Query 040167
Match_columns 227
No_of_seqs 242 out of 1563
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 05:45:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040167.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040167hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.7 3.5E-17 7.5E-22 103.4 1.7 44 175-218 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 2.9E-15 6.3E-20 131.9 3.8 49 175-223 230-279 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 2.6E-14 5.6E-19 100.0 3.4 46 173-218 18-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 8.3E-14 1.8E-18 122.0 3.9 55 172-226 285-349 (491)
5 PF12861 zf-Apc11: Anaphase-pr 99.4 2.4E-13 5.3E-18 96.5 3.6 53 173-225 20-85 (85)
6 PHA02929 N1R/p28-like protein; 99.3 8E-13 1.7E-17 111.7 4.4 50 173-222 173-227 (238)
7 KOG0320 Predicted E3 ubiquitin 99.3 8.7E-12 1.9E-16 99.5 7.6 52 172-224 129-180 (187)
8 COG5540 RING-finger-containing 99.3 1.6E-12 3.4E-17 111.3 3.4 51 173-223 322-373 (374)
9 PF13920 zf-C3HC4_3: Zinc fing 99.2 5E-12 1.1E-16 81.9 2.7 46 174-222 2-48 (50)
10 PLN03208 E3 ubiquitin-protein 99.2 1.1E-11 2.3E-16 101.1 4.9 50 171-223 15-80 (193)
11 PF13923 zf-C3HC4_2: Zinc fing 99.2 8.8E-12 1.9E-16 76.6 2.2 39 177-217 1-39 (39)
12 cd00162 RING RING-finger (Real 99.2 1.8E-11 4E-16 76.2 3.7 44 176-221 1-45 (45)
13 COG5194 APC11 Component of SCF 99.1 2.5E-11 5.5E-16 84.2 2.3 53 174-226 20-85 (88)
14 KOG0823 Predicted E3 ubiquitin 99.1 4.5E-11 9.8E-16 99.2 3.3 51 172-225 45-98 (230)
15 PF14634 zf-RING_5: zinc-RING 99.1 8.2E-11 1.8E-15 74.2 3.2 44 176-219 1-44 (44)
16 KOG0317 Predicted E3 ubiquitin 99.1 5.5E-11 1.2E-15 101.5 3.1 52 171-225 236-287 (293)
17 PF15227 zf-C3HC4_4: zinc fing 99.1 8.2E-11 1.8E-15 73.4 2.7 38 177-217 1-42 (42)
18 smart00504 Ubox Modified RING 99.0 3.6E-10 7.9E-15 76.2 4.3 47 175-224 2-48 (63)
19 PHA02926 zinc finger-like prot 99.0 2E-10 4.3E-15 95.0 3.5 52 172-223 168-231 (242)
20 KOG0802 E3 ubiquitin ligase [P 99.0 1.4E-10 3.1E-15 109.5 2.0 49 173-221 290-340 (543)
21 PF00097 zf-C3HC4: Zinc finger 99.0 2.9E-10 6.3E-15 70.3 2.7 39 177-217 1-41 (41)
22 KOG1493 Anaphase-promoting com 99.0 8.2E-11 1.8E-15 81.0 -0.1 53 173-225 19-84 (84)
23 smart00184 RING Ring finger. E 98.9 6.9E-10 1.5E-14 66.6 3.2 38 177-217 1-39 (39)
24 TIGR00599 rad18 DNA repair pro 98.8 3.4E-09 7.4E-14 95.8 4.0 49 172-223 24-72 (397)
25 PF13445 zf-RING_UBOX: RING-ty 98.7 9.6E-09 2.1E-13 64.3 2.4 38 177-215 1-43 (43)
26 COG5574 PEX10 RING-finger-cont 98.6 2.6E-08 5.6E-13 84.3 3.5 51 172-225 213-265 (271)
27 smart00744 RINGv The RING-vari 98.5 5.9E-08 1.3E-12 62.5 2.9 42 176-218 1-49 (49)
28 KOG2930 SCF ubiquitin ligase, 98.5 4E-08 8.7E-13 71.6 1.5 54 172-225 44-111 (114)
29 KOG2164 Predicted E3 ubiquitin 98.5 6E-08 1.3E-12 88.8 2.9 49 174-225 186-239 (513)
30 PF04564 U-box: U-box domain; 98.5 9.2E-08 2E-12 66.7 2.6 50 173-225 3-53 (73)
31 KOG0828 Predicted E3 ubiquitin 98.5 6.4E-08 1.4E-12 88.1 1.9 51 172-222 569-634 (636)
32 PF11793 FANCL_C: FANCL C-term 98.4 3.3E-08 7.2E-13 68.5 -0.3 51 174-224 2-68 (70)
33 KOG1734 Predicted RING-contain 98.3 1.5E-07 3.2E-12 79.9 0.2 52 173-224 223-283 (328)
34 COG5219 Uncharacterized conser 98.2 3.5E-07 7.6E-12 88.7 1.2 52 172-223 1467-1524(1525)
35 KOG2177 Predicted E3 ubiquitin 98.2 4.9E-07 1.1E-11 77.2 1.8 46 171-219 10-55 (386)
36 KOG0287 Postreplication repair 98.2 7.6E-07 1.6E-11 77.9 1.6 46 174-222 23-68 (442)
37 COG5432 RAD18 RING-finger-cont 98.1 1.3E-06 2.9E-11 75.0 2.2 44 175-221 26-69 (391)
38 KOG1039 Predicted E3 ubiquitin 98.1 1.5E-06 3.2E-11 77.4 2.4 52 172-223 159-222 (344)
39 KOG0804 Cytoplasmic Zn-finger 98.0 2.4E-06 5.2E-11 77.2 2.5 50 171-222 172-222 (493)
40 KOG4265 Predicted E3 ubiquitin 98.0 6.2E-06 1.4E-10 72.8 3.8 48 172-222 288-336 (349)
41 PF14835 zf-RING_6: zf-RING of 97.9 2.9E-06 6.3E-11 57.0 0.2 47 175-225 8-54 (65)
42 KOG0825 PHD Zn-finger protein 97.8 5.1E-06 1.1E-10 79.5 -0.3 50 172-221 121-170 (1134)
43 KOG4445 Uncharacterized conser 97.7 1.1E-05 2.4E-10 69.6 0.2 53 173-225 114-189 (368)
44 KOG4172 Predicted E3 ubiquitin 97.6 1.4E-05 2.9E-10 51.9 0.1 45 175-222 8-54 (62)
45 KOG0311 Predicted E3 ubiquitin 97.6 8.1E-06 1.7E-10 71.9 -1.6 49 173-223 42-91 (381)
46 PF11789 zf-Nse: Zinc-finger o 97.6 3.3E-05 7.1E-10 51.2 1.5 42 173-216 10-53 (57)
47 KOG0978 E3 ubiquitin ligase in 97.5 3.8E-05 8.2E-10 73.7 1.5 48 175-225 644-692 (698)
48 KOG1952 Transcription factor N 97.5 0.00016 3.4E-09 70.1 5.7 50 169-218 186-243 (950)
49 KOG1428 Inhibitor of type V ad 97.3 0.00013 2.7E-09 74.1 2.9 52 171-222 3483-3544(3738)
50 KOG0297 TNF receptor-associate 97.3 0.00011 2.3E-09 67.1 2.2 51 172-224 19-69 (391)
51 COG5152 Uncharacterized conser 97.3 9E-05 1.9E-09 60.6 1.0 44 175-221 197-240 (259)
52 KOG1941 Acetylcholine receptor 97.3 8.4E-05 1.8E-09 66.4 0.7 47 173-219 364-413 (518)
53 PF12906 RINGv: RING-variant d 97.2 0.00017 3.6E-09 45.9 1.4 40 177-217 1-47 (47)
54 KOG4159 Predicted E3 ubiquitin 97.2 0.00022 4.8E-09 64.8 2.4 47 173-222 83-129 (398)
55 KOG1785 Tyrosine kinase negati 97.2 0.00016 3.4E-09 64.9 1.3 48 175-225 370-419 (563)
56 KOG2879 Predicted E3 ubiquitin 97.0 0.00078 1.7E-08 57.7 3.6 50 171-222 236-287 (298)
57 KOG2660 Locus-specific chromos 96.8 0.00024 5.3E-09 62.2 -0.3 46 174-221 15-60 (331)
58 KOG1813 Predicted E3 ubiquitin 96.8 0.00039 8.5E-09 60.1 0.9 44 175-221 242-285 (313)
59 PF05883 Baculo_RING: Baculovi 96.7 0.0005 1.1E-08 53.1 0.8 35 174-208 26-66 (134)
60 KOG1002 Nucleotide excision re 96.7 0.00077 1.7E-08 62.5 2.0 54 170-226 532-590 (791)
