 13 0.00027 21.3 -0.1 25 105-131 9-34 (52)
175 KOG1356 Putative transcription 32.8 12 0.00027 34.0 -0.4 42 90-131 230-279 (889)
176 PF13901 DUF4206: Domain of un 32.6 33 0.00071 25.7 1.9 37 89-130 152-196 (202)
177 PRK04023 DNA polymerase II lar 30.5 37 0.00081 31.8 2.2 43 89-133 626-673 (1121)
178 smart00132 LIM Zinc-binding do 30.2 37 0.00079 17.3 1.4 34 92-133 2-37 (39)
179 PF09237 GAGA: GAGA factor; I 29.5 19 0.00041 21.5 0.1 9 125-133 26-34 (54)
180 PF05304 DUF728: Protein of un 29.2 40 0.00086 22.4 1.6 27 3-30 45-72 (103)
181 PF03119 DNA_ligase_ZBD: NAD-d 28.7 18 0.00038 18.5 -0.1 10 125-134 1-10 (28)
182 PF12023 DUF3511: Domain of un 28.4 12 0.00026 21.7 -0.8 23 5-27 2-28 (47)
183 PF07503 zf-HYPF: HypF finger; 28.3 48 0.001 17.9 1.6 20 111-130 1-28 (35)
184 smart00290 ZnF_UBP Ubiquitin C 27.1 40 0.00086 18.9 1.2 23 92-114 2-24 (50)
185 COG4306 Uncharacterized protei 26.9 32 0.00069 24.4 0.9 22 110-134 29-50 (160)
186 COG4357 Zinc finger domain con 26.5 54 0.0012 22.1 1.9 12 123-134 80-91 (105)
187 KOG2807 RNA polymerase II tran 26.5 43 0.00093 27.5 1.6 41 91-131 332-375 (378)
188 PHA00626 hypothetical protein 25.8 42 0.00092 20.3 1.2 25 91-115 13-37 (59)
189 KOG3726 Uncharacterized conser 25.7 41 0.00088 30.1 1.5 37 91-130 656-696 (717)
190 COG0068 HypF Hydrogenase matur 25.6 46 0.00099 30.0 1.8 44 87-130 99-180 (750)
191 KOG0802 E3 ubiquitin ligase [P 24.7 33 0.00071 29.6 0.8 41 89-133 479-519 (543)
192 PF08882 Acetone_carb_G: Aceto 23.9 36 0.00078 23.4 0.7 19 94-113 17-35 (112)
193 PLN02248 cellulose synthase-li 23.8 55 0.0012 31.0 2.0 29 106-134 149-177 (1135)
194 PRK11595 DNA utilization prote 23.1 80 0.0017 23.8 2.6 8 111-118 22-29 (227)
195 smart00734 ZnF_Rad18 Rad18-lik 22.2 40 0.00086 16.8 0.5 8 125-132 3-10 (26)
196 KOG3302 TATA-box binding prote 21.7 1.5E+02 0.0032 22.5 3.6 35 17-51 162-196 (200)
197 PF13717 zinc_ribbon_4: zinc-r 21.6 42 0.00091 18.0 0.5 7 105-111 29-35 (36)
198 PF04606 Ogr_Delta: Ogr/Delta- 21.2 42 0.0009 19.0 0.5 6 106-111 32-37 (47)
199 TIGR00627 tfb4 transcription f 21.0 31 0.00068 27.4 -0.1 24 110-133 256-279 (279)
200 COG1545 Predicted nucleic-acid 20.9 50 0.0011 23.3 1.0 19 106-132 34-52 (140)
201 KOG4218 Nuclear hormone recept 20.6 75 0.0016 26.4 2.0 14 88-101 14-27 (475)
202 PLN02195 cellulose synthase A 20.3 1.1E+02 0.0023 28.8 3.1 44 91-134 8-59 (977)
No 1
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.33 E-value=6.4e-13 Score=98.87 Aligned_cols=51 Identities=25% Similarity=0.686 Sum_probs=42.9
Q ss_pred cCCCCCCcccccccCCcccccCCCCCccchhhHHHHhcc----------------CCCCcccccccc
Q 032728 84 KDLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNAR----------------SQSCLFAVAAYR 134 (135)
Q Consensus 84 ~~~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~----------------~~~CP~CR~~i~ 134 (135)
.+..++..|+||++...+++++.|||.||..||.+|+.. ...||+||.++.
T Consensus 13 ~~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred ccCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 344567799999999989888889999999999999742 358999999874
No 2
>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=99.32 E-value=6.2e-13 Score=78.93 Aligned_cols=47 Identities=32% Similarity=0.714 Sum_probs=40.3
Q ss_pred CCcccccccCCcccccCCCCCc-cchhhHHHHhccCCCCccccccccC
Q 032728 89 NDECGICMENCTKMVLPNCGHS-LCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~-FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
+..|.||++...++++.+|||. ||..|+..|+.....||+||+++.+
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4589999998888888779999 9999999999989999999999863
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.31 E-value=1.5e-12 Score=100.15 Aligned_cols=48 Identities=29% Similarity=0.863 Sum_probs=39.9
Q ss_pred CCCCcccccccCCcc--------cccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 87 DRNDECGICMENCTK--------MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~--------~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.++.+|+||++...+ +++++|||.||..||.+|+..+.+||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 446799999986432 356789999999999999999999999998763
No 4
>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=99.30 E-value=6.8e-13 Score=76.71 Aligned_cols=40 Identities=38% Similarity=0.865 Sum_probs=32.8
Q ss_pred cccccccCC---cccccCCCCCccchhhHHHHhccCCCCcccc
Q 032728 91 ECGICMENC---TKMVLPNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 91 ~C~IC~~~~---~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
.|+||++.. ..++..+|||.||.+||.+|+..+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 699999664 2344455999999999999999999999997
No 5
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.29 E-value=1.7e-12 Score=74.64 Aligned_cols=38 Identities=32% Similarity=0.677 Sum_probs=29.9
Q ss_pred ccccccCCcccccCCCCCccchhhHHHHhccC----CCCccc
Q 032728 92 CGICMENCTKMVLPNCGHSLCVNCFHDWNARS----QSCLFA 129 (135)
Q Consensus 92 C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~----~~CP~C 129 (135)
|+||++++.+|+..+|||+||..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999888899999999999988653 479987
No 6
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=2.7e-12 Score=97.34 Aligned_cols=48 Identities=27% Similarity=0.647 Sum_probs=42.4
Q ss_pred CCCCcccccccCCcccccCCCCCccchhhHHHHhcc---CCCCcccccccc
Q 032728 87 DRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNAR---SQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR~~i~ 134 (135)
....+|.||+|...+++++.|||.||..||.+|+.. ++.||+|++.+.
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 445699999999999999999999999999999975 468999998874
No 7
>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=99.25 E-value=2.9e-12 Score=72.33 Aligned_cols=38 Identities=29% Similarity=0.871 Sum_probs=32.5
Q ss_pred ccccccCCccc-ccCCCCCccchhhHHHHhccCCCCccc
Q 032728 92 CGICMENCTKM-VLPNCGHSLCVNCFHDWNARSQSCLFA 129 (135)
Q Consensus 92 C~IC~~~~~~~-~l~~CgH~FC~~Ci~~~~~~~~~CP~C 129 (135)
|+||++...++ +.++|||.||..|+.+|++....||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999887777 677899999999999999888899997
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=4.9e-12 Score=98.59 Aligned_cols=48 Identities=23% Similarity=0.777 Sum_probs=42.8
Q ss_pred CCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 87 DRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
+....|.+|++....|..++|||.||.+||..|......||+||..+.
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 344689999999988888889999999999999998889999998875
No 9
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=99.17 E-value=1e-11 Score=103.63 Aligned_cols=102 Identities=14% Similarity=0.332 Sum_probs=81.7
Q ss_pred EEeecCccccchHHHHHHHHHHHHhHhHHHHHHHhhhchhhhhhhhcchhhhhhhhHHHHHhhcCccCCCCCCccccccc
Q 032728 18 QVYVDGMPALSSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRVEERRKLSDKDLDRNDECGICME 97 (135)
Q Consensus 18 ~~~~~~~~~~~~~~~~~si~~~y~~i~~~l~~l~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~C~IC~~ 97 (135)
.+|+|.+..|..|...|.+..||++|+.+|-+|+|...|++....... +.-..+-..+.+|.+|.+
T Consensus 479 SLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~--------------~n~~~enk~~~~C~lc~d 544 (791)
T KOG1002|consen 479 SLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSAN--------------ANLPDENKGEVECGLCHD 544 (791)
T ss_pred HHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhh--------------cCCCccccCceeecccCC
Confidence 378899999999999999999999999999999999999985433100 011122234568999999
Q ss_pred CCcccccCCCCCccchhhHHHHhcc-----CCCCccccccc
Q 032728 98 NCTKMVLPNCGHSLCVNCFHDWNAR-----SQSCLFAVAAY 133 (135)
Q Consensus 98 ~~~~~~l~~CgH~FC~~Ci~~~~~~-----~~~CP~CR~~i 133 (135)
...+++.+.|.|.||..|+.++... ..+||.|...+
T Consensus 545 ~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 545 PAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred hhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 9999999999999999999887642 46999997654
No 10
>PHA02926 zinc finger-like protein; Provisional
Probab=99.14 E-value=2.1e-11 Score=92.26 Aligned_cols=48 Identities=29% Similarity=0.820 Sum_probs=38.1
Q ss_pred CCCCcccccccCCc---------ccccCCCCCccchhhHHHHhccC------CCCcccccccc
Q 032728 87 DRNDECGICMENCT---------KMVLPNCGHSLCVNCFHDWNARS------QSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~---------~~~l~~CgH~FC~~Ci~~~~~~~------~~CP~CR~~i~ 134 (135)
..+.+|+||++... ..++++|+|.||..||..|.... .+||+||..+.
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 44679999997631 25788899999999999998742 46999998764
No 11
>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=99.13 E-value=2.8e-11 Score=77.39 Aligned_cols=40 Identities=28% Similarity=0.771 Sum_probs=32.2
Q ss_pred cccccccCCc-------------ccccCCCCCccchhhHHHHhccCCCCcccc
Q 032728 91 ECGICMENCT-------------KMVLPNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 91 ~C~IC~~~~~-------------~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
.|+||++.+. +..+..|||.||..||.+|++.+.+||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 5999996541 134457999999999999999999999998
No 12
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=1e-10 Score=94.24 Aligned_cols=46 Identities=35% Similarity=0.860 Sum_probs=37.8
Q ss_pred CCCCcccccccC-C-------------cccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 87 DRNDECGICMEN-C-------------TKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 87 ~~~~~C~IC~~~-~-------------~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
.++..|.||||. + +|..+| |||.+|..|++.|++++.+||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 346689999954 2 224555 999999999999999999999999884
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.07 E-value=8.8e-11 Score=66.53 Aligned_cols=43 Identities=33% Similarity=0.870 Sum_probs=35.5
Q ss_pred cccccccCC-cccccCCCCCccchhhHHHHhcc-CCCCccccccc
Q 032728 91 ECGICMENC-TKMVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAAY 133 (135)
Q Consensus 91 ~C~IC~~~~-~~~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i 133 (135)
.|+||++.. .+..+++|||.||..|+..|+.. ...||.||..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 489999776 44455669999999999999987 77899999764
No 14
>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=99.06 E-value=8.5e-11 Score=66.65 Aligned_cols=38 Identities=39% Similarity=0.961 Sum_probs=33.2
Q ss_pred ccccccCCcccc-cCCCCCccchhhHHHHhc--cCCCCccc
Q 032728 92 CGICMENCTKMV-LPNCGHSLCVNCFHDWNA--RSQSCLFA 129 (135)
Q Consensus 92 C~IC~~~~~~~~-l~~CgH~FC~~Ci~~~~~--~~~~CP~C 129 (135)
|+||++....+. +++|||.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 799998877766 777999999999999988 46789987
No 15
>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=99.05 E-value=1.5e-10 Score=71.11 Aligned_cols=45 Identities=13% Similarity=0.152 Sum_probs=40.6
Q ss_pred CcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 90 DECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
..|+||.+...+|+..+|||+||..||.+|+.....||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 479999999888888889999999999999988889999998774
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.7e-10 Score=84.60 Aligned_cols=46 Identities=24% Similarity=0.629 Sum_probs=39.0
Q ss_pred CCcccccccCCcc--cccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 89 NDECGICMENCTK--MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~~--~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
-..|||||+.... ++.++|||.||..||+..++....||.||..|.
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3589999977544 456889999999999999999999999997653
No 17
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.99 E-value=2.8e-10 Score=93.23 Aligned_cols=50 Identities=26% Similarity=0.550 Sum_probs=43.9
Q ss_pred CCCCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 85 DLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 85 ~~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
++++...|+||++.+..+++++|||.||..||..|+.....||.||..+.
T Consensus 22 ~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 45667799999999888888889999999999999988789999998764
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.94 E-value=5.6e-10 Score=73.01 Aligned_cols=46 Identities=24% Similarity=0.712 Sum_probs=35.1
Q ss_pred CCcccccccCCc-------------ccccCCCCCccchhhHHHHhcc---CCCCcccccccc
Q 032728 89 NDECGICMENCT-------------KMVLPNCGHSLCVNCFHDWNAR---SQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~-------------~~~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR~~i~ 134 (135)
++.|+||+..+. +.+...|+|.||..||.+|++. +..||+||++.+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 557888874322 2355579999999999999975 468999998764
No 19
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.91 E-value=8.3e-10 Score=60.37 Aligned_cols=38 Identities=32% Similarity=0.934 Sum_probs=32.8
Q ss_pred ccccccCCcccccCCCCCccchhhHHHHhc-cCCCCccc
Q 032728 92 CGICMENCTKMVLPNCGHSLCVNCFHDWNA-RSQSCLFA 129 (135)
Q Consensus 92 C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~-~~~~CP~C 129 (135)
|+||++....++..+|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789998877777777999999999999987 56689987
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.91 E-value=8.9e-10 Score=63.68 Aligned_cols=41 Identities=29% Similarity=0.797 Sum_probs=33.8
Q ss_pred cccccccCC---cccccCCCCCccchhhHHHHhccCCCCccccc
Q 032728 91 ECGICMENC---TKMVLPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 91 ~C~IC~~~~---~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
.|+||.+.. .++.+++|||+||..|+..+......||+||.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 489999655 34667779999999999998866789999984
No 21
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.3e-09 Score=90.76 Aligned_cols=45 Identities=29% Similarity=0.612 Sum_probs=39.1
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhcc-----CCCCccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNAR-----SQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~-----~~~CP~CR~~i 133 (135)
+..||||++...-++.++|||.||..||.+++.. ...||+||..|
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 5689999999888888899999999999997754 35899999876
No 22
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.82 E-value=7.3e-10 Score=88.43 Aligned_cols=49 Identities=24% Similarity=0.592 Sum_probs=43.5
Q ss_pred CCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccccC
Q 032728 87 DRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
++-..|.||.+++..+++++|||.||..||..++..+..||.|+.++++
T Consensus 21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 3445899999999888888899999999999999999999999988753
No 23
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=3.1e-09 Score=85.54 Aligned_cols=44 Identities=36% Similarity=0.890 Sum_probs=36.1
Q ss_pred CcccccccCCcc----cccCCCCCccchhhHHHHhccC-CCCcccccccc
Q 032728 90 DECGICMENCTK----MVLPNCGHSLCVNCFHDWNARS-QSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~-~~CP~CR~~i~ 134 (135)
..|.||+|.+.+ .+|| |+|.||..||.+|+... ..||+|+..+.