61 PHA02862 5L protein; Provision 96.7 0.0011 2.3E-08 51.7 2.4 49 174-224 2-55 (156)
62 PHA02825 LAP/PHD finger-like p 96.7 0.0017 3.7E-08 51.5 3.3 51 170-224 4-61 (162)
63 KOG4692 Predicted E3 ubiquitin 96.6 0.0012 2.5E-08 58.6 2.4 48 172-222 420-467 (489)
64 PF14447 Prok-RING_4: Prokaryo 96.5 0.0017 3.6E-08 42.4 1.8 48 173-225 6-53 (55)
65 PF14570 zf-RING_4: RING/Ubox 96.4 0.0028 6.1E-08 40.3 2.6 45 177-221 1-47 (48)
66 PF10367 Vps39_2: Vacuolar sor 96.1 0.0019 4.1E-08 47.6 0.8 33 172-205 76-108 (109)
67 KOG3268 Predicted E3 ubiquitin 96.0 0.0047 1E-07 49.8 2.6 56 171-226 162-232 (234)
68 KOG0801 Predicted E3 ubiquitin 95.9 0.0027 5.9E-08 50.4 0.6 32 170-201 173-204 (205)
69 PF03854 zf-P11: P-11 zinc fin 95.8 0.0025 5.4E-08 40.2 0.2 35 190-224 13-48 (50)
70 PHA03096 p28-like protein; Pro 95.8 0.0052 1.1E-07 53.7 2.0 47 175-221 179-236 (284)
71 KOG1814 Predicted E3 ubiquitin 95.8 0.0046 1E-07 55.9 1.7 45 174-218 184-236 (445)
72 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.012 2.5E-07 50.9 3.9 54 171-225 110-164 (260)
73 COG5236 Uncharacterized conser 95.7 0.024 5.2E-07 50.3 5.7 50 169-221 56-107 (493)
74 KOG3039 Uncharacterized conser 95.6 0.013 2.7E-07 49.8 3.3 53 173-225 220-273 (303)
75 KOG4275 Predicted E3 ubiquitin 95.5 0.0018 4E-08 56.0 -1.7 43 173-222 299-342 (350)
76 PF08746 zf-RING-like: RING-li 95.2 0.011 2.3E-07 36.9 1.4 41 177-217 1-43 (43)
77 KOG1571 Predicted E3 ubiquitin 95.1 0.011 2.3E-07 52.7 1.8 45 172-222 303-347 (355)
78 KOG1940 Zn-finger protein [Gen 95.1 0.012 2.6E-07 51.0 2.0 46 174-219 158-204 (276)
79 KOG3970 Predicted E3 ubiquitin 94.6 0.031 6.7E-07 46.9 3.0 50 172-222 48-105 (299)
80 COG5175 MOT2 Transcriptional r 94.6 0.029 6.3E-07 49.7 3.0 55 167-221 7-63 (480)
81 COG5222 Uncharacterized conser 94.4 0.022 4.9E-07 49.6 1.8 47 175-223 275-323 (427)
82 COG5183 SSM4 Protein involved 93.4 0.049 1.1E-06 53.2 2.3 53 172-225 10-69 (1175)
83 KOG2114 Vacuolar assembly/sort 93.2 0.041 9E-07 53.9 1.5 41 175-220 841-881 (933)
84 KOG3002 Zn finger protein [Gen 93.2 0.052 1.1E-06 47.8 1.9 43 173-222 47-91 (299)
85 KOG2932 E3 ubiquitin ligase in 92.9 0.026 5.7E-07 49.4 -0.3 44 176-223 92-135 (389)
86 KOG2817 Predicted E3 ubiquitin 92.7 0.1 2.2E-06 47.2 3.1 46 174-219 334-382 (394)
87 KOG0827 Predicted E3 ubiquitin 92.7 0.0073 1.6E-07 54.2 -4.0 50 174-223 196-246 (465)
88 KOG1001 Helicase-like transcri 92.4 0.037 8E-07 53.9 -0.1 44 175-222 455-500 (674)
89 KOG3053 Uncharacterized conser 92.1 0.067 1.5E-06 45.7 1.2 52 170-222 16-82 (293)
90 KOG0309 Conserved WD40 repeat- 92.1 0.092 2E-06 51.1 2.2 30 187-216 1040-1069(1081)
91 KOG0826 Predicted E3 ubiquitin 92.0 0.1 2.2E-06 46.0 2.3 52 170-223 296-347 (357)
92 KOG2034 Vacuolar sorting prote 91.2 0.099 2.1E-06 51.6 1.4 39 169-208 812-850 (911)
93 KOG0298 DEAD box-containing he 91.1 0.064 1.4E-06 54.9 0.0 44 174-219 1153-1196(1394)
94 KOG1609 Protein involved in mR 90.7 0.15 3.1E-06 44.7 1.9 49 174-222 78-134 (323)
95 KOG1812 Predicted E3 ubiquitin 90.4 0.14 3E-06 46.8 1.5 39 173-211 145-184 (384)
96 PF07800 DUF1644: Protein of u 90.1 0.39 8.5E-06 38.2 3.6 36 174-209 2-47 (162)
97 PF10272 Tmpp129: Putative tra 89.7 0.2 4.4E-06 45.2 1.9 29 195-223 311-352 (358)
98 PF02891 zf-MIZ: MIZ/SP-RING z 88.0 0.49 1.1E-05 30.3 2.3 43 175-220 3-50 (50)
99 KOG4362 Transcriptional regula 86.6 0.16 3.5E-06 49.1 -0.7 45 175-222 22-69 (684)
100 PF14446 Prok-RING_1: Prokaryo 86.2 0.94 2E-05 29.5 2.9 45 174-222 5-52 (54)
101 KOG0802 E3 ubiquitin ligase [P 86.1 0.35 7.7E-06 46.1 1.3 49 171-226 476-524 (543)
102 KOG1829 Uncharacterized conser 85.7 0.28 6.1E-06 46.8 0.5 42 174-218 511-557 (580)
103 PF05290 Baculo_IE-1: Baculovi 83.5 1 2.2E-05 34.9 2.5 52 173-224 79-134 (140)
104 KOG3899 Uncharacterized conser 81.0 0.79 1.7E-05 40.0 1.3 29 195-223 325-366 (381)
105 smart00249 PHD PHD zinc finger 79.6 1 2.2E-05 27.1 1.1 31 176-206 1-31 (47)
106 KOG1815 Predicted E3 ubiquitin 79.1 1.2 2.7E-05 41.3 2.0 37 173-211 69-105 (444)
107 PF13901 DUF4206: Domain of un 79.0 1.5 3.3E-05 36.4 2.3 41 174-219 152-197 (202)
108 KOG2066 Vacuolar assembly/sort 78.5 0.75 1.6E-05 45.1 0.4 43 174-217 784-830 (846)
109 COG5220 TFB3 Cdk activating ki 77.0 0.72 1.6E-05 39.2 -0.2 47 174-220 10-62 (314)
110 KOG3579 Predicted E3 ubiquitin 76.8 1.3 2.8E-05 38.6 1.3 45 174-221 268-327 (352)
111 COG5109 Uncharacterized conser 75.1 2.6 5.6E-05 37.3 2.7 46 174-219 336-384 (396)
112 KOG1100 Predicted E3 ubiquitin 74.9 1.5 3.4E-05 36.5 1.3 39 176-221 160-199 (207)
113 KOG3161 Predicted E3 ubiquitin 74.4 1.3 2.8E-05 42.7 0.8 39 175-215 12-51 (861)
114 PF14569 zf-UDP: Zinc-binding 71.2 4.5 9.8E-05 28.4 2.6 49 174-222 9-62 (80)
115 KOG0825 PHD Zn-finger protein 70.8 3 6.4E-05 41.3 2.3 49 173-221 95-153 (1134)
116 KOG2068 MOT2 transcription fac 68.3 4.5 9.8E-05 36.0 2.7 50 175-224 250-300 (327)
117 KOG3039 Uncharacterized conser 68.0 3.9 8.4E-05 35.0 2.1 33 174-209 43-75 (303)
118 PF00628 PHD: PHD-finger; Int 66.4 1.9 4.2E-05 27.0 0.0 43 176-218 1-49 (51)
119 PF04710 Pellino: Pellino; In 65.7 2 4.3E-05 39.1 0.0 45 175-222 278-339 (416)
120 KOG4718 Non-SMC (structural ma 64.7 4.1 8.9E-05 34.1 1.6 46 174-221 181-226 (235)
121 PF07191 zinc-ribbons_6: zinc- 64.3 0.46 1E-05 32.6 -3.3 40 175-222 2-41 (70)
122 KOG2113 Predicted RNA binding 62.8 33 0.00071 30.6 6.9 41 175-220 344-385 (394)
123 KOG2071 mRNA cleavage and poly 61.4 5.2 0.00011 38.3 1.9 36 172-207 511-556 (579)
124 KOG0269 WD40 repeat-containing 60.6 7 0.00015 38.5 2.6 43 176-219 781-825 (839)
125 PF14169 YdjO: Cold-inducible 60.3 4.7 0.0001 26.8 1.0 14 211-224 39-52 (59)
126 smart00064 FYVE Protein presen 59.4 5.5 0.00012 26.6 1.3 37 173-209 9-46 (68)
127 PF13717 zinc_ribbon_4: zinc-r 59.2 5.7 0.00012 23.5 1.2 25 176-200 4-36 (36)
128 PF10571 UPF0547: Uncharacteri 57.7 6.2 0.00013 21.7 1.1 23 176-199 2-24 (26)
129 PF06844 DUF1244: Protein of u 55.8 7.5 0.00016 26.4 1.4 11 199-209 12-22 (68)
130 PLN02189 cellulose synthase 55.6 9.8 0.00021 39.0 2.8 48 175-222 35-87 (1040)
131 KOG3005 GIY-YIG type nuclease 55.6 6.4 0.00014 34.1 1.3 47 175-221 183-242 (276)
132 PF13719 zinc_ribbon_5: zinc-r 55.4 6.8 0.00015 23.2 1.1 25 176-200 4-36 (37)
133 KOG1812 Predicted E3 ubiquitin 54.0 6.6 0.00014 35.9 1.2 43 175-217 307-351 (384)
134 cd00350 rubredoxin_like Rubred 53.0 12 0.00025 21.6 1.8 10 210-219 16-25 (33)
135 PF07975 C1_4: TFIIH C1-like d 52.4 7.4 0.00016 25.1 0.9 29 190-218 22-50 (51)
136 PF07649 C1_3: C1-like domain; 47.0 12 0.00025 20.9 1.1 29 176-204 2-30 (30)
137 PF01363 FYVE: FYVE zinc finge 46.8 4.7 0.0001 27.0 -0.7 37 172-208 7-44 (69)
138 PF10235 Cript: Microtubule-as 46.8 9.2 0.0002 27.6 0.8 35 175-221 45-79 (90)
139 PF03119 DNA_ligase_ZBD: NAD-d 46.7 6.4 0.00014 21.9 -0.0 13 213-225 1-13 (28)
140 PF04423 Rad50_zn_hook: Rad50 45.9 6.2 0.00014 25.3 -0.2 10 213-222 22-31 (54)
141 PLN02638 cellulose synthase A 44.5 17 0.00037 37.4 2.5 48 175-222 18-70 (1079)
142 smart00734 ZnF_Rad18 Rad18-lik 44.1 11 0.00024 20.5 0.7 9 213-221 3-11 (26)
143 KOG3113 Uncharacterized conser 44.0 21 0.00046 30.7 2.7 51 173-225 110-161 (293)
144 TIGR00622 ssl1 transcription f 42.8 34 0.00074 25.8 3.3 45 175-219 56-111 (112)
145 PLN02436 cellulose synthase A 42.6 21 0.00045 36.9 2.8 48 175-222 37-89 (1094)
146 cd00065 FYVE FYVE domain; Zinc 42.6 21 0.00045 22.7 1.9 35 175-209 3-38 (57)
147 KOG3842 Adaptor protein Pellin 41.7 27 0.00059 31.1 3.1 50 173-222 340-414 (429)
148 PRK05978 hypothetical protein; 41.6 16 0.00035 28.9 1.5 25 196-225 42-66 (148)
149 PRK00418 DNA gyrase inhibitor; 40.9 17 0.00037 24.4 1.3 13 211-223 6-18 (62)
150 smart00132 LIM Zinc-binding do 40.7 26 0.00057 19.8 2.0 37 176-221 1-37 (39)
151 PRK11827 hypothetical protein; 40.6 11 0.00023 25.2 0.3 21 205-225 2-22 (60)
152 KOG2979 Protein involved in DN 39.8 16 0.00034 31.5 1.3 45 174-220 176-222 (262)
153 KOG1729 FYVE finger containing 39.1 6.8 0.00015 34.4 -1.0 38 173-210 213-250 (288)
154 COG3813 Uncharacterized protei 38.8 23 0.00049 24.6 1.7 45 176-223 7-53 (84)
155 PF13832 zf-HC5HC2H_2: PHD-zin 38.5 26 0.00056 25.6 2.1 32 174-207 55-88 (110)
156 PF02318 FYVE_2: FYVE-type zin 38.1 16 0.00034 27.5 0.9 45 173-219 53-102 (118)
157 KOG0824 Predicted E3 ubiquitin 37.6 11 0.00025 33.1 0.1 47 173-221 104-150 (324)
158 PF13240 zinc_ribbon_2: zinc-r 37.5 5.3 0.00012 21.2 -1.2 8 213-220 15-22 (23)
159 PLN02400 cellulose synthase 37.5 19 0.00041 37.2 1.6 48 175-222 37-89 (1085)
160 cd00729 rubredoxin_SM Rubredox 36.2 28 0.00061 20.2 1.6 9 212-220 19-27 (34)
161 COG0267 RpmG Ribosomal protein 35.3 10 0.00022 24.3 -0.4 19 208-226 31-49 (50)
162 PF15616 TerY-C: TerY-C metal 34.7 14 0.00031 28.5 0.2 44 173-225 76-119 (131)
163 PF09723 Zn-ribbon_8: Zinc rib 34.6 7.8 0.00017 23.6 -1.0 30 192-222 8-38 (42)
164 PF10497 zf-4CXXC_R1: Zinc-fin 33.6 52 0.0011 24.3 3.1 24 196-219 37-69 (105)
165 PF06906 DUF1272: Protein of u 33.1 94 0.002 20.4 3.8 46 175-223 6-53 (57)
166 KOG4185 Predicted E3 ubiquitin 32.4 8.5 0.00018 33.5 -1.6 47 174-220 207-265 (296)
167 KOG2807 RNA polymerase II tran 31.1 52 0.0011 29.5 3.1 46 174-219 330-375 (378)
168 PLN02915 cellulose synthase A 30.2 43 0.00094 34.5 2.8 50 173-222 14-68 (1044)
169 smart00647 IBR In Between Ring 30.1 13 0.00028 24.0 -0.6 20 189-208 39-59 (64)
170 KOG3799 Rab3 effector RIM1 and 30.0 13 0.00027 29.0 -0.7 50 171-220 62-116 (169)
171 COG4068 Uncharacterized protei 29.5 32 0.0007 22.8 1.2 16 211-226 8-23 (64)
172 PF14353 CpXC: CpXC protein 29.3 52 0.0011 24.8 2.6 45 176-223 3-50 (128)
173 PRK01343 zinc-binding protein; 29.1 29 0.00063 22.9 0.9 12 211-222 9-20 (57)
174 PF14311 DUF4379: Domain of un 28.8 33 0.00071 21.9 1.2 23 194-217 33-55 (55)
175 TIGR01023 rpmG_bact ribosomal 27.9 20 0.00043 23.3 -0.0 19 208-226 35-53 (54)
176 PRK00595 rpmG 50S ribosomal pr 27.7 19 0.00041 23.3 -0.1 19 208-226 34-52 (53)
177 COG2835 Uncharacterized conser 26.9 30 0.00065 23.0 0.7 14 213-226 10-23 (60)
178 TIGR02605 CxxC_CxxC_SSSS putat 25.9 26 0.00057 21.9 0.3 23 192-219 8-34 (52)
179 COG3492 Uncharacterized protei 25.9 33 0.00071 24.8 0.8 11 199-209 43-53 (104)
180 PF13771 zf-HC5HC2H: PHD-like 25.3 40 0.00087 23.5 1.2 32 175-206 37-68 (90)
181 smart00531 TFIIE Transcription 25.3 45 0.00097 26.0 1.6 41 173-226 98-138 (147)
182 COG5627 MMS21 DNA repair prote 24.1 39 0.00085 28.9 1.1 46 174-221 189-238 (275)
183 TIGR01206 lysW lysine biosynth 24.0 39 0.00085 21.9 0.9 14 212-225 3-16 (54)
184 PRK00504 rpmG 50S ribosomal pr 23.4 26 0.00057 22.4 -0.1 19 208-226 31-49 (50)
185 KOG1512 PHD Zn-finger protein 23.4 49 0.0011 29.1 1.5 53 172-224 256-327 (381)
186 KOG2017 Molybdopterin synthase 23.3 23 0.0005 32.1 -0.4 24 171-194 375-398 (427)
187 COG2824 PhnA Uncharacterized Z 22.9 24 0.00052 26.3 -0.4 29 175-209 4-32 (112)
188 KOG1245 Chromatin remodeling c 22.7 32 0.00069 36.8 0.3 53 169-221 1103-1159(1404)
189 CHL00104 rpl33 ribosomal prote 22.3 29 0.00062 23.6 -0.0 19 208-226 46-64 (66)
190 PF04216 FdhE: Protein involve 22.1 6.8 0.00015 34.2 -4.0 48 173-220 171-220 (290)