T Consensus 230 ~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 389999976443 4666 99999999999999875 56999998765
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=3.6e-09 Score=81.79 Aligned_cols=47 Identities=23% Similarity=0.585 Sum_probs=39.9
Q ss_pred CCCCcccccccCCcccccCCCCCccchhhHHH-HhccCC-CCccccccc
Q 032728 87 DRNDECGICMENCTKMVLPNCGHSLCVNCFHD-WNARSQ-SCLFAVAAY 133 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~-~~~~~~-~CP~CR~~i 133 (135)
+.+..|.||++....++.++|||.||..||.. |-.++. .||+||+..
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 55678999999888887778999999999998 877655 499999864
No 25
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.75 E-value=2.7e-09 Score=83.79 Aligned_cols=47 Identities=19% Similarity=0.369 Sum_probs=42.5
Q ss_pred CCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 88 RNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.-..|-||.+....++.+.|||.||..||..++..+..||+||.+..
T Consensus 24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 34589999999999988889999999999999999999999998753
No 26
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1.1e-08 Score=80.62 Aligned_cols=44 Identities=41% Similarity=0.806 Sum_probs=36.8
Q ss_pred CcccccccCCcc----cccCCCCCccchhhHHHHhc-cCCCCcccccccc
Q 032728 90 DECGICMENCTK----MVLPNCGHSLCVNCFHDWNA-RSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~-~~~~CP~CR~~i~ 134 (135)
.+|.|||+.+.. +++| |.|.||..|+.+|+. .+..||+||.++.
T Consensus 324 veCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCC
Confidence 589999966433 4555 999999999999997 5789999999875
No 27
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=7.2e-09 Score=62.19 Aligned_cols=45 Identities=36% Similarity=0.671 Sum_probs=38.3
Q ss_pred CcccccccCCcccccCCCCC-ccchhhHHH-HhccCCCCcccccccc
Q 032728 90 DECGICMENCTKMVLPNCGH-SLCVNCFHD-WNARSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~-~~~~~~~CP~CR~~i~ 134 (135)
++|.||+|...+.++-.||| .+|+.|-.+ |...+..||+||++++
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 68999999988888877999 599999876 4446889999999875
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.60 E-value=1.8e-08 Score=58.08 Aligned_cols=35 Identities=46% Similarity=1.042 Sum_probs=20.0
Q ss_pred ccccccCCc----ccccCCCCCccchhhHHHHhccC----CCCc
Q 032728 92 CGICMENCT----KMVLPNCGHSLCVNCFHDWNARS----QSCL 127 (135)
Q Consensus 92 C~IC~~~~~----~~~l~~CgH~FC~~Ci~~~~~~~----~~CP 127 (135)
|+||.+... +.+++ |||+||.+|+.++.+.+ ..||
T Consensus 1 CpIc~e~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCccccccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899998433 34555 99999999999998743 3566
No 29
>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=98.58 E-value=2.7e-08 Score=63.46 Aligned_cols=47 Identities=17% Similarity=0.208 Sum_probs=37.6
Q ss_pred CCCcccccccCCcccccCCCCCccchhhHHHHhcc-CCCCcccccccc
Q 032728 88 RNDECGICMENCTKMVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAAYR 134 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i~ 134 (135)
++..|+|+.+.+.+|+..++||+|++.+|.+|+.. ...||+++.++.
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 35689999999999888889999999999999998 889999988764
No 30
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=2.7e-08 Score=75.58 Aligned_cols=46 Identities=30% Similarity=0.615 Sum_probs=38.9
Q ss_pred CCCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccc
Q 032728 86 LDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
.+++..|+||++.+..+.+.+|||+||..|+..++.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 3566799999999887777779999999999998775679999993
No 31
>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=98.54 E-value=6.9e-08 Score=76.72 Aligned_cols=47 Identities=26% Similarity=0.503 Sum_probs=34.4
Q ss_pred CCccccccc--CCccc---ccCCCCCccchhhHHHHh-ccCCCCccccccccC
Q 032728 89 NDECGICME--NCTKM---VLPNCGHSLCVNCFHDWN-ARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~--~~~~~---~l~~CgH~FC~~Ci~~~~-~~~~~CP~CR~~i~~ 135 (135)
+..||+|.. +..+- ....|||.||.+|+...+ ..+..||.|+..+++
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 457999995 33331 122599999999999955 446789999988753
No 32
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=2.6e-08 Score=84.81 Aligned_cols=44 Identities=32% Similarity=0.755 Sum_probs=37.3
Q ss_pred CCcccccccCCc------ccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 89 NDECGICMENCT------KMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~------~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
+..|+||+|... ++.++ |||.||..|+..|+++..+||.||..+
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred CCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 568999996643 35556 999999999999999999999999843
No 33
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=2.7e-08 Score=80.24 Aligned_cols=48 Identities=44% Similarity=1.063 Sum_probs=38.4
Q ss_pred CCCCcccccccCCccc--------ccCCCCCccchhhHHHHh--cc-----CCCCcccccccc
Q 032728 87 DRNDECGICMENCTKM--------VLPNCGHSLCVNCFHDWN--AR-----SQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~--------~l~~CgH~FC~~Ci~~~~--~~-----~~~CP~CR~~i~ 134 (135)
..+..|.|||+..... ++|+|.|.||..||..|. .+ +++||.||...+
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 4467999999774443 458999999999999998 33 479999998754
No 34
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=98.49 E-value=4.7e-08 Score=85.00 Aligned_cols=113 Identities=17% Similarity=0.297 Sum_probs=78.4
Q ss_pred EeecCccccchHHHHHHHHHHHHhHhHHHHHHHhhhchhhhhhhhcchhhhhhhhHHHHHhhcCccCCCCCCcccccccC
Q 032728 19 VYVDGMPALSSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRVEERRKLSDKDLDRNDECGICMEN 98 (135)
Q Consensus 19 ~~~~~~~~~~~~~~~~si~~~y~~i~~~l~~l~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~C~IC~~~ 98 (135)
.+.+++..+..+...+++...|+.++-.++++++.+.|+.+.........-.........+........ ..|.+|++
T Consensus 386 l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~~i~~l~~~--~~c~ic~~- 462 (674)
T KOG1001|consen 386 LKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIRLIVDLSVS--HWCHICCD- 462 (674)
T ss_pred HhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchHHHHHHHHHhhc--cccccccc-
Confidence 556888888999999999999999999999999999998755433222221111111111111111111 68999999
Q ss_pred CcccccCCCCCccchhhHHHHhcc--CCCCcccccccc
Q 032728 99 CTKMVLPNCGHSLCVNCFHDWNAR--SQSCLFAVAAYR 134 (135)
Q Consensus 99 ~~~~~l~~CgH~FC~~Ci~~~~~~--~~~CP~CR~~i~ 134 (135)
...++.+.|||.||..|+.+.... ...||.||..+.
T Consensus 463 ~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 463 LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 556666679999999999987654 347999998654
No 35
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.43 E-value=6.2e-08 Score=60.09 Aligned_cols=43 Identities=26% Similarity=0.586 Sum_probs=23.1
Q ss_pred CCcccccccCCcccc-cCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 89 NDECGICMENCTKMV-LPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~-l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
...|++|.+....|+ +.+|.|.||..|+.+-+. ..||+|+.+-
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 347999999988775 688999999999987543 4699998763
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3e-07 Score=73.86 Aligned_cols=49 Identities=24% Similarity=0.628 Sum_probs=40.3
Q ss_pred CCCCcccccccCCcccccCCCCC-ccchhhHHHHhccCCCCccccccccC
Q 032728 87 DRNDECGICMENCTKMVLPNCGH-SLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
+...+|.||+....+.++.+|.| ..|..|.+...-+++.||+||.++.+
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 33569999997776665555999 59999999888778999999999863
No 37
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=4.6e-07 Score=74.50 Aligned_cols=50 Identities=24% Similarity=0.570 Sum_probs=44.0
Q ss_pred CCCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccccC
Q 032728 86 LDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
...+..|.||+....+++.++|||.||..||.+-+.+...||.||.++.+
T Consensus 81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 35677999999998888888899999999999988888999999998753
No 38
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2.1e-07 Score=80.57 Aligned_cols=44 Identities=27% Similarity=0.710 Sum_probs=39.3
Q ss_pred CcccccccCCcccccCCCCCccchhhHHHHhc-cCCCCccccccc
Q 032728 90 DECGICMENCTKMVLPNCGHSLCVNCFHDWNA-RSQSCLFAVAAY 133 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~-~~~~CP~CR~~i 133 (135)
..||.|-+.+++.++++|||.||..|+..-.. ++..||.|.++|
T Consensus 644 LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred eeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 48999999999999999999999999997554 578999999887
No 39
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=5.6e-07 Score=70.96 Aligned_cols=46 Identities=22% Similarity=0.418 Sum_probs=36.7
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhc-cCCCCcccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNA-RSQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~-~~~~CP~CR~~i~ 134 (135)
..+|+||+....-|+.+.|+|.||+-||+.-.. ...+||+||.+|.
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 347999997765566667999999999996443 4567999999985
No 40
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.01 E-value=2.2e-06 Score=70.16 Aligned_cols=44 Identities=34% Similarity=0.874 Sum_probs=38.5
Q ss_pred cccccccCCcccccCCCCCccchhhHHHHhcc--CCCCcccccccc
Q 032728 91 ECGICMENCTKMVLPNCGHSLCVNCFHDWNAR--SQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~--~~~CP~CR~~i~ 134 (135)
.|-||.+..++.-..+|||..|..|+..|... +.+||+||..|+
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 79999999888766669999999999999854 679999998875
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.00 E-value=3.1e-06 Score=69.89 Aligned_cols=43 Identities=23% Similarity=0.602 Sum_probs=33.5
Q ss_pred CCCcccccccCCcc----cccCCCCCccchhhHHHHhccCCCCcccccc
Q 032728 88 RNDECGICMENCTK----MVLPNCGHSLCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 88 ~~~~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
+--.||||++...+ .+...|.|+|+..|+.+|.. .+||+||--
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~ 220 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYC 220 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhh
Confidence 34489999976543 23346999999999999987 599999853
No 42
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.93 E-value=1.7e-06 Score=54.84 Aligned_cols=46 Identities=28% Similarity=0.706 Sum_probs=22.5
Q ss_pred CCcccccccCCc-c---c--cc--CCCCCccchhhHHHHhcc---C--------CCCcccccccc
Q 032728 89 NDECGICMENCT-K---M--VL--PNCGHSLCVNCFHDWNAR---S--------QSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~-~---~--~l--~~CgH~FC~~Ci~~~~~~---~--------~~CP~CR~~i~ 134 (135)
+.+|+||+.... + + +- +.|++.||..||.+|+.. + ..||.|+++|.
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 357999996532 1 1 11 379999999999999852 1 26999998874
No 43
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=4.2e-06 Score=69.97 Aligned_cols=48 Identities=23% Similarity=0.589 Sum_probs=36.8
Q ss_pred CCCCcccccccCC------c-----------ccccCCCCCccchhhHHHHhcc-CCCCcccccccc
Q 032728 87 DRNDECGICMENC------T-----------KMVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~------~-----------~~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i~ 134 (135)
++...|+|||... . ...+++|.|.||..|+.+|.+. +..||+||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4456899999431 1 1344569999999999999984 569999999875
No 44
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.84 E-value=8.9e-06 Score=66.94 Aligned_cols=48 Identities=31% Similarity=0.626 Sum_probs=41.7
Q ss_pred CCCCCcccccccCCccccc-CCCCCccchhhHHHHhccCCCCccccccc
Q 032728 86 LDRNDECGICMENCTKMVL-PNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~~~l-~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
.+++..|++|+....+++. +.|||.||..|+..|...+..||.|+..+
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCccccccc
Confidence 4566799999988877777 37999999999999999899999998765
No 45
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.79 E-value=1e-05 Score=72.15 Aligned_cols=48 Identities=19% Similarity=0.525 Sum_probs=36.0
Q ss_pred CCCCcccccccCC-------cccccCCCCCccchhhHHHHhcc--CCCCcccccccc
Q 032728 87 DRNDECGICMENC-------TKMVLPNCGHSLCVNCFHDWNAR--SQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~-------~~~~l~~CgH~FC~~Ci~~~~~~--~~~CP~CR~~i~ 134 (135)
+...+|+||+... ....-+.|.|.||..|+.+|+.. +.+||+||..|.
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 4456899998331 11233459999999999999976 568999998874
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=2.2e-06 Score=68.92 Aligned_cols=47 Identities=23% Similarity=0.482 Sum_probs=37.3
Q ss_pred CCCCcccccccCCcc-cccCCCCCccchhhHHHHhcc-CCCCccccccc
Q 032728 87 DRNDECGICMENCTK-MVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAAY 133 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~-~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i 133 (135)
..+..|+||+++.+. +..+.|+|.||..||..-+.. .+.||-||..+
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 345689999988654 556789999999999876554 67999999764
No 47
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.75 E-value=1.4e-05 Score=60.11 Aligned_cols=44 Identities=30% Similarity=0.597 Sum_probs=35.9
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
...|.||-.....|+.+.|||.||..|...-......|-+|.+.
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 45899999666666667799999999998766778899999653
No 48
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.68 E-value=2.4e-05 Score=50.50 Aligned_cols=31 Identities=19% Similarity=0.529 Sum_probs=27.4
Q ss_pred ccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 103 VLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 103 ~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
+--.|.|.||..||.+|+.....||++|...