191 KOG4021 Mitochondrial ribosoma 21.7 43 0.00092 27.8 0.8 22 201-222 97-119 (239)
192 PF00412 LIM: LIM domain; Int 21.1 47 0.001 20.8 0.8 13 174-186 26-38 (58)
193 PF09538 FYDLN_acid: Protein o 20.6 79 0.0017 23.5 2.0 31 172-202 7-39 (108)
194 PRK00398 rpoP DNA-directed RNA 20.5 40 0.00087 20.7 0.4 14 212-225 22-35 (46)
195 TIGR00686 phnA alkylphosphonat 20.2 51 0.0011 24.6 0.9 25 175-199 3-29 (109)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.65 E-value=3.5e-17 Score=103.45 Aligned_cols=44 Identities=45% Similarity=1.122 Sum_probs=40.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCG 218 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 218 (227)
++|+||+++|..++.++.++|+|.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 47999999999888899999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=2.9e-15 Score=131.89 Aligned_cols=49 Identities=37% Similarity=0.936 Sum_probs=44.7
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS-ENCPVCGKVMVF 223 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~-~tCPvCr~~v~~ 223 (227)
+.|+||||+|..++.+++|||+|.||..||++||... ..||+||+++..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 4999999999999999999999999999999999766 459999997754
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.47 E-value=2.6e-14 Score=100.00 Aligned_cols=46 Identities=35% Similarity=0.954 Sum_probs=37.8
Q ss_pred CCcccccccccccC----------CCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 040167 173 DEDVCPTCLEEYTP----------ENPKIVTKCSHHFHLGCIYEWMERSENCPVCG 218 (227)
Q Consensus 173 ~~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 218 (227)
.++.|+||++.|.+ +..++..+|+|.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 34569999999943 24567789999999999999999999999997
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=8.3e-14 Score=121.96 Aligned_cols=55 Identities=31% Similarity=0.982 Sum_probs=47.4
Q ss_pred CCCccccccccc-ccCC---------CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccCC
Q 040167 172 EDEDVCPTCLEE-YTPE---------NPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDET 226 (227)
Q Consensus 172 ~~~~~C~ICle~-~~~~---------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e~ 226 (227)
.++..|.||+|+ +..+ ..++.+||||+||++|++.|+||+++||+||.++.+++.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence 356799999999 4443 245789999999999999999999999999999998874
No 5
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.39 E-value=2.4e-13 Score=96.46 Aligned_cols=53 Identities=36% Similarity=0.942 Sum_probs=45.3
Q ss_pred CCcccccccccccC----------CCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTP----------ENPKIVTKCSHHFHLGCIYEWMER---SENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~v~~~e 225 (227)
.++.|.||+..|+. +-+++.-.|+|.||..||.+||+. +..||+||+++.++|
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~ 85 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE 85 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence 46899999999874 236778889999999999999975 468999999999876
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.34 E-value=8e-13 Score=111.71 Aligned_cols=50 Identities=28% Similarity=0.798 Sum_probs=42.5
Q ss_pred CCcccccccccccCCC-----CceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTPEN-----PKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~-----~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
.+.+|+||++.+.... ..++++|+|.||..||.+|++++.+||+||+.+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 4579999999987533 1356789999999999999999999999999765
No 7
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=8.7e-12 Score=99.45 Aligned_cols=52 Identities=31% Similarity=0.735 Sum_probs=44.3
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCccc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFD 224 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~ 224 (227)
+.-..|||||+.|.. ...+.++|||+||..||+.-++....||+|++.|..+
T Consensus 129 ~~~~~CPiCl~~~se-k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE-KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhh-ccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 344789999999985 3346699999999999999999999999999977554
No 8
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=1.6e-12 Score=111.33 Aligned_cols=51 Identities=29% Similarity=0.810 Sum_probs=46.5
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME-RSENCPVCGKVMVF 223 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~v~~ 223 (227)
..-+|+|||+.|..++..+++||.|.||..||.+||. -+..||+||.+++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3468999999999888899999999999999999996 78899999999864
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.23 E-value=5e-12 Score=81.88 Aligned_cols=46 Identities=26% Similarity=0.774 Sum_probs=40.6
Q ss_pred CcccccccccccCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHH-FHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
+..|.||++.... .+++||||. |+..|+.+|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4689999999776 899999999 999999999999999999999874
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.22 E-value=1.1e-11 Score=101.14 Aligned_cols=50 Identities=32% Similarity=0.685 Sum_probs=41.5
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhc----------------CCCCCccCCCCcc
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER----------------SENCPVCGKVMVF 223 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~----------------~~tCPvCr~~v~~ 223 (227)
..++..|+||++.+.+ .++++|||.||..||.+|+.. ...||+||..+..
T Consensus 15 ~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3356799999999876 677999999999999999852 2479999998854
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.19 E-value=8.8e-12 Score=76.57 Aligned_cols=39 Identities=46% Similarity=1.166 Sum_probs=34.0
Q ss_pred cccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 217 (227)
|+||++.+.+ +.+.++|||.|+..||.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999876 55799999999999999999998999998
No 12
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.19 E-value=1.8e-11 Score=76.16 Aligned_cols=44 Identities=36% Similarity=1.059 Sum_probs=37.6
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER-SENCPVCGKVM 221 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~v 221 (227)
.|+||++.+ .+...+++|+|.||..|+..|++. +..||+||+.+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 345667779999999999999987 77899999864
No 13
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.12 E-value=2.5e-11 Score=84.21 Aligned_cols=53 Identities=32% Similarity=0.749 Sum_probs=43.7
Q ss_pred CcccccccccccC-------------CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccCC
Q 040167 174 EDVCPTCLEEYTP-------------ENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDET 226 (227)
Q Consensus 174 ~~~C~ICle~~~~-------------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e~ 226 (227)
-++|.||...|.. +-+++.-.|.|.||..||++||..++.||++|+.+.+.+.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence 3678888766643 2367778899999999999999999999999999887653
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.5e-11 Score=99.23 Aligned_cols=51 Identities=33% Similarity=0.782 Sum_probs=42.9
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcccC
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER---SENCPVCGKVMVFDE 225 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~v~~~e 225 (227)
.....|.||||.-.+ .+++.|||.||..||++||.. ++.|||||..|..++
T Consensus 45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 456799999998776 888999999999999999964 457999999886553
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.08 E-value=8.2e-11 Score=74.16 Aligned_cols=44 Identities=34% Similarity=0.812 Sum_probs=39.9
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
.|+||++.|..+....+++|||+|+..||..++.....||+||+
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 49999999976778999999999999999999977789999986
No 16
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=5.5e-11 Score=101.51 Aligned_cols=52 Identities=31% Similarity=0.735 Sum_probs=45.6
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
.+....|.||||.... +..+||||+||..||.+|...+..||+||..+...+
T Consensus 236 ~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 3456799999999766 788999999999999999999999999999887654
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=8.2e-11 Score=73.42 Aligned_cols=38 Identities=29% Similarity=0.856 Sum_probs=30.3
Q ss_pred cccccccccCCCCceecCCCCccCHHHHHHHHhcC----CCCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS----ENCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCPvC 217 (227)
|+||++.|.+ .+.++|||.|+..||.+|++.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999998 8999999999999999999654 369987
No 18
>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=99.01 E-value=3.6e-10 Score=76.20 Aligned_cols=47 Identities=19% Similarity=0.453 Sum_probs=41.9
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCccc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFD 224 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~ 224 (227)
..|+||++.+.+ .++++|||+|++.||.+|++.+.+||+|++.+..+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 479999999886 57889999999999999998889999999987544
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=99.01 E-value=2e-10 Score=94.97 Aligned_cols=52 Identities=27% Similarity=0.668 Sum_probs=40.6
Q ss_pred CCCcccccccccccCC------CCceecCCCCccCHHHHHHHHhcC------CCCCccCCCCcc
Q 040167 172 EDEDVCPTCLEEYTPE------NPKIVTKCSHHFHLGCIYEWMERS------ENCPVCGKVMVF 223 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~------~~~~~l~C~H~FH~~CI~~Wl~~~------~tCPvCr~~v~~ 223 (227)
..+.+|+||||..... ...++.+|+|.||..||..|.+.+ .+||+||..+.+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3468999999986431 135678999999999999999753 359999997654
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=1.4e-10 Score=109.49 Aligned_cols=49 Identities=35% Similarity=0.897 Sum_probs=43.4
Q ss_pred CCcccccccccccCCCC--ceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 173 DEDVCPTCLEEYTPENP--KIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~--~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
.++.|+||+|++..+.. ..+++|+|+||..|++.||+++++||+||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 46899999999987543 67899999999999999999999999999843
No 21
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.98 E-value=2.9e-10 Score=70.30 Aligned_cols=39 Identities=44% Similarity=1.189 Sum_probs=33.8
Q ss_pred cccccccccCCCCceecCCCCccCHHHHHHHHh--cCCCCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME--RSENCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~--~~~tCPvC 217 (227)
|+||++.+.. +..+++|+|.|+..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999999876 235999999999999999998 55679998
No 22
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=8.2e-11 Score=81.00 Aligned_cols=53 Identities=28% Similarity=0.810 Sum_probs=43.8
Q ss_pred CCcccccccccccC----------CCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTP----------ENPKIVTKCSHHFHLGCIYEWMER---SENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~v~~~e 225 (227)
.+++|.||...|+. +-++++-.|.|.||..||.+|+.. +..||+||+.+.++|
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e 84 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE 84 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence 34599999999865 336777789999999999999954 457999999998875
No 23
>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=98.94 E-value=6.9e-10 Score=66.58 Aligned_cols=38 Identities=42% Similarity=1.182 Sum_probs=33.3
Q ss_pred cccccccccCCCCceecCCCCccCHHHHHHHHh-cCCCCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME-RSENCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvC 217 (227)
|+||++.. ...+.++|+|.||..||..|++ ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999984 3488899999999999999998 66789987
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.80 E-value=3.4e-09 Score=95.76 Aligned_cols=49 Identities=24% Similarity=0.554 Sum_probs=42.8
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
+....|+||++.|.. .++++|+|.||..||..|+.....||+||..+..