T Consensus 50 ~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 50 VWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred EEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 3346999999999999999999999999865
No 49
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=3.6e-05 Score=62.32 Aligned_cols=48 Identities=21% Similarity=0.566 Sum_probs=42.2
Q ss_pred CCCCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 86 LDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
..++..|+||...+...+..+|||.-|+.||.+.+.+.+.|-+|+..+
T Consensus 419 ~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred CcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence 346779999998888888888999999999999999999999998765
No 50
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=2e-05 Score=64.25 Aligned_cols=41 Identities=27% Similarity=0.730 Sum_probs=31.9
Q ss_pred CcccccccCCcc-----cccCCCCCccchhhHHHHhcc--C-CCCccccc
Q 032728 90 DECGICMENCTK-----MVLPNCGHSLCVNCFHDWNAR--S-QSCLFAVA 131 (135)
Q Consensus 90 ~~C~IC~~~~~~-----~~l~~CgH~FC~~Ci~~~~~~--~-~~CP~CR~ 131 (135)
+.|.||.+.... ++-+ |||+||..|+.+|++. + ..||.|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~-cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGT-CGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccc-hhhHHHHHHHHHHHccCCccCCCCceee
Confidence 479999765322 4445 9999999999999986 3 48999983
No 51
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.64 E-value=3e-05 Score=45.74 Aligned_cols=39 Identities=23% Similarity=0.695 Sum_probs=28.7
Q ss_pred ccccccc---CCcccccCCCC-----CccchhhHHHHhcc--CCCCcccc
Q 032728 91 ECGICME---NCTKMVLPNCG-----HSLCVNCFHDWNAR--SQSCLFAV 130 (135)
Q Consensus 91 ~C~IC~~---~~~~~~l~~Cg-----H~FC~~Ci~~~~~~--~~~CP~CR 130 (135)
.|-||++ ...+.+.| |. |.+|.+|+.+|+.. ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3789996 23334444 84 88999999999965 45899995
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=5.7e-05 Score=59.14 Aligned_cols=49 Identities=27% Similarity=0.490 Sum_probs=37.2
Q ss_pred CCCCCcccccccCCccc-ccCCCCCccchhhHHHHhc--cCCCCcccccccc
Q 032728 86 LDRNDECGICMENCTKM-VLPNCGHSLCVNCFHDWNA--RSQSCLFAVAAYR 134 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~~-~l~~CgH~FC~~Ci~~~~~--~~~~CP~CR~~i~ 134 (135)
...+.+|++|-+....| +..+|||.||+.|+..-.. -+..||.|..+..
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 45677999999776554 4445999999999987443 3679999987653
No 53
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=3.1e-05 Score=61.12 Aligned_cols=45 Identities=22% Similarity=0.489 Sum_probs=39.6
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
.+.|.||...+..++.+.|||.||..|...-++.+..|++|..+.
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCCcceeccccc
Confidence 346999999999999999999999999998888889999997653
No 54
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=1.9e-05 Score=50.60 Aligned_cols=31 Identities=19% Similarity=0.548 Sum_probs=25.9
Q ss_pred ccCCCCCccchhhHHHHhcc---CCCCccccccc
Q 032728 103 VLPNCGHSLCVNCFHDWNAR---SQSCLFAVAAY 133 (135)
Q Consensus 103 ~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR~~i 133 (135)
++-.|.|.|+..||.+|+.. +..||+||..+
T Consensus 47 v~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 47 VWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred HHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 44569999999999999864 46899999865
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.44 E-value=6.4e-05 Score=45.74 Aligned_cols=40 Identities=23% Similarity=0.473 Sum_probs=27.4
Q ss_pred CCcccccccCCccccc-CCCCCccchhhHHHHhcc--CCCCcc
Q 032728 89 NDECGICMENCTKMVL-PNCGHSLCVNCFHDWNAR--SQSCLF 128 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l-~~CgH~FC~~Ci~~~~~~--~~~CP~ 128 (135)
...|||.+..+.+|+. ..|||.|....|.+|+.+ ...||+
T Consensus 11 ~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4589999988777655 589999999999999943 568998
No 56
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=3.6e-05 Score=60.80 Aligned_cols=43 Identities=26% Similarity=0.589 Sum_probs=35.2
Q ss_pred CCcccccccCCcccccCCCCC-ccchhhHHHHhccCCCCccccccccC
Q 032728 89 NDECGICMENCTKMVLPNCGH-SLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
+..|.||||...+-++..||| .-|..|=.. ...||+||..+.|
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHHHH
Confidence 568999999999988888999 578888554 3589999987654
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.30 E-value=5.4e-05 Score=60.48 Aligned_cols=48 Identities=17% Similarity=0.450 Sum_probs=39.7
Q ss_pred CCCCcccccccCCccc-ccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 87 DRNDECGICMENCTKM-VLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~-~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.....|.+|..++.++ ..+.|=|+||.+||.+++.....||.|...+.
T Consensus 13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 3455899999887765 34679999999999999999999999987653
No 58
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.09 E-value=0.00015 Score=63.81 Aligned_cols=45 Identities=20% Similarity=0.615 Sum_probs=33.7
Q ss_pred CcccccccC----CcccccCCCCCccchhhHHHHhccCCCCccccccccC
Q 032728 90 DECGICMEN----CTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 90 ~~C~IC~~~----~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
..|++|+.. ....-. .|+|.||..|+..|.....+||+||..|.+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 367777732 222223 499999999999999888999999987753
No 59
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.05 E-value=0.00034 Score=42.13 Aligned_cols=44 Identities=32% Similarity=0.647 Sum_probs=31.8
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
+..|..|.......++.+|||..|..|..-+ +-+.||+|..++.
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh--hccCCCCCCCccc
Confidence 3467777766444444449999999997654 3479999988875
No 60
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00019 Score=56.25 Aligned_cols=46 Identities=17% Similarity=0.556 Sum_probs=32.9
Q ss_pred CCCcccccccCCc----------ccccCCCCCccchhhHHHHhc--cCCCCccccccc
Q 032728 88 RNDECGICMENCT----------KMVLPNCGHSLCVNCFHDWNA--RSQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~----------~~~l~~CgH~FC~~Ci~~~~~--~~~~CP~CR~~i 133 (135)
++..|.||-.... ..-...|+|+||..||+.|.- +..+||-|+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 4558999963321 112235999999999999974 467999998755
No 61
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00038 Score=47.08 Aligned_cols=28 Identities=18% Similarity=0.567 Sum_probs=25.3
Q ss_pred CCCCCccchhhHHHHhccCCCCcccccc
Q 032728 105 PNCGHSLCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
..|.|.||..||.+|++....||+|..+
T Consensus 79 G~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 79 GVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 4699999999999999999999999653
No 62
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.0005 Score=55.64 Aligned_cols=44 Identities=25% Similarity=0.560 Sum_probs=32.1
Q ss_pred CCCcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 88 RNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
....|.||.+.+...+..+|||..| |..-. ++-..||+||..|+
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3458999998888777777999866 55432 22345999998774
No 63
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.001 Score=54.79 Aligned_cols=43 Identities=26% Similarity=0.767 Sum_probs=33.3
Q ss_pred CCcccccccCCc-----ccccCCCCCccchhhHHHHhcc--CCCCccccc
Q 032728 89 NDECGICMENCT-----KMVLPNCGHSLCVNCFHDWNAR--SQSCLFAVA 131 (135)
Q Consensus 89 ~~~C~IC~~~~~-----~~~l~~CgH~FC~~Ci~~~~~~--~~~CP~CR~ 131 (135)
...||||++... ..+.+.|||.|-.+||++|+-+ ...||.|..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 458999996522 2466779999999999999953 358999964
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.63 E-value=0.0021 Score=37.77 Aligned_cols=42 Identities=29% Similarity=0.729 Sum_probs=20.5
Q ss_pred ccccccCCc--cc-ccC-CCCCccchhhHHHHhcc-CCCCccccccc
Q 032728 92 CGICMENCT--KM-VLP-NCGHSLCVNCFHDWNAR-SQSCLFAVAAY 133 (135)
Q Consensus 92 C~IC~~~~~--~~-~l~-~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i 133 (135)
|++|.+... +. ..| +||+..|..|.....+. ...||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 677875432 21 122 48999999999998864 78999999875
No 65
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.52 E-value=0.0014 Score=52.23 Aligned_cols=42 Identities=21% Similarity=0.548 Sum_probs=35.4
Q ss_pred CCCcccccccCCcccccCCC--CCccchhhHHHHhccCCCCccccccc
Q 032728 88 RNDECGICMENCTKMVLPNC--GHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~C--gH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
+-.+||||.+...+|+.. | ||.-|.+|-.+ .+..||.||.++
T Consensus 47 ~lleCPvC~~~l~~Pi~Q-C~nGHlaCssC~~~---~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQ-CDNGHLACSSCRTK---VSNKCPTCRLPI 90 (299)
T ss_pred hhccCchhhccCccccee-cCCCcEehhhhhhh---hcccCCcccccc
Confidence 345899999999999887 8 89999999764 356999999876
No 66
>PHA03096 p28-like protein; Provisional
Probab=96.48 E-value=0.0013 Score=52.17 Aligned_cols=41 Identities=24% Similarity=0.503 Sum_probs=29.9
Q ss_pred CcccccccCCc--------ccccCCCCCccchhhHHHHhcc---CCCCcccc
Q 032728 90 DECGICMENCT--------KMVLPNCGHSLCVNCFHDWNAR---SQSCLFAV 130 (135)
Q Consensus 90 ~~C~IC~~~~~--------~~~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR 130 (135)
..|.||++... -.++++|.|.||..|+..|... ...||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 57999996521 1477899999999999999754 23444444
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.46 E-value=0.0021 Score=52.23 Aligned_cols=48 Identities=23% Similarity=0.463 Sum_probs=37.5
Q ss_pred CCCCCCcccccccCCcccccCCCCCccchhhHHHH--hccCCCCcccccc
Q 032728 85 DLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDW--NARSQSCLFAVAA 132 (135)
Q Consensus 85 ~~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~--~~~~~~CP~CR~~ 132 (135)
..+++..|.||.+..+-..+.+|+|..|--|-... +...+.||+||..
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34556689999977665555569999999998754 4568999999975
No 68
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.25 E-value=0.0013 Score=50.55 Aligned_cols=42 Identities=21% Similarity=0.601 Sum_probs=29.9
Q ss_pred cccccccC--CcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 91 ECGICMEN--CTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~--~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.|..|.-. ..+--++.|+|+||..|...-. ...||+|+.+++
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceee
Confidence 57777733 3344567899999999976432 238999998764
No 69
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0037 Score=50.21 Aligned_cols=41 Identities=20% Similarity=0.554 Sum_probs=33.8
Q ss_pred CCCcccccccC-CcccccCCCCCccchhhHHHHhccCCCCcc
Q 032728 88 RNDECGICMEN-CTKMVLPNCGHSLCVNCFHDWNARSQSCLF 128 (135)
Q Consensus 88 ~~~~C~IC~~~-~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~ 128 (135)
+...|++|+.. ..|.++.--|.+||+.|+..+....+.||+
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPV 340 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPV 340 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCc
Confidence 34589999954 455566657999999999999998999998
No 70
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.10 E-value=0.0035 Score=58.91 Aligned_cols=49 Identities=20% Similarity=0.460 Sum_probs=37.4
Q ss_pred CCCCCcccccccC---CcccccCCCCCccchhhHHHHhccC----------CCCcccccccc
Q 032728 86 LDRNDECGICMEN---CTKMVLPNCGHSLCVNCFHDWNARS----------QSCLFAVAAYR 134 (135)
Q Consensus 86 ~~~~~~C~IC~~~---~~~~~l~~CgH~FC~~Ci~~~~~~~----------~~CP~CR~~i~ 134 (135)
.+.++.|-||... ..|.+..+|+|.||..|....+++. -+||+|..+|.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456789999943 3456777899999999998766542 28999998764
No 71
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.06 E-value=0.004 Score=48.98 Aligned_cols=41 Identities=37% Similarity=0.797 Sum_probs=31.1
Q ss_pred cccccccCC-------cccccCCCCCccchhhHHHHhcc-CCCCcccccc
Q 032728 91 ECGICMENC-------TKMVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAA 132 (135)
Q Consensus 91 ~C~IC~~~~-------~~~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~ 132 (135)
.|.||-+.+ .|.++ .|||.+|..|+.+.... ...||+||.+
T Consensus 5 ~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 5 ECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred ceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCc
Confidence 688887432 23444 49999999999998765 4589999987
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.65 E-value=0.0057 Score=50.53 Aligned_cols=33 Identities=27% Similarity=0.716 Sum_probs=25.6
Q ss_pred CCcccccccCCcc---cccCCCCCccchhhHHHHhc
Q 032728 89 NDECGICMENCTK---MVLPNCGHSLCVNCFHDWNA 121 (135)
Q Consensus 89 ~~~C~IC~~~~~~---~~l~~CgH~FC~~Ci~~~~~ 121 (135)
...|.||++.... ....+|+|.||..|+..+..
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 3489999966433 45566999999999998864
No 73
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.65 E-value=0.015 Score=42.28 Aligned_cols=46 Identities=20% Similarity=0.529 Sum_probs=33.4
Q ss_pred CCCCcccccccCCcccccCCCC--C---ccchhhHHHHhcc--CCCCccccccc
Q 032728 87 DRNDECGICMENCTKMVLPNCG--H---SLCVNCFHDWNAR--SQSCLFAVAAY 133 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~Cg--H---~FC~~Ci~~~~~~--~~~CP~CR~~i 133 (135)
..+..|=||++...+...| |. . ..|.+|++.|... ...|+.|+.++
T Consensus 6 ~~~~~CRIC~~~~~~~~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 6 LMDKCCWICKDEYDVVTNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCeeEecCCCCCCccCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 3456899999765444444 64 3 3589999999975 46899998875
No 74
>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=95.64 E-value=0.023 Score=37.67 Aligned_cols=36 Identities=19% Similarity=0.566 Sum_probs=25.0
Q ss_pred CccCCCCCCcccccccCCcc--cccCCCCCccchhhHH
Q 032728 82 SDKDLDRNDECGICMENCTK--MVLPNCGHSLCVNCFH 117 (135)
Q Consensus 82 ~~~~~~~~~~C~IC~~~~~~--~~l~~CgH~FC~~Ci~ 117 (135)
.....+++..|++|...... -+.-+|||.||..|+.
T Consensus 71 ~~v~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 71 RSVVITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ceEEECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34455677789999965432 2333499999999974
No 75
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.56 E-value=0.003 Score=52.00 Aligned_cols=45 Identities=24% Similarity=0.583 Sum_probs=33.5
Q ss_pred CCCCCcccccccC--Ccc---cccCCCCCccchhhHHHHhcc--CCCCccccc
Q 032728 86 LDRNDECGICMEN--CTK---MVLPNCGHSLCVNCFHDWNAR--SQSCLFAVA 131 (135)
Q Consensus 86 ~~~~~~C~IC~~~--~~~---~~l~~CgH~FC~~Ci~~~~~~--~~~CP~CR~ 131 (135)
.+-+..|..|-+. .++ ..+| |.|+||..|+..++.+ ..+||-||.