T Consensus 24 e~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 345799999999875 5679999999999999999988899999998754
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.69 E-value=9.6e-09 Score=64.25 Aligned_cols=38 Identities=39% Similarity=0.959 Sum_probs=23.7
Q ss_pred ccccccccc-CCCCceecCCCCccCHHHHHHHHhcC----CCCC
Q 040167 177 CPTCLEEYT-PENPKIVTKCSHHFHLGCIYEWMERS----ENCP 215 (227)
Q Consensus 177 C~ICle~~~-~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCP 215 (227)
|+||.| |. .+++.++|+|||.|+.+||.+|++.+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75 47788999999999999999999754 3576
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=2.6e-08 Score=84.30 Aligned_cols=51 Identities=29% Similarity=0.627 Sum_probs=43.3
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHH-HHhcCC-CCCccCCCCcccC
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYE-WMERSE-NCPVCGKVMVFDE 225 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~-Wl~~~~-tCPvCr~~v~~~e 225 (227)
+.+..|+||+|.... ...++|||+||..||.. |=.++. .||+||+.+..++
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 567899999999776 88999999999999999 986655 5999999876554
No 27
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.54 E-value=5.9e-08 Score=62.50 Aligned_cols=42 Identities=26% Similarity=0.827 Sum_probs=32.6
Q ss_pred ccccccccccCCCCceecCCC-----CccCHHHHHHHHhcC--CCCCccC
Q 040167 176 VCPTCLEEYTPENPKIVTKCS-----HHFHLGCIYEWMERS--ENCPVCG 218 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~--~tCPvCr 218 (227)
.|.||++..++++ ..+.||. |.||..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~~~~-~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGD-PLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCC-eeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999444444 4578995 999999999999544 4899995
No 28
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=4e-08 Score=71.65 Aligned_cols=54 Identities=30% Similarity=0.621 Sum_probs=43.5
Q ss_pred CCCcccccccccccC--------------CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 172 EDEDVCPTCLEEYTP--------------ENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 172 ~~~~~C~ICle~~~~--------------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
..-+.|+||..-+-+ +-.+..--|+|.||..||.+||+.++.||+|.++..++.
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR 111 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence 355799999754321 234667789999999999999999999999999988764
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=6e-08 Score=88.78 Aligned_cols=49 Identities=31% Similarity=0.756 Sum_probs=40.7
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcC-----CCCCccCCCCcccC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS-----ENCPVCGKVMVFDE 225 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~-----~tCPvCr~~v~~~e 225 (227)
+..|||||++... ..++.|||+||..||.+++..+ ..||+|+..+-.+|
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 6799999999776 6677799999999999988654 47999998776543
No 30
>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=98.47 E-value=9.2e-08 Score=66.74 Aligned_cols=50 Identities=20% Similarity=0.406 Sum_probs=39.7
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER-SENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~v~~~e 225 (227)
++..|+|+.+-+.+ .+++++||.|.+.+|.+||+. ..+||++++.+...+
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 34689999999998 889999999999999999988 889999999876543
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=6.4e-08 Score=88.06 Aligned_cols=51 Identities=27% Similarity=0.698 Sum_probs=41.0
Q ss_pred CCCcccccccccccC---CCC-----------ceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 040167 172 EDEDVCPTCLEEYTP---ENP-----------KIVTKCSHHFHLGCIYEWME-RSENCPVCGKVMV 222 (227)
Q Consensus 172 ~~~~~C~ICle~~~~---~~~-----------~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~v~ 222 (227)
+....|+||+.++.. +.. -.++||.|+||..|+.+||+ .+-.||+||.+++
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 445689999988754 111 24579999999999999998 6679999999886
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.44 E-value=3.3e-08 Score=68.46 Aligned_cols=51 Identities=29% Similarity=0.741 Sum_probs=25.4
Q ss_pred Cccccccccccc-CCC-Ccee---cCCCCccCHHHHHHHHhcC-----------CCCCccCCCCccc
Q 040167 174 EDVCPTCLEEYT-PEN-PKIV---TKCSHHFHLGCIYEWMERS-----------ENCPVCGKVMVFD 224 (227)
Q Consensus 174 ~~~C~ICle~~~-~~~-~~~~---l~C~H~FH~~CI~~Wl~~~-----------~tCPvCr~~v~~~ 224 (227)
+..|.||++... .+. +.++ ..|++.||..||.+||+.. .+||.|+++|..+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 368999999866 322 2222 3799999999999999631 2599999988654
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=1.5e-07 Score=79.92 Aligned_cols=52 Identities=25% Similarity=0.650 Sum_probs=42.4
Q ss_pred CCcccccccccccCCC-------CceecCCCCccCHHHHHHHH--hcCCCCCccCCCCccc
Q 040167 173 DEDVCPTCLEEYTPEN-------PKIVTKCSHHFHLGCIYEWM--ERSENCPVCGKVMVFD 224 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~-------~~~~l~C~H~FH~~CI~~Wl--~~~~tCPvCr~~v~~~ 224 (227)
++..|.||-..+.... ..-.|.|+|.||..||+-|- ..+++||.|++.+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 4469999988876633 45679999999999999996 6788999999877543
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.23 E-value=3.5e-07 Score=88.71 Aligned_cols=52 Identities=29% Similarity=0.854 Sum_probs=41.0
Q ss_pred CCCcccccccccccC-CC---CceecCCCCccCHHHHHHHHhcC--CCCCccCCCCcc
Q 040167 172 EDEDVCPTCLEEYTP-EN---PKIVTKCSHHFHLGCIYEWMERS--ENCPVCGKVMVF 223 (227)
Q Consensus 172 ~~~~~C~ICle~~~~-~~---~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~v~~ 223 (227)
+.-++|+||...+.. +. .++...|.|.||..|+++|++.+ .+||+||.++.|
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 455789999887662 22 24567799999999999999765 589999998876
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=4.9e-07 Score=77.22 Aligned_cols=46 Identities=33% Similarity=0.787 Sum_probs=40.4
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
.+++..|+||++.|.. .++++|+|.||..||..|+.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 3466799999999997 389999999999999999986678999994
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.15 E-value=7.6e-07 Score=77.88 Aligned_cols=46 Identities=28% Similarity=0.666 Sum_probs=41.7
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
-..|-||.|-|.. .+++||+|.||.-||..+|..+..||.|+.++.
T Consensus 23 lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 3589999999987 889999999999999999999999999987653
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.11 E-value=1.3e-06 Score=74.97 Aligned_cols=44 Identities=27% Similarity=0.482 Sum_probs=40.9
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
..|-||-+-|.. ...++|||.||.-||...|..+..||+||.+.
T Consensus 26 lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 26 LRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 689999998887 88999999999999999999999999999864
No 38
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.5e-06 Score=77.41 Aligned_cols=52 Identities=33% Similarity=0.796 Sum_probs=41.0
Q ss_pred CCCcccccccccccCCC-----CceecCCCCccCHHHHHHHH--hc-----CCCCCccCCCCcc
Q 040167 172 EDEDVCPTCLEEYTPEN-----PKIVTKCSHHFHLGCIYEWM--ER-----SENCPVCGKVMVF 223 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~-----~~~~l~C~H~FH~~CI~~Wl--~~-----~~tCPvCr~~v~~ 223 (227)
..+.+|.||+|...... -.++++|.|.||..||..|. .+ +..||.||....+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 34679999999987633 23447799999999999999 44 4789999987654
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.04 E-value=2.4e-06 Score=77.22 Aligned_cols=50 Identities=30% Similarity=0.813 Sum_probs=40.7
Q ss_pred CCCCcccccccccccCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 171 SEDEDVCPTCLEEYTPEN-PKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
..+-.+||+|||.++... .++.+.|.|.||..|+.+|- ..+|||||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 345679999999998743 55678899999999999997 568999997543
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=6.2e-06 Score=72.79 Aligned_cols=48 Identities=29% Similarity=0.675 Sum_probs=41.6
Q ss_pred CCCcccccccccccCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHH-FHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
+...+|.|||.+..+ .++|||.|. .|.+|.+...-..+.||+||+.+.
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 446799999999887 899999996 788999998777889999999763
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.89 E-value=2.9e-06 Score=57.04 Aligned_cols=47 Identities=26% Similarity=0.658 Sum_probs=24.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
..|+||.+-+.. ++.+..|.|+|+..||..-+. ..||+|+.+.-.+|
T Consensus 8 LrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 589999998764 566789999999999988654 35999998765544
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.76 E-value=5.1e-06 Score=79.47 Aligned_cols=50 Identities=24% Similarity=0.551 Sum_probs=44.6
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
.....|+|||..+.++......+|+|.||.+||..|-+.-++||+||+++
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 34568999999998877777889999999999999999999999999864
No 43
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.65 E-value=1.1e-05 Score=69.64 Aligned_cols=53 Identities=26% Similarity=0.699 Sum_probs=44.8
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhc-----------------------CCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER-----------------------SENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----------------------~~tCPvCr~~v~~~e 225 (227)
....|.|||--|.++...++++|.|.||..|+.++|.. ...|||||..+..++
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 34689999999999888999999999999999888732 236999999887765
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.62 E-value=1.4e-05 Score=51.87 Aligned_cols=45 Identities=22% Similarity=0.576 Sum_probs=35.2
Q ss_pred cccccccccccCCCCceecCCCCc-cCHHHHHHHH-hcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHH-FHLGCIYEWM-ERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl-~~~~tCPvCr~~v~ 222 (227)
++|.||+|...+ .++-.|||. .+.+|-.+-+ ..+..||+||.++.
T Consensus 8 dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 799999998766 677889996 5667755544 57889999998763
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=8.1e-06 Score=71.91 Aligned_cols=49 Identities=29% Similarity=0.740 Sum_probs=40.0
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME-RSENCPVCGKVMVF 223 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~v~~ 223 (227)
.+..|+|||+.+.. .+....|.|.||..||..-|+ ..++||-||+.+.-
T Consensus 42 ~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34689999998864 455677999999999999995 45689999998754
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.57 E-value=3.3e-05 Score=51.25 Aligned_cols=42 Identities=33% Similarity=0.729 Sum_probs=29.1
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhc--CCCCCc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER--SENCPV 216 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPv 216 (227)
-...|||.+..|.+ |++...|+|.|-++.|.+||.+ ...||+
T Consensus 10 ~~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34689999999874 6677899999999999999943 457998
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=3.8e-05 Score=73.70 Aligned_cols=48 Identities=27% Similarity=0.685 Sum_probs=41.5
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcccC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME-RSENCPVCGKVMVFDE 225 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~v~~~e 225 (227)
..|+.|-..+.+ .++++|+|.||..||..-++ |...||.|...+-..|
T Consensus 644 LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 589999988877 89999999999999999995 6678999998775544
No 48
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.50 E-value=0.00016 Score=70.11 Aligned_cols=50 Identities=36% Similarity=0.782 Sum_probs=37.5
Q ss_pred CCCCCCcccccccccccCCCCc-eecCCCCccCHHHHHHHHhcCC-------CCCccC
Q 040167 169 SPSEDEDVCPTCLEEYTPENPK-IVTKCSHHFHLGCIYEWMERSE-------NCPVCG 218 (227)
Q Consensus 169 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~H~FH~~CI~~Wl~~~~-------tCPvCr 218 (227)
.+.....+|.||++.+....++ ....|-|+||+.||.+|-+... .||.|.
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 3445678999999998864332 2345789999999999985421 699998
No 49
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.34 E-value=0.00013 Score=74.08 Aligned_cols=52 Identities=33% Similarity=0.764 Sum_probs=43.9
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcC----------CCCCccCCCCc
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS----------ENCPVCGKVMV 222 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----------~tCPvCr~~v~ 222 (227)
.+.++.|.||.-+--...+.+.|-|+|+||+.|...-|++. -+||+|+.++.
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 34678999999887767889999999999999999888764 37999998764
No 50
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.33 E-value=0.00011 Score=67.11 Aligned_cols=51 Identities=29% Similarity=0.805 Sum_probs=42.3
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCccc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFD 224 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~ 224 (227)
+++..|+||...+.+ +...+.|||.||..||.+|+..+..||.|+..+...
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence 455799999998876 333369999999999999999999999998876543
No 51
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.28 E-value=9e-05 Score=60.60 Aligned_cols=44 Identities=32% Similarity=0.785 Sum_probs=40.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
..|.||-++|.. ++++.|||+||..|...-++...+|-+|.+.+
T Consensus 197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 489999999997 88999999999999999998889999998764
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.26 E-value=8.4e-05 Score=66.40 Aligned_cols=47 Identities=36% Similarity=0.686 Sum_probs=39.4
Q ss_pred CCcccccccccccCC-CCceecCCCCccCHHHHHHHHhcC--CCCCccCC
Q 040167 173 DEDVCPTCLEEYTPE-NPKIVTKCSHHFHLGCIYEWMERS--ENCPVCGK 219 (227)
Q Consensus 173 ~~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~ 219 (227)
-+.-|..|-|-|... +.+..+||.|+||..|+.+.|+.+ .+||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 356899999988763 457789999999999999999765 47999994
No 53
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.19 E-value=0.00017 Score=45.91 Aligned_cols=40 Identities=25% Similarity=0.871 Sum_probs=27.9
Q ss_pred cccccccccCCCCceecCCC-----CccCHHHHHHHHh--cCCCCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCS-----HHFHLGCIYEWME--RSENCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~--~~~tCPvC 217 (227)
|-||++.-..++ ..+.||. -..|.+|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 5668883 4789999999996 45679987
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.00022 Score=64.83 Aligned_cols=47 Identities=32% Similarity=0.771 Sum_probs=41.5
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
.+..|.||+..+.. .+.++|||.|+..||.+-|..+..||.||..+.
T Consensus 83 sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 83 SEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred chhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence 45799999888775 777899999999999998888889999998875
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.15 E-value=0.00016 Score=64.88 Aligned_cols=48 Identities=23% Similarity=0.666 Sum_probs=39.7
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhc--CCCCCccCCCCcccC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER--SENCPVCGKVMVFDE 225 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~v~~~e 225 (227)
..|-||-|.= +.+.+-||||..|..|+..|-.. .++||.||-+++-.|
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 4799999874 44889999999999999999843 579999998876443
No 56
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00078 Score=57.74 Aligned_cols=50 Identities=32% Similarity=0.672 Sum_probs=41.2
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHh--cCCCCCccCCCCc
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME--RSENCPVCGKVMV 222 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~--~~~tCPvCr~~v~ 222 (227)
...+.+|++|-+.-+ .|.+..+|+|+||--||..-+. .+.+||.|...+.