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3445689999754 222 3455 9999999999998876 469999983
No 76
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.56 E-value=0.01 Score=43.09 Aligned_cols=34 Identities=29% Similarity=0.593 Sum_probs=23.8
Q ss_pred CCCcccccccCCcccccCCC------------CC-ccchhhHHHHhc
Q 032728 88 RNDECGICMENCTKMVLPNC------------GH-SLCVNCFHDWNA 121 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~C------------gH-~FC~~Ci~~~~~ 121 (135)
++..||||||.+-..||.-| +- .-+..|+.++.+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 35689999999888777544 22 134689988753
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.50 E-value=0.015 Score=45.42 Aligned_cols=47 Identities=13% Similarity=0.340 Sum_probs=35.7
Q ss_pred CCCCcccccccCCcc----cccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 87 DRNDECGICMENCTK----MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.....|||....+.. ..+-+|||+|+..++.+.. ....||+|-.++.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 445689999855433 3444699999999999974 4568999988875
No 78
>PHA02862 5L protein; Provisional
Probab=95.35 E-value=0.015 Score=41.77 Aligned_cols=43 Identities=26% Similarity=0.653 Sum_probs=32.7
Q ss_pred CcccccccCCcccccCCCCC-----ccchhhHHHHhcc--CCCCccccccc
Q 032728 90 DECGICMENCTKMVLPNCGH-----SLCVNCFHDWNAR--SQSCLFAVAAY 133 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH-----~FC~~Ci~~~~~~--~~~CP~CR~~i 133 (135)
..|=||++...+...| |+- ..|.+|+.+|+.. ...||+|+.++
T Consensus 3 diCWIC~~~~~e~~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDERNNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCCccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 4699999776555555 642 4789999999975 46899999865
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.17 E-value=0.016 Score=45.13 Aligned_cols=45 Identities=16% Similarity=0.238 Sum_probs=37.1
Q ss_pred CcccccccCCcc----cccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 90 DECGICMENCTK----MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
..|++|.+..+. .++.+|||+||..|.++....-..||+|-.+++
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 379999976554 466679999999999999888889999977654
No 80
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.00 E-value=0.032 Score=49.88 Aligned_cols=41 Identities=22% Similarity=0.498 Sum_probs=32.7
Q ss_pred Ccccccc-cCCcccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 90 DECGICM-ENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 90 ~~C~IC~-~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
..|..|- ...-|.|.-.|||.||..|+. .....||-|+...
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 4899998 456667776799999999988 4567999998643
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.78 E-value=0.016 Score=46.39 Aligned_cols=42 Identities=21% Similarity=0.479 Sum_probs=32.8
Q ss_pred CcccccccCCccccc-CCCCCccchhhHHHH-hccCCCCccccc
Q 032728 90 DECGICMENCTKMVL-PNCGHSLCVNCFHDW-NARSQSCLFAVA 131 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l-~~CgH~FC~~Ci~~~-~~~~~~CP~CR~ 131 (135)
..|+.|.-+...+.. +-|||.||..||..- ++.-..||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 589999977665544 478999999999864 455679999943
No 82
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.61 E-value=0.15 Score=36.23 Aligned_cols=45 Identities=24% Similarity=0.557 Sum_probs=34.2
Q ss_pred CCcccccccCCcc-----cccCCCCCccchhhHHHHhcc---CCCCcccccccc
Q 032728 89 NDECGICMENCTK-----MVLPNCGHSLCVNCFHDWNAR---SQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~~-----~~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR~~i~ 134 (135)
--+|.||.|...+ |-. -||...|..|....|+. .+.||+|+..++
T Consensus 80 lYeCnIC~etS~ee~FLKPne-CCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNE-CCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred ceeccCcccccchhhcCCccc-ccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 3489999976433 222 38999999999886654 578999999876
No 83
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.57 E-value=0.022 Score=46.26 Aligned_cols=46 Identities=22% Similarity=0.600 Sum_probs=32.5
Q ss_pred CCCcccccccCCcc--c-cc-CCCCCccchhhHHHHhcc-CCCCccccccc
Q 032728 88 RNDECGICMENCTK--M-VL-PNCGHSLCVNCFHDWNAR-SQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~~--~-~l-~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i 133 (135)
+++.||.|++.... . -. -+||...|+.|.....+. ...||-||...
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 34469999966322 1 11 248999999998876655 67999998754
No 84
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.43 E-value=0.033 Score=45.57 Aligned_cols=25 Identities=24% Similarity=0.630 Sum_probs=18.9
Q ss_pred CccchhhHHHHhcc-------------CCCCccccccc
Q 032728 109 HSLCVNCFHDWNAR-------------SQSCLFAVAAY 133 (135)
Q Consensus 109 H~FC~~Ci~~~~~~-------------~~~CP~CR~~i 133 (135)
..-|.+|+-+|+.. +..||.||+.|
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 34577999999852 23799999975
No 85
>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=94.35 E-value=0.026 Score=44.70 Aligned_cols=43 Identities=26% Similarity=0.590 Sum_probs=31.5
Q ss_pred ccccccc--CCcc----cccCCCCCccchhhHHHHhcc-CCCCcccccccc
Q 032728 91 ECGICME--NCTK----MVLPNCGHSLCVNCFHDWNAR-SQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~--~~~~----~~l~~CgH~FC~~Ci~~~~~~-~~~CP~CR~~i~ 134 (135)
.||+|.. +..+ .+. .|||..|.+|....+.. +..||.|-..++
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in-~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMIN-ECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeec-cccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 5889983 2222 344 59999999999998765 679999966553
No 86
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.34 E-value=0.055 Score=40.32 Aligned_cols=43 Identities=26% Similarity=0.602 Sum_probs=30.3
Q ss_pred cccccccCCcc-------cccCCCCCccchhhHHHHhcc------C-----CCCccccccc
Q 032728 91 ECGICMENCTK-------MVLPNCGHSLCVNCFHDWNAR------S-----QSCLFAVAAY 133 (135)
Q Consensus 91 ~C~IC~~~~~~-------~~l~~CgH~FC~~Ci~~~~~~------~-----~~CP~CR~~i 133 (135)
.|.||+.+.-+ --...||..||.-|+..|+.. + ..||.|..++
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 57777744211 122369999999999999853 1 3799998776
No 87
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.34 E-value=0.042 Score=46.13 Aligned_cols=36 Identities=19% Similarity=0.569 Sum_probs=29.2
Q ss_pred CCCCcccccccCCcccccCCCCCccchhhHHHHhcc
Q 032728 87 DRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNAR 122 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~ 122 (135)
+++..|+||-..+.+|+..+|||+.|..|....+.+
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 567789999988777766669999999999876543
No 88
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.14 E-value=0.15 Score=42.12 Aligned_cols=33 Identities=33% Similarity=0.937 Sum_probs=24.1
Q ss_pred CCcccccc-cCCcc---cccCCCCCccchhhHHHHhc
Q 032728 89 NDECGICM-ENCTK---MVLPNCGHSLCVNCFHDWNA 121 (135)
Q Consensus 89 ~~~C~IC~-~~~~~---~~l~~CgH~FC~~Ci~~~~~ 121 (135)
...|.||+ +.... .....|+|.||..|..++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 45899999 33222 22456999999999998876
No 89
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=92.50 E-value=0.03 Score=44.76 Aligned_cols=45 Identities=16% Similarity=0.512 Sum_probs=31.6
Q ss_pred CcccccccCC-c-c-cccCCCCCccchhhHHHHhcc-----------------------CCCCcccccccc
Q 032728 90 DECGICMENC-T-K-MVLPNCGHSLCVNCFHDWNAR-----------------------SQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~-~-~-~~l~~CgH~FC~~Ci~~~~~~-----------------------~~~CP~CR~~i~ 134 (135)
..|.||+--+ + + -..+.|-|-||..|+-.++.. ...||+||..|.
T Consensus 116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3799998432 2 2 344569999999999877531 126999998764
No 90
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.39 E-value=0.048 Score=41.39 Aligned_cols=40 Identities=25% Similarity=0.515 Sum_probs=30.7
Q ss_pred cccccccCCcccccCCCCC-ccchhhHHHHhccCCCCcccccccc
Q 032728 91 ECGICMENCTKMVLPNCGH-SLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.|-.|-+....+++.||.| .+|..|-.. -..||+|+.+..
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 3888887777777777999 699999654 347999998653
No 91
>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=92.36 E-value=0.064 Score=31.37 Aligned_cols=31 Identities=32% Similarity=0.638 Sum_probs=22.8
Q ss_pred cCCC-CCccchhhHHHHhccCCCCcccccccc
Q 032728 104 LPNC-GHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 104 l~~C-gH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
+..| .|-.|..|+...+..+..||+|..++.
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 3346 689999999999999999999988775
No 92
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.26 E-value=0.049 Score=43.74 Aligned_cols=28 Identities=18% Similarity=0.589 Sum_probs=21.9
Q ss_pred CCCCccchhhHHHHhccCCCCccccccccC
Q 032728 106 NCGHSLCVNCFHDWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 106 ~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~~ 135 (135)
+|.|+||.+|... ...+.||.|-..+.|
T Consensus 108 PCkHvFCl~CAr~--~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 108 PCKHVFCLECARS--DSDKICPLCDDRVQR 135 (389)
T ss_pred ccchhhhhhhhhc--CccccCcCcccHHHH
Confidence 4999999999874 335799999776654
No 93
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=91.80 E-value=0.036 Score=51.53 Aligned_cols=43 Identities=26% Similarity=0.606 Sum_probs=35.4
Q ss_pred CCcccccccCCc-ccccCCCCCccchhhHHHHhccCCCCccccc
Q 032728 89 NDECGICMENCT-KMVLPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 89 ~~~C~IC~~~~~-~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
...|.||.+... ......|||.+|..|...|+..+..||.|..
T Consensus 1153 ~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 448999997754 3334459999999999999999999999964
No 94
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=91.31 E-value=0.15 Score=29.56 Aligned_cols=38 Identities=21% Similarity=0.690 Sum_probs=22.5
Q ss_pred ccccccCCc--ccccCCCC-----CccchhhHHHHhcc--CCCCccc
Q 032728 92 CGICMENCT--KMVLPNCG-----HSLCVNCFHDWNAR--SQSCLFA 129 (135)
Q Consensus 92 C~IC~~~~~--~~~l~~Cg-----H~FC~~Ci~~~~~~--~~~CP~C 129 (135)
|-||++... ++...+|+ ...|..|+.+|+.. ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 568884422 22333363 25789999999874 5679887
No 95
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.94 E-value=0.19 Score=39.77 Aligned_cols=43 Identities=23% Similarity=0.548 Sum_probs=32.7
Q ss_pred CCcccccccC----CcccccCCCCCccchhhHHHHhccCCCCccccc
Q 032728 89 NDECGICMEN----CTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 89 ~~~C~IC~~~----~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
+..||||.+. ...+...+|||..+..|.......+-.||+|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3459999854 233444459999999999987766699999976
No 96
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=90.91 E-value=0.25 Score=28.12 Aligned_cols=38 Identities=24% Similarity=0.502 Sum_probs=20.0
Q ss_pred ccccccCCcccc---cCCCCCccchhhHHHHhccCC--CCccc
Q 032728 92 CGICMENCTKMV---LPNCGHSLCVNCFHDWNARSQ--SCLFA 129 (135)
Q Consensus 92 C~IC~~~~~~~~---l~~CgH~FC~~Ci~~~~~~~~--~CP~C 129 (135)
|.+|.+.....+ .+.|+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 556766644322 235888999999999887643 69987
No 97
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.84 E-value=0.077 Score=46.63 Aligned_cols=46 Identities=22% Similarity=0.504 Sum_probs=36.4
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhc--c-CCCCcccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNA--R-SQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~--~-~~~CP~CR~~i~ 134 (135)
..+|+||......+++..|-|.||..|+..-+. + ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 348999998877788888999999999986433 2 568999986653
No 98
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=88.87 E-value=0.19 Score=45.10 Aligned_cols=46 Identities=28% Similarity=0.606 Sum_probs=33.0
Q ss_pred CCCcccccccCCcc--ccc--CCCCCccchhhHHHHhcc-------CCCCccccccc
Q 032728 88 RNDECGICMENCTK--MVL--PNCGHSLCVNCFHDWNAR-------SQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~~--~~l--~~CgH~FC~~Ci~~~~~~-------~~~CP~CR~~i 133 (135)
+..+|-||.+.... ++. ..|=|+||..||.+|-.. .-.||-|+...
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 34589999976433 333 347899999999999743 24799998543
No 99
>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=88.87 E-value=0.077 Score=41.30 Aligned_cols=43 Identities=21% Similarity=0.610 Sum_probs=31.4
Q ss_pred CCcccccc-cC-Ccc----cccCCCCCccchhhHHHHhcc-CCCCc--cccc
Q 032728 89 NDECGICM-EN-CTK----MVLPNCGHSLCVNCFHDWNAR-SQSCL--FAVA 131 (135)
Q Consensus 89 ~~~C~IC~-~~-~~~----~~l~~CgH~FC~~Ci~~~~~~-~~~CP--~CR~ 131 (135)
+..||+|. +. ..| .+.|.|=|.+|.+|....+.. ...|| -|..
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 44899998 32 222 345679999999999998876 56899 5643
No 100
>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=88.84 E-value=0.12 Score=36.58 Aligned_cols=32 Identities=28% Similarity=0.766 Sum_probs=22.4
Q ss_pred CCcccccccCCc---ccccCCCC------CccchhhHHHHh
Q 032728 89 NDECGICMENCT---KMVLPNCG------HSLCVNCFHDWN 120 (135)
Q Consensus 89 ~~~C~IC~~~~~---~~~l~~Cg------H~FC~~Ci~~~~ 120 (135)
..+|.||++... ..+...|| |.||..|+.+|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 448999996532 23322365 789999999994
No 101
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.63 E-value=0.36 Score=37.34 Aligned_cols=46 Identities=17% Similarity=0.355 Sum_probs=32.9
Q ss_pred CCCcccccccCC--cccccCCCCCccchhhHHHHhcc--------CCCCccccccc
Q 032728 88 RNDECGICMENC--TKMVLPNCGHSLCVNCFHDWNAR--------SQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~--~~~~l~~CgH~FC~~Ci~~~~~~--------~~~CP~CR~~i 133 (135)
..-.|..|-... .+.+...|=|.||..|+.+|... ...||.|..+|
T Consensus 49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 344688887442 23344569999999999999753 24799998765
No 102
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.54 E-value=0.31 Score=40.82 Aligned_cols=36 Identities=28% Similarity=0.828 Sum_probs=29.0
Q ss_pred CCCCcccccccCCcc-cccCCCCCccchhhHHHHhcc
Q 032728 87 DRNDECGICMENCTK-MVLPNCGHSLCVNCFHDWNAR 122 (135)
Q Consensus 87 ~~~~~C~IC~~~~~~-~~l~~CgH~FC~~Ci~~~~~~ 122 (135)
.....|.||.+.... .+...|||.||..|+..++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 345689999977664 666789999999999998753
No 103
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.51 E-value=0.88 Score=41.19 Aligned_cols=33 Identities=30% Similarity=0.751 Sum_probs=24.2
Q ss_pred CCCCCcccccccCC--cc-cccCCCCCccchhhHHHH
Q 032728 86 LDRNDECGICMENC--TK-MVLPNCGHSLCVNCFHDW 119 (135)
Q Consensus 86 ~~~~~~C~IC~~~~--~~-~~l~~CgH~FC~~Ci~~~ 119 (135)
++....|.+|.-+. .+ .+.| |||.||.+|+.+.
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~-CgH~FH~~Cl~~~ 849 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFP-CGHCFHRDCLIRH 849 (911)
T ss_pred ecCccchHHhcchhhcCcceeee-ccchHHHHHHHHH
Confidence 35566899998542 22 3555 9999999999865
No 104
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.74 E-value=0.45 Score=39.31 Aligned_cols=42 Identities=14% Similarity=0.370 Sum_probs=30.1
Q ss_pred cccccccC---CcccccCCCCCccchhhHHHHhccC---CCCcccccc
Q 032728 91 ECGICMEN---CTKMVLPNCGHSLCVNCFHDWNARS---QSCLFAVAA 132 (135)
Q Consensus 91 ~C~IC~~~---~~~~~l~~CgH~FC~~Ci~~~~~~~---~~CP~CR~~ 132 (135)
.|||=.+. ..||....|||+.+..-+.+...+. ..||.|-..
T Consensus 336 ~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 336 ICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 78886533 3344444499999999999987653 589999543
No 105
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.74 E-value=0.5 Score=42.29 Aligned_cols=38 Identities=24% Similarity=0.610 Sum_probs=27.2
Q ss_pred cccccccC--CcccccCCCCCccchhhHHHHhccCCCCcc
Q 032728 91 ECGICMEN--CTKMVLPNCGHSLCVNCFHDWNARSQSCLF 128 (135)
Q Consensus 91 ~C~IC~~~--~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~ 128 (135)
.|.||.-. ..--+-..|||..|.+|...|+..+..||.
T Consensus 1030 ~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 46666511 112233459999999999999999888886
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.28 E-value=0.42 Score=37.54 Aligned_cols=47 Identities=23% Similarity=0.534 Sum_probs=33.3
Q ss_pred CCCCCcccccccCCcc-----cccCCC-----CCccchhhHHHHhcc--------CCCCccccccc
Q 032728 86 LDRNDECGICMENCTK-----MVLPNC-----GHSLCVNCFHDWNAR--------SQSCLFAVAAY 133 (135)
Q Consensus 86 ~~~~~~C~IC~~~~~~-----~~l~~C-----gH~FC~~Ci~~~~~~--------~~~CP~CR~~i 133 (135)
.+.+.-|-||+....+ -+.| | -|-.|.+|+..|.+. ..+||.|+...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 4556789999955433 2445 6 256899999999863 24799998753
No 107
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=84.43 E-value=1.1 Score=40.08 Aligned_cols=38 Identities=18% Similarity=0.437 Sum_probs=28.5
Q ss_pred cccccccCCcc--cccCCCCCccchhhHHHHhccCCCCcc
Q 032728 91 ECGICMENCTK--MVLPNCGHSLCVNCFHDWNARSQSCLF 128 (135)
Q Consensus 91 ~C~IC~~~~~~--~~l~~CgH~FC~~Ci~~~~~~~~~CP~ 128 (135)
.|.+|...... .--+.|||.-|.+|+.+|+.....||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 67888744332 222569999999999999998877776
No 108
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.19 E-value=0.97 Score=40.88 Aligned_cols=47 Identities=19% Similarity=0.504 Sum_probs=33.9
Q ss_pred CCCccccccc--CCcccccCCCCC-----ccchhhHHHHhccC--CCCcccccccc
Q 032728 88 RNDECGICME--NCTKMVLPNCGH-----SLCVNCFHDWNARS--QSCLFAVAAYR 134 (135)
Q Consensus 88 ~~~~C~IC~~--~~~~~~l~~CgH-----~FC~~Ci~~~~~~~--~~CP~CR~~i~ 134 (135)
|+..|-||.. ...+|..-+|.- -.|.+|+.+|...+ ..|-+|+.+++
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 4468999993 344555544743 37899999999864 58999988764
No 109
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.21 E-value=0.48 Score=41.64 Aligned_cols=36 Identities=31% Similarity=0.674 Sum_probs=25.4
Q ss_pred CcccccccCC----cccccCCCCCccchhhHHHHhccCCCCc
Q 032728 90 DECGICMENC----TKMVLPNCGHSLCVNCFHDWNARSQSCL 127 (135)
Q Consensus 90 ~~C~IC~~~~----~~~~l~~CgH~FC~~Ci~~~~~~~~~CP 127 (135)
..|+||...+ -.++.+.|||+.|..|++.... .+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 4699997432 2255566999999999987544 4666
No 110
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.38 E-value=0.82 Score=36.67 Aligned_cols=27 Identities=19% Similarity=0.445 Sum_probs=20.6
Q ss_pred CCCccchhhHHHHhc-------------cCCCCccccccc
Q 032728 107 CGHSLCVNCFHDWNA-------------RSQSCLFAVAAY 133 (135)
Q Consensus 107 CgH~FC~~Ci~~~~~-------------~~~~CP~CR~~i 133 (135)
|...-|.+|+-+|+. .+-.||.||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 456778899999874 234899999875
No 111
>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=81.36 E-value=0.14 Score=32.36 Aligned_cols=40 Identities=20% Similarity=0.444 Sum_probs=21.3
Q ss_pred CcccccccCCcccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 90 DECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
..||.|....... =||..|..|-..+ .....||.|..++.
T Consensus 2 ~~CP~C~~~L~~~----~~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ----GGHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE----TTEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe----CCEEECccccccc-eecccCCCcccHHH
Confidence 4799998553222 1788888887753 33568999988764
No 112
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.06 E-value=1.8 Score=34.00 Aligned_cols=36 Identities=14% Similarity=0.321 Sum_probs=29.8
Q ss_pred CCCCCCcccccccCCcccccCCCCCccchhhHHHHh
Q 032728 85 DLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWN 120 (135)
Q Consensus 85 ~~~~~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~ 120 (135)
.+.+-+-|+.|+.+..+|+.++=||.||..||.+++
T Consensus 39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 344455789999999888888799999999998864
No 113
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.09 E-value=6.9 Score=28.02 Aligned_cols=31 Identities=29% Similarity=0.890 Sum_probs=19.3
Q ss_pred cCCCCCCcccccc-cCCcccccCCCCCccchhhHHHH
Q 032728 84 KDLDRNDECGICM-ENCTKMVLPNCGHSLCVNCFHDW 119 (135)
Q Consensus 84 ~~~~~~~~C~IC~-~~~~~~~l~~CgH~FC~~Ci~~~ 119 (135)
...+++..|.||+ ..+.+ .|||. |..|-.+.
T Consensus 60 aGv~ddatC~IC~KTKFAD----G~GH~-C~YCq~r~ 91 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFAD----GCGHN-CSYCQTRF 91 (169)
T ss_pred cccCcCcchhhhhhccccc----ccCcc-cchhhhhH
Confidence 4557788999999 33433 48884 34454443
No 114
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.42 E-value=1.5 Score=39.60 Aligned_cols=28 Identities=18% Similarity=0.396 Sum_probs=21.8
Q ss_pred CCCCCccchhhHHHHhcc------CCCCcccccc
Q 032728 105 PNCGHSLCVNCFHDWNAR------SQSCLFAVAA 132 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~~~------~~~CP~CR~~ 132 (135)
.+|+|.||..||..|.++ .-.|++|.+-
T Consensus 119 ~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 119 QTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred hhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence 359999999999999864 2367887653
No 115
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=74.21 E-value=0.66 Score=27.60 Aligned_cols=16 Identities=44% Similarity=1.319 Sum_probs=13.7
Q ss_pred CCCCCccchhhHHHHh
Q 032728 105 PNCGHSLCVNCFHDWN 120 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~ 120 (135)
+.|||.||..|...|-
T Consensus 44 ~~C~~~fC~~C~~~~H 59 (64)
T smart00647 44 PKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCCeECCCCCCcCC
Confidence 4699999999988874
No 116
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=73.86 E-value=2.5 Score=25.03 Aligned_cols=26 Identities=19% Similarity=0.525 Sum_probs=15.4
Q ss_pred CCCCCccchhhHHHHhccCCCCcccc
Q 032728 105 PNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
+.|++.||.+|=.-.-+.-..||-|-
T Consensus 25 ~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCCccccCcChhhhccccCCcCCC
Confidence 67999999999654444446899884
No 117
>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=72.74 E-value=1.9 Score=26.88 Aligned_cols=12 Identities=33% Similarity=1.157 Sum_probs=8.5
Q ss_pred ccchhhHHHHhc
Q 032728 110 SLCVNCFHDWNA 121 (135)
Q Consensus 110 ~FC~~Ci~~~~~ 121 (135)
.||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999974
No 118
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=69.62 E-value=4.2 Score=32.98 Aligned_cols=45 Identities=27% Similarity=0.583 Sum_probs=34.4
Q ss_pred CcccccccCCc---cccc-CCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 90 DECGICMENCT---KMVL-PNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 90 ~~C~IC~~~~~---~~~l-~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
..|+||.+... ...+ .+|||..|..|+.........||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 47999997532 1222 358999999999988888899999997754
No 119
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.12 E-value=3.4 Score=31.68 Aligned_cols=41 Identities=15% Similarity=0.416 Sum_probs=32.5
Q ss_pred CcccccccCCcc-cccCCCCCccchhhHHHHhccCCCCcccc
Q 032728 90 DECGICMENCTK-MVLPNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 90 ~~C~IC~~~~~~-~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
..|.+|...... ..-.+||-.++..|+..++.+...||.|.
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchh
Confidence 489999977443 33345777899999999999989999993
No 120
>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=69.04 E-value=9.4 Score=26.07 Aligned_cols=45 Identities=18% Similarity=0.311 Sum_probs=26.8
Q ss_pred CCCCcccccccCC-----cccccCCCCCccchhhHHHHh-ccCCCCccccc
Q 032728 87 DRNDECGICMENC-----TKMVLPNCGHSLCVNCFHDWN-ARSQSCLFAVA 131 (135)
Q Consensus 87 ~~~~~C~IC~~~~-----~~~~l~~CgH~FC~~Ci~~~~-~~~~~CP~CR~ 131 (135)
..+..|.+|...+ ....-..|+|.+|..|-..-. ...-.|.+|..
T Consensus 52 ~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 52 YGERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp HCCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred cCCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 3567999998543 223446799999999965411 11225777743
No 121
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.80 E-value=2.4 Score=33.93 Aligned_cols=33 Identities=21% Similarity=0.558 Sum_probs=24.2
Q ss_pred CcccccccCCcccccCCC----CCccchhhHHHHhcc
Q 032728 90 DECGICMENCTKMVLPNC----GHSLCVNCFHDWNAR 122 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~C----gH~FC~~Ci~~~~~~ 122 (135)
.-|.+|.|...+.-.-.| .|.||.-|-.+..+.
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 479999987665333234 899999999887654
No 122
>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=68.70 E-value=1.2 Score=24.99 Aligned_cols=29 Identities=21% Similarity=0.322 Sum_probs=17.4
Q ss_pred CCCCCccchhhHHHHhc-cCCCCccccc-cccC
Q 032728 105 PNCGHSLCVNCFHDWNA-RSQSCLFAVA-AYRE 135 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~~-~~~~CP~CR~-~i~~ 135 (135)
..|||.|-..- ...+ ....||.|.+ .++|
T Consensus 9 ~~Cg~~fe~~~--~~~~~~~~~CP~Cg~~~~~r 39 (42)
T PF09723_consen 9 EECGHEFEVLQ--SISEDDPVPCPECGSTEVRR 39 (42)
T ss_pred CCCCCEEEEEE--EcCCCCCCcCCCCCCCceEE
Confidence 36898885532 1112 3468999987 5543
No 123
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=66.05 E-value=5.2 Score=25.80 Aligned_cols=46 Identities=20% Similarity=0.618 Sum_probs=19.1
Q ss_pred CcccccccCC-----cc--cccCCCCCccchhhHH-HHhccCCCCccccccccC
Q 032728 90 DECGICMENC-----TK--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 90 ~~C~IC~~~~-----~~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~~ 135 (135)
..|.||-+.. -. ..--.|+--.|..|.+ +..+..+.||.|+++.+|
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 3788887431 11 2334588889999987 455668899999988765
No 124
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.55 E-value=3.2 Score=34.76 Aligned_cols=21 Identities=29% Similarity=0.626 Sum_probs=16.0
Q ss_pred cccccCCCCCccchhhHHHHh
Q 032728 100 TKMVLPNCGHSLCVNCFHDWN 120 (135)
Q Consensus 100 ~~~~l~~CgH~FC~~Ci~~~~ 120 (135)
...+.-.|||.||..|...|-
T Consensus 177 ~~~v~C~~g~~FC~~C~~~~H 197 (444)
T KOG1815|consen 177 SVEVDCGCGHEFCFACGEESH 197 (444)
T ss_pred ccceeCCCCchhHhhcccccc
Confidence 335556799999999988764
No 125
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=65.14 E-value=1.4 Score=21.69 Aligned_cols=13 Identities=8% Similarity=0.112 Sum_probs=6.9
Q ss_pred hccCCCCcccccc
Q 032728 120 NARSQSCLFAVAA 132 (135)
Q Consensus 120 ~~~~~~CP~CR~~ 132 (135)
......||.|.++
T Consensus 10 ~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 10 EDDAKFCPNCGTP 22 (23)
T ss_pred CCcCcchhhhCCc
Confidence 3344556666554
No 126
>PF01359 Transposase_1: Transposase (partial DDE domain); InterPro: IPR001888 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. This family includes the mariner transposase []. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 3HOT_B 3HOS_A 3K9K_B 3F2K_B 3K9J_B 2F7T_A.
Probab=65.08 E-value=20 Score=23.03 Aligned_cols=27 Identities=19% Similarity=0.354 Sum_probs=19.8
Q ss_pred CeeeeeeeeecceeEEEEEeecCccccchH
Q 032728 1 MICFWFCVIETKLFVNVQVYVDGMPALSSK 30 (135)
Q Consensus 1 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 30 (135)
|+++||.. .+++.|.+..+|++..+.+
T Consensus 32 Ml~vwWd~---~Gvi~~e~L~~~~TIts~~ 58 (81)
T PF01359_consen 32 MLSVWWDA---KGVIHYELLPPGKTITSEY 58 (81)
T ss_dssp EEEEEEET---TEEEEEEEESTT---SHHH
T ss_pred EEEEEeec---cCcEeeeeCCCCccccHHH
Confidence 78888876 5899999999999988655
No 127
>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=65.08 E-value=4.3 Score=31.33 Aligned_cols=22 Identities=18% Similarity=0.505 Sum_probs=19.4
Q ss_pred cchhhHHHHhccCCCCcccccc
Q 032728 111 LCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 111 FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
-|.+|-.+.-.+...||+|++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 5899999988889999999875
No 128
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.02 E-value=5.5 Score=31.39 Aligned_cols=44 Identities=20% Similarity=0.313 Sum_probs=32.1
Q ss_pred CCcccccc-cCC---cccccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 89 NDECGICM-ENC---TKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 89 ~~~C~IC~-~~~---~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
...|||-- ++. .-..+-.|||+|-..-+.+.. ...|++|.++++
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~ 158 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQ 158 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCccc
Confidence 45788864 432 224555699999999988865 579999998765
No 129
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=62.12 E-value=7.2 Score=23.56 Aligned_cols=26 Identities=15% Similarity=0.439 Sum_probs=20.6
Q ss_pred CCC--ccchhhHHHHhccCCCCcccccccc
Q 032728 107 CGH--SLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 107 CgH--~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
|.+ .||..|....+. ..||-|...+.
T Consensus 25 CSfECTFC~~C~e~~l~--~~CPNCgGelv 52 (57)
T PF06906_consen 25 CSFECTFCADCAETMLN--GVCPNCGGELV 52 (57)
T ss_pred EeEeCcccHHHHHHHhc--CcCcCCCCccc
Confidence 655 799999998763 69999987664
No 130
>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=61.95 E-value=3 Score=25.44 Aligned_cols=32 Identities=25% Similarity=0.611 Sum_probs=15.7
Q ss_pred CCcccccccCCccc----ccCCCCCccchhhHHHHh
Q 032728 89 NDECGICMENCTKM----VLPNCGHSLCVNCFHDWN 120 (135)
Q Consensus 89 ~~~C~IC~~~~~~~----~l~~CgH~FC~~Ci~~~~ 120 (135)
...|.+|...+.-. --..||+.||..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34799998665321 124699999999987543
No 131
>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=61.61 E-value=5.3 Score=23.26 Aligned_cols=41 Identities=17% Similarity=0.411 Sum_probs=17.0
Q ss_pred cccccccCCc-ccccCCCCCccchhhHHHHhc---c--CCCCcccccc
Q 032728 91 ECGICMENCT-KMVLPNCGHSLCVNCFHDWNA---R--SQSCLFAVAA 132 (135)
Q Consensus 91 ~C~IC~~~~~-~~~l~~CgH~FC~~Ci~~~~~---~--~~~CP~CR~~ 132 (135)
.|++...... +.....|.|.-|.+= ..|++ + .-.||+|.++
T Consensus 4 ~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 6888875544 444457999866543 22332 1 3479999764
No 132
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.38 E-value=3.2 Score=34.32 Aligned_cols=40 Identities=28% Similarity=0.662 Sum_probs=28.2
Q ss_pred CCcccccccCC---c---ccccCCCCCccchhhHHHHhccCCCCccc
Q 032728 89 NDECGICMENC---T---KMVLPNCGHSLCVNCFHDWNARSQSCLFA 129 (135)
Q Consensus 89 ~~~C~IC~~~~---~---~~~l~~CgH~FC~~Ci~~~~~~~~~CP~C 129 (135)
-..|+.|.-+. . ...-. |||.||+.|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 45799998331 1 23445 99999999999998776656543
No 133
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=60.73 E-value=11 Score=26.00 Aligned_cols=28 Identities=18% Similarity=0.372 Sum_probs=22.2
Q ss_pred cCCCCCccchhhHHHHhccCCCCccccc
Q 032728 104 LPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 104 l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
-+.|++.||.+|=.-+-+.-..||-|-.
T Consensus 84 C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 84 CAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCCCCCccccccchhhhhhccCCcCCCC
Confidence 4679999999997776666668999853
No 134
>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=60.15 E-value=8.9 Score=25.91 Aligned_cols=24 Identities=13% Similarity=0.358 Sum_probs=17.5
Q ss_pred CCccchhhHHHHhcc---------CCCCccccc
Q 032728 108 GHSLCVNCFHDWNAR---------SQSCLFAVA 131 (135)
Q Consensus 108 gH~FC~~Ci~~~~~~---------~~~CP~CR~ 131 (135)
.=.||..||...... .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 557999999865432 247999986
No 135
>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=59.12 E-value=3.1 Score=34.62 Aligned_cols=29 Identities=34% Similarity=0.730 Sum_probs=0.0
Q ss_pred ccccCCCCCccchhhHHHHhc------cCCCCcccccc
Q 032728 101 KMVLPNCGHSLCVNCFHDWNA------RSQSCLFAVAA 132 (135)
Q Consensus 101 ~~~l~~CgH~FC~~Ci~~~~~------~~~~CP~CR~~ 132 (135)
+.+.++|||++-+ ..|-. ....||+||..
T Consensus 303 P~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 303 PWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred ceeeccccceeee---cccccccccccccccCCCcccc
Confidence 3566789997654 34542 24589999864
No 136
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=58.18 E-value=11 Score=30.75 Aligned_cols=30 Identities=20% Similarity=0.541 Sum_probs=18.9
Q ss_pred cCCCCCccchhhHHHHhcc---------CCCCccccccc
Q 032728 104 LPNCGHSLCVNCFHDWNAR---------SQSCLFAVAAY 133 (135)
Q Consensus 104 l~~CgH~FC~~Ci~~~~~~---------~~~CP~CR~~i 133 (135)
..+|||..-..=..-|.+- +..||+|-..+
T Consensus 375 F~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 375 FNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 3469996555544456432 34799997654
No 137
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.98 E-value=7.3 Score=24.87 Aligned_cols=24 Identities=13% Similarity=0.311 Sum_probs=18.6
Q ss_pred CCccchhhHHHHhccCCCCccccccc
Q 032728 108 GHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 108 gH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
.|.||..|.+.-+. ..||.|-..+
T Consensus 28 EcTFCadCae~~l~--g~CPnCGGel 51 (84)
T COG3813 28 ECTFCADCAENRLH--GLCPNCGGEL 51 (84)
T ss_pred eeehhHhHHHHhhc--CcCCCCCchh
Confidence 57899999886553 6899997654
No 138
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=57.75 E-value=3.4 Score=22.42 Aligned_cols=29 Identities=21% Similarity=0.330 Sum_probs=15.8
Q ss_pred CCCCCccchhhHHHHh-ccCCCCccccccccC
Q 032728 105 PNCGHSLCVNCFHDWN-ARSQSCLFAVAAYRE 135 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~-~~~~~CP~CR~~i~~ 135 (135)
+.|||.|=..- ... .....||.|.+.++|
T Consensus 9 ~~Cg~~fe~~~--~~~~~~~~~CP~Cg~~~~r 38 (41)
T smart00834 9 EDCGHTFEVLQ--KISDDPLATCPECGGDVRR 38 (41)
T ss_pred CCCCCEEEEEE--ecCCCCCCCCCCCCCccee
Confidence 45777663211 111 224579999887654
No 139
>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=56.36 E-value=1.6 Score=34.37 Aligned_cols=43 Identities=19% Similarity=0.336 Sum_probs=21.4
Q ss_pred CCcccccccCCccccc-C----CCCCccchhhHHHHhccCCCCccccc
Q 032728 89 NDECGICMENCTKMVL-P----NCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l-~----~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
...||||=....-.++ . +=.|.+|..|-..|......||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3589999755322111 1 12468999999999988889999954
No 140
>PLN02189 cellulose synthase
Probab=55.64 E-value=8.9 Score=35.70 Aligned_cols=47 Identities=21% Similarity=0.651 Sum_probs=33.0
Q ss_pred CCcccccccCCc-----c--cccCCCCCccchhhHH-HHhccCCCCccccccccC
Q 032728 89 NDECGICMENCT-----K--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~~ 135 (135)
...|.||-|... + ..-..||--.|..|.+ +..+.+..||.|+...+|
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 347999985521 1 2334588889999996 344557899999998775
No 141
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=55.35 E-value=8.5 Score=22.54 Aligned_cols=23 Identities=26% Similarity=0.706 Sum_probs=12.8
Q ss_pred CCCCccchhhHHHHhccCCCCccc
Q 032728 106 NCGHSLCVNCFHDWNARSQSCLFA 129 (135)
Q Consensus 106 ~CgH~FC~~Ci~~~~~~~~~CP~C 129 (135)
.|||.|=.. +..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 578866222 22222456789987
No 142
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=55.35 E-value=7.3 Score=30.28 Aligned_cols=22 Identities=18% Similarity=0.602 Sum_probs=18.5
Q ss_pred cchhhHHHHhccCCCCcccccc
Q 032728 111 LCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 111 FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
.|.+|..+.-.+.+.||+|++.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhc
Confidence 4788988888888999999764
No 143
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.92 E-value=11 Score=33.60 Aligned_cols=44 Identities=23% Similarity=0.514 Sum_probs=33.6
Q ss_pred cccccccCCcccccCCCCC-ccchhhHHHHhc--c----CCCCcccccccc
Q 032728 91 ECGICMENCTKMVLPNCGH-SLCVNCFHDWNA--R----SQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~~~--~----~~~CP~CR~~i~ 134 (135)
.|.||-....-.....||| ..|..|..+... . ...||+||..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 5899987666666778999 899999987532 2 467899998654
No 144
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=53.87 E-value=8 Score=30.41 Aligned_cols=39 Identities=13% Similarity=0.189 Sum_probs=30.1
Q ss_pred Ccccc-cccCCcccccCCCCCccchhhHHHHhcc--CCCCcc
Q 032728 90 DECGI-CMENCTKMVLPNCGHSLCVNCFHDWNAR--SQSCLF 128 (135)
Q Consensus 90 ~~C~I-C~~~~~~~~l~~CgH~FC~~Ci~~~~~~--~~~CP~ 128 (135)
..||| |.....|.+..+|||.|=++-|...+.. .-.||+
T Consensus 177 ~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 37888 4456666777899999999999998765 446776
No 145
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.82 E-value=2.9 Score=34.79 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=33.5
Q ss_pred cccccccCCcc----cccCCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 91 ECGICMENCTK----MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.|.||.+-.+. ..-..|||..+..|+.+|+.....||.|+..+.
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 78898743222 223459999999999999988788999987654
No 146
>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=53.52 E-value=1.9 Score=25.52 Aligned_cols=16 Identities=38% Similarity=1.296 Sum_probs=13.4
Q ss_pred CCCCCccchhhHHHHh
Q 032728 105 PNCGHSLCVNCFHDWN 120 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~ 120 (135)
+.||+.||..|-.+|-
T Consensus 44 ~~C~~~fC~~C~~~~H 59 (64)
T PF01485_consen 44 PSCGTEFCFKCGEPWH 59 (64)
T ss_dssp TSCCSEECSSSTSESC
T ss_pred CCCCCcCccccCcccC
Confidence 5699999999988773
No 147
>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=52.87 E-value=3.9 Score=20.69 Aligned_cols=21 Identities=24% Similarity=0.659 Sum_probs=9.6
Q ss_pred cccccccCC--cccccCCCCCcc
Q 032728 91 ECGICMENC--TKMVLPNCGHSL 111 (135)
Q Consensus 91 ~C~IC~~~~--~~~~l~~CgH~F 111 (135)
.||-|.... ....-|.|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 355555321 112335566665
No 148
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.04 E-value=4.8 Score=32.38 Aligned_cols=46 Identities=24% Similarity=0.409 Sum_probs=34.5
Q ss_pred CCCcccccccCCcc-cccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 88 RNDECGICMENCTK-MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~~-~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
++..|-+|.....- ....+|+|.||.-|...|......||.|+...
T Consensus 104 ~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 44578888855433 33345999999999999998888899887654
No 149
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=49.36 E-value=7 Score=27.80 Aligned_cols=21 Identities=29% Similarity=0.529 Sum_probs=15.8
Q ss_pred cccccCCcccccCCCCCccch
Q 032728 93 GICMENCTKMVLPNCGHSLCV 113 (135)
Q Consensus 93 ~IC~~~~~~~~l~~CgH~FC~ 113 (135)
-||.+.....+.-.|||.||.
T Consensus 61 fi~qs~~~rv~rcecghsf~d 81 (165)
T COG4647 61 FICQSAQKRVIRCECGHSFGD 81 (165)
T ss_pred EEEecccccEEEEeccccccC
Confidence 478877666665569999986
No 150
>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=48.92 E-value=6.9 Score=22.89 Aligned_cols=10 Identities=10% Similarity=0.265 Sum_probs=4.0
Q ss_pred CCcccccccc
Q 032728 125 SCLFAVAAYR 134 (135)
Q Consensus 125 ~CP~CR~~i~ 134 (135)
.||+|..+|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 6777766653
No 151
>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 PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=48.75 E-value=6.4 Score=31.74 Aligned_cols=44 Identities=18% Similarity=0.356 Sum_probs=30.9
Q ss_pred CCCcccccccCCccc-cc--CCCC--CccchhhHHHHhccCCCCccccc
Q 032728 88 RNDECGICMENCTKM-VL--PNCG--HSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~-~l--~~Cg--H~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
....||+|=....-. +. ..=| |..|..|-..|......||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 356899998553211 11 1223 57899999999988899999964
No 153
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=48.67 E-value=11 Score=30.70 Aligned_cols=41 Identities=20% Similarity=0.366 Sum_probs=29.2
Q ss_pred cccccccC---CcccccCCCCCccchhhHHHHhcc---CCCCccccc
Q 032728 91 ECGICMEN---CTKMVLPNCGHSLCVNCFHDWNAR---SQSCLFAVA 131 (135)
Q Consensus 91 ~C~IC~~~---~~~~~l~~CgH~FC~~Ci~~~~~~---~~~CP~CR~ 131 (135)
.||+=-+. +.+|+...|||+.-..-+....++ +..||.|-.
T Consensus 338 iCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 338 ICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 67765433 345655669999999999887665 357999953
No 154
>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=47.54 E-value=5.6 Score=31.99 Aligned_cols=43 Identities=19% Similarity=0.367 Sum_probs=30.6
Q ss_pred CCcccccccCCccc-ccC---CCC--CccchhhHHHHhccCCCCccccc
Q 032728 89 NDECGICMENCTKM-VLP---NCG--HSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 89 ~~~C~IC~~~~~~~-~l~---~Cg--H~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
...||+|-....-. +.. .=| |..|..|-..|......||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 34899998654321 111 134 57899999999988899999964
No 155
>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=47.38 E-value=14 Score=25.51 Aligned_cols=24 Identities=25% Similarity=0.636 Sum_probs=15.6
Q ss_pred CCCCCccchhhHHHHhccCCCCcccccccc
Q 032728 105 PNCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
|+|||. .+.+.+...|+.|++++.
T Consensus 73 P~C~K~------TKmLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 73 PNCGKQ------TKMLGRVDACMHCKEPLT 96 (114)
T ss_pred CCCCCh------HhhhchhhccCcCCCcCc
Confidence 467772 234555668999988763
No 156
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=47.37 E-value=14 Score=34.56 Aligned_cols=46 Identities=24% Similarity=0.638 Sum_probs=32.7
Q ss_pred CcccccccCCc-----c--cccCCCCCccchhhHH-HHhccCCCCccccccccC
Q 032728 90 DECGICMENCT-----K--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 90 ~~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~~ 135 (135)
..|-||-|... + +.--.||--.|+.|.+ +..+.+..||.|++..+|
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 37999985411 1 2233477789999996 455668899999998775
No 157
>PLN02436 cellulose synthase A
Probab=47.17 E-value=15 Score=34.51 Aligned_cols=46 Identities=20% Similarity=0.600 Sum_probs=32.2
Q ss_pred CcccccccCCc-----c--cccCCCCCccchhhHHH-HhccCCCCccccccccC
Q 032728 90 DECGICMENCT-----K--MVLPNCGHSLCVNCFHD-WNARSQSCLFAVAAYRE 135 (135)
Q Consensus 90 ~~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~~-~~~~~~~CP~CR~~i~~ 135 (135)
..|.||-|... + ..-..||--.|..|.+- ..+.+..||.|+...+|
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 48999985421 1 22234788899999963 34457899999998764
No 158
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=46.87 E-value=15 Score=29.99 Aligned_cols=42 Identities=2% Similarity=-0.266 Sum_probs=31.0
Q ss_pred CCcccccccCCcccccCCCCC-ccchhhHHHHhccCCCCcccccc
Q 032728 89 NDECGICMENCTKMVLPNCGH-SLCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
..+|..|-+.....++.+||| .||.+|.. ..-...||.|...
T Consensus 343 ~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceeeeEeecCCcccChhhhhh--cccCCcccccccc
Confidence 347888886665666667999 59999987 3446789999653
No 159
>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=46.25 E-value=12 Score=21.86 Aligned_cols=11 Identities=9% Similarity=0.229 Sum_probs=7.1
Q ss_pred CCCCccccccc
Q 032728 123 SQSCLFAVAAY 133 (135)
Q Consensus 123 ~~~CP~CR~~i 133 (135)
...||+|...+
T Consensus 31 ~v~CPiC~~~~ 41 (54)
T PF05605_consen 31 NVVCPICSSRV 41 (54)
T ss_pred CccCCCchhhh
Confidence 35788886543
No 160
>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=46.03 E-value=10 Score=27.65 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.2
Q ss_pred CCccchhhHHHHhccCCCCcccccccc
Q 032728 108 GHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 108 gH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.+.||..|=.+-.. .||.|..+|+
T Consensus 27 ~~~fC~kCG~~tI~---~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT---SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH---HCcCCCCCCC
Confidence 56799999877554 8999998875
No 161
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.74 E-value=9.4 Score=25.41 Aligned_cols=12 Identities=33% Similarity=1.204 Sum_probs=10.2
Q ss_pred ccchhhHHHHhc
Q 032728 110 SLCVNCFHDWNA 121 (135)
Q Consensus 110 ~FC~~Ci~~~~~ 121 (135)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 489999999974
No 162
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=43.60 E-value=6 Score=32.17 Aligned_cols=46 Identities=20% Similarity=0.190 Sum_probs=33.3
Q ss_pred CCCcccccccCCcccccCCCCC-ccchhhHHHH-hccCCCCccccccc
Q 032728 88 RNDECGICMENCTKMVLPNCGH-SLCVNCFHDW-NARSQSCLFAVAAY 133 (135)
Q Consensus 88 ~~~~C~IC~~~~~~~~l~~CgH-~FC~~Ci~~~-~~~~~~CP~CR~~i 133 (135)
....|.+|.+......+-+||| .||..|.-+- .++..+||+|-..+
T Consensus 135 ~ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~ 182 (394)
T KOG2113|consen 135 ATIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAV 182 (394)
T ss_pred CccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhh
Confidence 3457889987665555556999 7999997654 55677899986544
No 163
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=42.89 E-value=16 Score=28.40 Aligned_cols=45 Identities=18% Similarity=0.579 Sum_probs=30.8
Q ss_pred CCcccccccCCcc----cccCCCC-----CccchhhHHHHhc--cCCCCccccccc
Q 032728 89 NDECGICMENCTK----MVLPNCG-----HSLCVNCFHDWNA--RSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~----~~l~~Cg-----H~FC~~Ci~~~~~--~~~~CP~CR~~i 133 (135)
+..|-||++.... +...+|. +..|..|+..|.. ....|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 4579999954321 2333463 3568999999997 466899997654
No 164
>PLN02400 cellulose synthase
Probab=42.80 E-value=16 Score=34.33 Aligned_cols=47 Identities=21% Similarity=0.628 Sum_probs=32.8
Q ss_pred CCcccccccCCc-----c--cccCCCCCccchhhHH-HHhccCCCCccccccccC
Q 032728 89 NDECGICMENCT-----K--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~~ 135 (135)
...|-||-|..- + ..--.||--.|+.|.+ +..+.+..||.|+...+|
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 348999985411 1 2233577789999995 344557899999998875
No 165
>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=41.49 E-value=19 Score=18.93 Aligned_cols=10 Identities=20% Similarity=0.199 Sum_probs=6.7
Q ss_pred CCCCcccccc
Q 032728 123 SQSCLFAVAA 132 (135)
Q Consensus 123 ~~~CP~CR~~ 132 (135)
...||.|.++
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4478888653
No 166
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=40.95 E-value=28 Score=20.84 Aligned_cols=30 Identities=23% Similarity=0.702 Sum_probs=22.2
Q ss_pred CCcccccccCCc----ccccCCCCCccchhhHHH
Q 032728 89 NDECGICMENCT----KMVLPNCGHSLCVNCFHD 118 (135)
Q Consensus 89 ~~~C~IC~~~~~----~~~l~~CgH~FC~~Ci~~ 118 (135)
...|++|-+.+. ..+-|.||-.+|+.|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 347999986653 245588999999999654
No 167
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=40.22 E-value=9.6 Score=33.32 Aligned_cols=21 Identities=19% Similarity=0.488 Sum_probs=16.3
Q ss_pred CCCCccchhhHHHHhccCCCCccc
Q 032728 106 NCGHSLCVNCFHDWNARSQSCLFA 129 (135)
Q Consensus 106 ~CgH~FC~~Ci~~~~~~~~~CP~C 129 (135)
.||+.||..|+.. .+..||-|
T Consensus 536 ~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 536 TCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHhc---cCCCCCch
Confidence 4999999999553 34559999
No 168
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.88 E-value=31 Score=31.37 Aligned_cols=41 Identities=24% Similarity=0.563 Sum_probs=26.3
Q ss_pred CCCcccccccCCc-------ccccCCCCCccchhhHHHHhccCCCCccc
Q 032728 88 RNDECGICMENCT-------KMVLPNCGHSLCVNCFHDWNARSQSCLFA 129 (135)
Q Consensus 88 ~~~~C~IC~~~~~-------~~~l~~CgH~FC~~Ci~~~~~~~~~CP~C 129 (135)
.+..|.-|.+... ..+.-.|||.||..|+..-..+.. |..|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 3448999986532 233445999999999975443322 4444
No 169
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=36.86 E-value=20 Score=23.73 Aligned_cols=35 Identities=20% Similarity=0.519 Sum_probs=24.3
Q ss_pred CcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 90 DECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 90 ~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
..|-||-... -.=||.||..|.. ....|.+|-..+
T Consensus 45 ~~C~~CK~~v-----~q~g~~YCq~CAY----kkGiCamCGKki 79 (90)
T PF10235_consen 45 SKCKICKTKV-----HQPGAKYCQTCAY----KKGICAMCGKKI 79 (90)
T ss_pred cccccccccc-----ccCCCccChhhhc----ccCcccccCCee
Confidence 4798986332 1128999999944 357899996654
No 170
>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=36.76 E-value=16 Score=21.08 Aligned_cols=30 Identities=27% Similarity=0.514 Sum_probs=19.7
Q ss_pred cccccccCCcc----cccCCCCCccchhhHHHHh
Q 032728 91 ECGICMENCTK----MVLPNCGHSLCVNCFHDWN 120 (135)
Q Consensus 91 ~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~ 120 (135)
.|.+|...+.. ..-..||+.||..|.....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57778643221 2224699999999987543
No 171
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=36.67 E-value=8.2 Score=19.21 Aligned_cols=8 Identities=25% Similarity=0.185 Sum_probs=4.0
Q ss_pred CCCccccc
Q 032728 124 QSCLFAVA 131 (135)
Q Consensus 124 ~~CP~CR~ 131 (135)
..||.|-+
T Consensus 17 ~fC~~CG~ 24 (26)
T PF13248_consen 17 KFCPNCGA 24 (26)
T ss_pred ccChhhCC
Confidence 44555544
No 172
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=35.49 E-value=28 Score=32.58 Aligned_cols=47 Identities=19% Similarity=0.633 Sum_probs=32.2
Q ss_pred CCcccccccCCc-----c--cccCCCCCccchhhHH-HHhccCCCCccccccccC
Q 032728 89 NDECGICMENCT-----K--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYRE 135 (135)
Q Consensus 89 ~~~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~~ 135 (135)
...|.||-|... + ..--.||--.|..|.+ +..+.+..||.|+...+|
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 347999985411 1 2223477789999995 344557899999988764
No 173
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=34.91 E-value=23 Score=21.61 Aligned_cols=12 Identities=8% Similarity=0.230 Sum_probs=8.9
Q ss_pred CCCCcccccccc
Q 032728 123 SQSCLFAVAAYR 134 (135)
Q Consensus 123 ~~~CP~CR~~i~ 134 (135)
.+.||+|.++..
T Consensus 39 ~p~CPlC~s~M~ 50 (59)
T PF14169_consen 39 EPVCPLCKSPMV 50 (59)
T ss_pred CccCCCcCCccc
Confidence 468999987653
No 174
>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=34.74 E-value=13 Score=21.34 Aligned_cols=25 Identities=20% Similarity=0.344 Sum_probs=13.4
Q ss_pred CCCCCccchhhHHHHh-ccCCCCccccc
Q 032728 105 PNCGHSLCVNCFHDWN-ARSQSCLFAVA 131 (135)
Q Consensus 105 ~~CgH~FC~~Ci~~~~-~~~~~CP~CR~ 131 (135)
.+|||.|=.. .... .....||.|.+
T Consensus 9 ~~Cg~~fe~~--~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEVL--QKMSDDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEEE--EecCCCCCCCCCCCCC
Confidence 3688877432 1111 12347999976
No 175
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=32.75 E-value=12 Score=34.01 Aligned_cols=42 Identities=24% Similarity=0.797 Sum_probs=29.4
Q ss_pred CcccccccCCc--ccccCCCCCccchhhHHHHhc------cCCCCccccc
Q 032728 90 DECGICMENCT--KMVLPNCGHSLCVNCFHDWNA------RSQSCLFAVA 131 (135)
Q Consensus 90 ~~C~IC~~~~~--~~~l~~CgH~FC~~Ci~~~~~------~~~~CP~CR~ 131 (135)
..|..|....- --+-+.|||.+|..|+..|.- ....|++|+.
T Consensus 230 ~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 230 EMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred hhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 47888984432 345678999999999999941 1246777654
No 176
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=32.55 E-value=33 Score=25.69 Aligned_cols=37 Identities=24% Similarity=0.560 Sum_probs=24.6
Q ss_pred CCcccccccC-----Ccc---cccCCCCCccchhhHHHHhccCCCCcccc
Q 032728 89 NDECGICMEN-----CTK---MVLPNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 89 ~~~C~IC~~~-----~~~---~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
...|.+|.+. +.. ..-+.|+-.||..|..+ ..||-|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 4577788732 111 22357999999999652 6799993
No 177
>PRK04023 DNA polymerase II large subunit; Validated
Probab=30.50 E-value=37 Score=31.83 Aligned_cols=43 Identities=19% Similarity=0.337 Sum_probs=29.5
Q ss_pred CCcccccccCCcccccCCCCC-----ccchhhHHHHhccCCCCccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGH-----SLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH-----~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
...|+-|-.......-|+||. .||..|-. ......||-|....
T Consensus 626 ~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~--~~~~y~CPKCG~El 673 (1121)
T PRK04023 626 RRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGI--EVEEDECEKCGREP 673 (1121)
T ss_pred CccCCCCCCcCCcccCCCCCCCCCcceeCccccC--cCCCCcCCCCCCCC
Confidence 347998876544455678984 59999933 23346799997664
No 178
>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=30.24 E-value=37 Score=17.31 Aligned_cols=34 Identities=21% Similarity=0.358 Sum_probs=16.9
Q ss_pred ccccccCCcc--cccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 92 CGICMENCTK--MVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 92 C~IC~~~~~~--~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
|..|.....+ ..+..=+..||..| ..|..|+.+|
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcC
Confidence 5556544322 22221255666655 4566676655
No 179
>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=29.49 E-value=19 Score=21.47 Aligned_cols=9 Identities=22% Similarity=0.397 Sum_probs=3.0
Q ss_pred CCccccccc
Q 032728 125 SCLFAVAAY 133 (135)
Q Consensus 125 ~CP~CR~~i 133 (135)
+||+|.+.+
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 455555443
No 180
>PF05304 DUF728: Protein of unknown function (DUF728); InterPro: IPR007968 This entry is represented by the Tobacco rattle virus, 16kDa protein; it is a family of uncharacterised viral proteins.
Probab=29.18 E-value=40 Score=22.44 Aligned_cols=27 Identities=33% Similarity=0.518 Sum_probs=19.5
Q ss_pred eeeeeeeecceeEEEEEee-cCccccchH
Q 032728 3 CFWFCVIETKLFVNVQVYV-DGMPALSSK 30 (135)
Q Consensus 3 ~~~~~~~~~~~~l~~~~~~-~~~~~~~~~ 30 (135)
|-||..++.+... +.+|. =|++++...
T Consensus 45 CGWf~~i~v~~~~-~eVY~CCg~~HL~Kc 72 (103)
T PF05304_consen 45 CGWFPAISVNDDT-FEVYFCCGMKHLEKC 72 (103)
T ss_pred CCceEEEEEeccE-EeeeeecCHHHHHHH
Confidence 7799998876654 34555 788888665
No 181
>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=28.73 E-value=18 Score=18.49 Aligned_cols=10 Identities=10% Similarity=0.225 Sum_probs=4.4
Q ss_pred CCcccccccc
Q 032728 125 SCLFAVAAYR 134 (135)
Q Consensus 125 ~CP~CR~~i~ 134 (135)
.||.|.+.+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4788876653
No 182
>PF12023 DUF3511: Domain of unknown function (DUF3511); InterPro: IPR021899 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 50 amino acids in length. This domain has two completely conserved residues (Y and K) that may be functionally important.
Probab=28.40 E-value=12 Score=21.71 Aligned_cols=23 Identities=26% Similarity=0.202 Sum_probs=15.3
Q ss_pred eeeeeecc---eeEEEEEee-cCcccc
Q 032728 5 WFCVIETK---LFVNVQVYV-DGMPAL 27 (135)
Q Consensus 5 ~~~~~~~~---~~l~~~~~~-~~~~~~ 27 (135)
||.=||+. +++.||+|. +|+-..
T Consensus 2 ~~~dpE~kRkkRVA~Yk~y~vEGKvK~ 28 (47)
T PF12023_consen 2 GFNDPEMKRKKRVASYKVYAVEGKVKG 28 (47)
T ss_pred CCCCHHHHHHHHHHhhheeeeehHHHH
Confidence 55556654 478899888 776544
No 183
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=28.31 E-value=48 Score=17.87 Aligned_cols=20 Identities=25% Similarity=0.554 Sum_probs=11.2
Q ss_pred cchhhHHHHhcc--------CCCCcccc
Q 032728 111 LCVNCFHDWNAR--------SQSCLFAV 130 (135)
Q Consensus 111 FC~~Ci~~~~~~--------~~~CP~CR 130 (135)
+|..|+.++... ..+|+.|-
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CG 28 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCG 28 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCC
Confidence 477888887542 24788884
No 184
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=27.06 E-value=40 Score=18.87 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=13.2
Q ss_pred ccccccCCcccccCCCCCccchh
Q 032728 92 CGICMENCTKMVLPNCGHSLCVN 114 (135)
Q Consensus 92 C~IC~~~~~~~~l~~CgH~FC~~ 114 (135)
|..|.....-.+-+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 56666433333334599988854
No 185
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.93 E-value=32 Score=24.38 Aligned_cols=22 Identities=23% Similarity=0.484 Sum_probs=14.4
Q ss_pred ccchhhHHHHhccCCCCcccccccc
Q 032728 110 SLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 110 ~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.||..|-..-. ..||.|.++|+
T Consensus 29 afcskcgeati---~qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATI---TQCPICSASIR 50 (160)
T ss_pred HHHhhhchHHH---hcCCccCCccc
Confidence 57777755433 36888887764
No 186
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=26.54 E-value=54 Score=22.07 Aligned_cols=12 Identities=17% Similarity=0.595 Sum_probs=8.9
Q ss_pred CCCCcccccccc
Q 032728 123 SQSCLFAVAAYR 134 (135)
Q Consensus 123 ~~~CP~CR~~i~ 134 (135)
..+||.|++++.
T Consensus 80 ~~~Cp~C~spFN 91 (105)
T COG4357 80 CGSCPYCQSPFN 91 (105)
T ss_pred cCCCCCcCCCCC
Confidence 457888888874
No 187
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=26.46 E-value=43 Score=27.48 Aligned_cols=41 Identities=15% Similarity=0.292 Sum_probs=25.5
Q ss_pred cccccccCCcc---cccCCCCCccchhhHHHHhccCCCCccccc
Q 032728 91 ECGICMENCTK---MVLPNCGHSLCVNCFHDWNARSQSCLFAVA 131 (135)
Q Consensus 91 ~C~IC~~~~~~---~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~ 131 (135)
.|-.|.+...+ ..-..|.|.||.+|=.-.-+.=..||-|..
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 47777533222 233568899999996544343457888853
No 188
>PHA00626 hypothetical protein
Probab=25.80 E-value=42 Score=20.31 Aligned_cols=25 Identities=12% Similarity=0.066 Sum_probs=17.5
Q ss_pred cccccccCCcccccCCCCCccchhh
Q 032728 91 ECGICMENCTKMVLPNCGHSLCVNC 115 (135)
Q Consensus 91 ~C~IC~~~~~~~~l~~CgH~FC~~C 115 (135)
.|.+|........-+.|||.|-.+-
T Consensus 13 rcg~cr~~snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 13 KEKTMRGWSDDYVCCDCGYNDSKDA 37 (59)
T ss_pred eeceecccCcceEcCCCCCeechhh
Confidence 5667766556666778999886554
No 189
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.71 E-value=41 Score=30.13 Aligned_cols=37 Identities=19% Similarity=0.380 Sum_probs=24.9
Q ss_pred cccccccCCcc----cccCCCCCccchhhHHHHhccCCCCcccc
Q 032728 91 ECGICMENCTK----MVLPNCGHSLCVNCFHDWNARSQSCLFAV 130 (135)
Q Consensus 91 ~C~IC~~~~~~----~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR 130 (135)
.|-+|..+..+ ..+..|+-.||..|.... ...||+|-
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~---~~~~~vC~ 696 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY---ASISEVCG 696 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhhhhhh---hccCcccC
Confidence 68888855332 233469999999985544 45788883
No 190
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=25.62 E-value=46 Score=30.02 Aligned_cols=44 Identities=20% Similarity=0.502 Sum_probs=27.8
Q ss_pred CCCCcccccc-cCCcc---------cccCCCCCcc--------------------chhhHHHHhc--------cCCCCcc
Q 032728 87 DRNDECGICM-ENCTK---------MVLPNCGHSL--------------------CVNCFHDWNA--------RSQSCLF 128 (135)
Q Consensus 87 ~~~~~C~IC~-~~~~~---------~~l~~CgH~F--------------------C~~Ci~~~~~--------~~~~CP~ 128 (135)
.|-..|.-|+ |++++ ..-++||..| |..|-+++.+ +...||.
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~ 178 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPK 178 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcc
Confidence 3455899998 44433 2336777655 7788877653 2347888
Q ss_pred cc
Q 032728 129 AV 130 (135)
Q Consensus 129 CR 130 (135)
|.
T Consensus 179 CG 180 (750)
T COG0068 179 CG 180 (750)
T ss_pred cC
Confidence 84
No 191
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.71 E-value=33 Score=29.57 Aligned_cols=41 Identities=22% Similarity=0.595 Sum_probs=29.7
Q ss_pred CCcccccccCCcccccCCCCCccchhhHHHHhccCCCCccccccc
Q 032728 89 NDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 89 ~~~C~IC~~~~~~~~l~~CgH~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
...|.+|.... ....++|. +..|+.+|...+..||.|+..+
T Consensus 479 ~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 479 NDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred cCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 45788998444 33333477 5788899999889999997654
No 192
>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=23.92 E-value=36 Score=23.40 Aligned_cols=19 Identities=32% Similarity=0.681 Sum_probs=11.9
Q ss_pred ccccCCcccccCCCCCccch
Q 032728 94 ICMENCTKMVLPNCGHSLCV 113 (135)
Q Consensus 94 IC~~~~~~~~l~~CgH~FC~ 113 (135)
||....+ .+.-.|||.||.
T Consensus 17 i~~~~~k-~vkc~CGh~f~d 35 (112)
T PF08882_consen 17 IVQKKDK-VVKCDCGHEFCD 35 (112)
T ss_pred EEEecCc-eeeccCCCeecC
Confidence 5553332 444469999987
No 193
>PLN02248 cellulose synthase-like protein
Probab=23.82 E-value=55 Score=31.00 Aligned_cols=29 Identities=24% Similarity=0.660 Sum_probs=25.1
Q ss_pred CCCCccchhhHHHHhccCCCCcccccccc
Q 032728 106 NCGHSLCVNCFHDWNARSQSCLFAVAAYR 134 (135)
Q Consensus 106 ~CgH~FC~~Ci~~~~~~~~~CP~CR~~i~ 134 (135)
.|++..|.+|...-.+....||-|+.+.+
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccc
Confidence 57999999999988888889999988763
No 194
>PRK11595 DNA utilization protein GntX; Provisional
Probab=23.13 E-value=80 Score=23.81 Aligned_cols=8 Identities=25% Similarity=0.837 Sum_probs=3.6
Q ss_pred cchhhHHH
Q 032728 111 LCVNCFHD 118 (135)
Q Consensus 111 FC~~Ci~~ 118 (135)
.|..|...
T Consensus 22 lC~~C~~~ 29 (227)
T PRK11595 22 ICSVCSRA 29 (227)
T ss_pred ccHHHHhh
Confidence 34444443
No 195
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=22.17 E-value=40 Score=16.79 Aligned_cols=8 Identities=13% Similarity=0.397 Sum_probs=4.2
Q ss_pred CCcccccc
Q 032728 125 SCLFAVAA 132 (135)
Q Consensus 125 ~CP~CR~~ 132 (135)
.||+|...
T Consensus 3 ~CPiC~~~ 10 (26)
T smart00734 3 QCPVCFRE 10 (26)
T ss_pred cCCCCcCc
Confidence 46666443
No 196
>KOG3302 consensus TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=21.67 E-value=1.5e+02 Score=22.51 Aligned_cols=35 Identities=20% Similarity=0.369 Sum_probs=28.3
Q ss_pred EEEeecCccccchHHHHHHHHHHHHhHhHHHHHHH
Q 032728 17 VQVYVDGMPALSSKERKATLREFYAIIYPSLRQLE 51 (135)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~si~~~y~~i~~~l~~l~ 51 (135)
..++..|+-.+........+.+.+..|+|.|.+++
T Consensus 162 l~IF~tG~VvvtgA~~~~~i~~Ai~~IyPil~~fr 196 (200)
T KOG3302|consen 162 LLIFVTGKVVVTGAKVREETYEAIENIYPILLEFR 196 (200)
T ss_pred EEEecCCEEEEEecccHHHHHHHHHHHhHHHHHhh
Confidence 35677888888777677788999999999998775
No 197
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=21.59 E-value=42 Score=18.01 Aligned_cols=7 Identities=43% Similarity=1.251 Sum_probs=4.9
Q ss_pred CCCCCcc
Q 032728 105 PNCGHSL 111 (135)
Q Consensus 105 ~~CgH~F 111 (135)
++|||.|
T Consensus 29 ~~C~~~f 35 (36)
T PF13717_consen 29 SKCGHVF 35 (36)
T ss_pred CCCCCEe
Confidence 4678876
No 198
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=21.23 E-value=42 Score=19.02 Aligned_cols=6 Identities=50% Similarity=1.580 Sum_probs=5.0
Q ss_pred CCCCcc
Q 032728 106 NCGHSL 111 (135)
Q Consensus 106 ~CgH~F 111 (135)
.|||.|
T Consensus 32 ~Cg~tf 37 (47)
T PF04606_consen 32 ECGHTF 37 (47)
T ss_pred cCCCEE
Confidence 499987
No 199
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.03 E-value=31 Score=27.36 Aligned_cols=24 Identities=17% Similarity=0.373 Sum_probs=15.6
Q ss_pred ccchhhHHHHhccCCCCccccccc
Q 032728 110 SLCVNCFHDWNARSQSCLFAVAAY 133 (135)
Q Consensus 110 ~FC~~Ci~~~~~~~~~CP~CR~~i 133 (135)
-.|..|+....+....||.|.+.|
T Consensus 256 yvCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 256 FVCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred EECCCccCCcCCCCCCCCCCCCCC
Confidence 345556555555567899998754
No 200
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=20.91 E-value=50 Score=23.28 Aligned_cols=19 Identities=16% Similarity=0.298 Sum_probs=12.1
Q ss_pred CCCCccchhhHHHHhccCCCCcccccc
Q 032728 106 NCGHSLCVNCFHDWNARSQSCLFAVAA 132 (135)
Q Consensus 106 ~CgH~FC~~Ci~~~~~~~~~CP~CR~~ 132 (135)
+|||.|.. .+..||.|.+.
T Consensus 34 ~CG~v~~P--------Pr~~Cp~C~~~ 52 (140)
T COG1545 34 KCGRVYFP--------PRAYCPKCGSE 52 (140)
T ss_pred CCCeEEcC--------CcccCCCCCCC
Confidence 67877643 34567777654
No 201
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=20.59 E-value=75 Score=26.41 Aligned_cols=14 Identities=14% Similarity=0.548 Sum_probs=10.2
Q ss_pred CCCcccccccCCcc
Q 032728 88 RNDECGICMENCTK 101 (135)
Q Consensus 88 ~~~~C~IC~~~~~~ 101 (135)
.+..||+|-|..+.
T Consensus 14 l~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG 27 (475)
T ss_pred cccccccccCcccc
Confidence 34589999877654
No 202
>PLN02195 cellulose synthase A
Probab=20.35 E-value=1.1e+02 Score=28.77 Aligned_cols=44 Identities=23% Similarity=0.588 Sum_probs=29.9
Q ss_pred cccccccCCc-----c--cccCCCCCccchhhHH-HHhccCCCCcccccccc
Q 032728 91 ECGICMENCT-----K--MVLPNCGHSLCVNCFH-DWNARSQSCLFAVAAYR 134 (135)
Q Consensus 91 ~C~IC~~~~~-----~--~~l~~CgH~FC~~Ci~-~~~~~~~~CP~CR~~i~ 134 (135)
.|-||-+... + ..--.||--.|+.|.+ +-.+.+..||.|+...+
T Consensus 8 ~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred cceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 6888875311 1 2223588889999995 23445789999998765
Done!