T Consensus 236 ~t~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 456779999999865 4677888999999999998775 3479999998776
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.84 E-value=0.00024 Score=62.24 Aligned_cols=46 Identities=30% Similarity=0.702 Sum_probs=39.0
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
-.+|.+|-.-|.+ ...+..|-|.||.+||.+.|+.+..||.|+..+
T Consensus 15 ~itC~LC~GYliD--ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 15 HITCRLCGGYLID--ATTITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred ceehhhccceeec--chhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 3689999877764 455688999999999999999999999997654
No 58
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00039 Score=60.10 Aligned_cols=44 Identities=30% Similarity=0.583 Sum_probs=40.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
..|-||.+.|.. .+++.|+|.||..|...-++....|.+|.+.+
T Consensus 242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccc
Confidence 469999999987 88999999999999999999999999998764
No 59
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.74 E-value=0.0005 Score=53.11 Aligned_cols=35 Identities=14% Similarity=0.404 Sum_probs=29.7
Q ss_pred CcccccccccccCCCCceecCCC------CccCHHHHHHHH
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCS------HHFHLGCIYEWM 208 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~------H~FH~~CI~~Wl 208 (227)
..+|.||++.+.....++.+.|+ |.||.+|+.+|-
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 35899999999985667777785 999999999994
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.72 E-value=0.00077 Score=62.52 Aligned_cols=54 Identities=30% Similarity=0.590 Sum_probs=43.7
Q ss_pred CCCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhc-----CCCCCccCCCCcccCC
Q 040167 170 PSEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER-----SENCPVCGKVMVFDET 226 (227)
Q Consensus 170 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----~~tCPvCr~~v~~~e~ 226 (227)
...++.+|.+|-++-.+ .+...|.|.||+-||.++.+. .-+||+|-..+..+.+
T Consensus 532 enk~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred cccCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 34466799999998666 788999999999999888752 3589999988876654
No 61
>PHA02862 5L protein; Provisional
Probab=96.72 E-value=0.0011 Score=51.75 Aligned_cols=49 Identities=18% Similarity=0.565 Sum_probs=34.7
Q ss_pred CcccccccccccCCCCceecCC---CCccCHHHHHHHHhc--CCCCCccCCCCccc
Q 040167 174 EDVCPTCLEEYTPENPKIVTKC---SHHFHLGCIYEWMER--SENCPVCGKVMVFD 224 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C---~H~FH~~CI~~Wl~~--~~tCPvCr~~v~~~ 224 (227)
.+.|-||+++-.++ ..--.| ...-|.+|+.+|+.. +..|++|+.+..++
T Consensus 2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 36899999985432 111112 367899999999954 45899999987554
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.68 E-value=0.0017 Score=51.51 Aligned_cols=51 Identities=24% Similarity=0.616 Sum_probs=37.1
Q ss_pred CCCCCcccccccccccCCCCceecCCC--C---ccCHHHHHHHHhc--CCCCCccCCCCccc
Q 040167 170 PSEDEDVCPTCLEEYTPENPKIVTKCS--H---HFHLGCIYEWMER--SENCPVCGKVMVFD 224 (227)
Q Consensus 170 ~~~~~~~C~ICle~~~~~~~~~~l~C~--H---~FH~~CI~~Wl~~--~~tCPvCr~~v~~~ 224 (227)
.+..+..|-||.++.... .-||. . .-|.+|+.+|+.. ..+|++|+++..+.
T Consensus 4 ~s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 345678999999885431 24664 3 5699999999954 45799999876543
No 63
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0012 Score=58.58 Aligned_cols=48 Identities=23% Similarity=0.695 Sum_probs=41.9
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
.+++.|+||...-.. .+..||+|.-|.+||.+.|-+.+.|=.|+..+.
T Consensus 420 sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 467899999876444 788999999999999999999999999998765
No 64
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.48 E-value=0.0017 Score=42.41 Aligned_cols=48 Identities=31% Similarity=0.610 Sum_probs=37.0
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
.+..|-.|... +...++++|+|..+..|..- ++-+-||+|.+++.+.+
T Consensus 6 ~~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 34566666554 44578999999999999543 78899999999988765
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.44 E-value=0.0028 Score=40.34 Aligned_cols=45 Identities=24% Similarity=0.569 Sum_probs=22.4
Q ss_pred cccccccccC-CCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCC
Q 040167 177 CPTCLEEYTP-ENPKIVTKCSHHFHLGCIYEWME-RSENCPVCGKVM 221 (227)
Q Consensus 177 C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~v 221 (227)
||+|.+++.. +....--+|++..++.|...-++ ....||-||++.
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 7999999954 22333345699999999888776 477899999864
No 66
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.15 E-value=0.0019 Score=47.59 Aligned_cols=33 Identities=24% Similarity=0.547 Sum_probs=28.4
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHH
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIY 205 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~ 205 (227)
+++..|++|-..+.. ...++.||||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 456789999999876 678889999999999985
No 67
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.05 E-value=0.0047 Score=49.84 Aligned_cols=56 Identities=18% Similarity=0.576 Sum_probs=40.3
Q ss_pred CCCCcccccccccccC----CCCceecCCCCccCHHHHHHHHhc-----C------CCCCccCCCCcccCC
Q 040167 171 SEDEDVCPTCLEEYTP----ENPKIVTKCSHHFHLGCIYEWMER-----S------ENCPVCGKVMVFDET 226 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~----~~~~~~l~C~H~FH~~CI~~Wl~~-----~------~tCPvCr~~v~~~e~ 226 (227)
.++-..|.||..--.+ +...--.+||.-||.-|+..||+. + ..||.|.+++..+-+
T Consensus 162 dd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 162 DDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred chhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 3445679999754323 233445789999999999999963 1 379999999877643
No 68
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.0027 Score=50.42 Aligned_cols=32 Identities=22% Similarity=0.473 Sum_probs=28.3
Q ss_pred CCCCCcccccccccccCCCCceecCCCCccCH
Q 040167 170 PSEDEDVCPTCLEEYTPENPKIVTKCSHHFHL 201 (227)
Q Consensus 170 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~ 201 (227)
...+.-+|.||||++..++.+..|||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 34566799999999999999999999999986
No 69
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.85 E-value=0.0025 Score=40.21 Aligned_cols=35 Identities=37% Similarity=0.823 Sum_probs=25.2
Q ss_pred ceecCC-CCccCHHHHHHHHhcCCCCCccCCCCccc
Q 040167 190 KIVTKC-SHHFHLGCIYEWMERSENCPVCGKVMVFD 224 (227)
Q Consensus 190 ~~~l~C-~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~ 224 (227)
..+..| .|..++.|+..-|.++..||+|+++++.+
T Consensus 13 k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 13 KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 346779 69999999999999999999999998764
No 70
>PHA03096 p28-like protein; Provisional
Probab=95.79 E-value=0.0052 Score=53.69 Aligned_cols=47 Identities=30% Similarity=0.598 Sum_probs=33.4
Q ss_pred cccccccccccCC-----CCceecCCCCccCHHHHHHHHhcC---C---CCCccCCCC
Q 040167 175 DVCPTCLEEYTPE-----NPKIVTKCSHHFHLGCIYEWMERS---E---NCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~-----~~~~~l~C~H~FH~~CI~~Wl~~~---~---tCPvCr~~v 221 (227)
..|.||+|..... .--++..|.|.|+..||..|...+ . .||+|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 5899999987642 123456799999999999999433 2 455555544
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.0046 Score=55.87 Aligned_cols=45 Identities=24% Similarity=0.423 Sum_probs=36.8
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcC--------CCCCccC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS--------ENCPVCG 218 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~--------~tCPvCr 218 (227)
-..|.||+++..-....+.+||+|+||++|++.++... -.||-++
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 35899999998766788999999999999999998532 2687653
No 72
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.72 E-value=0.012 Score=50.88 Aligned_cols=54 Identities=28% Similarity=0.564 Sum_probs=42.2
Q ss_pred CCCCcccccccccccCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 171 SEDEDVCPTCLEEYTPEN-PKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
......|||...+|.... -+.+.+|||+|-..+|.+-- ....||+|.+++...|
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCC
Confidence 456689999999996533 35567999999999999973 4568999999876443
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.69 E-value=0.024 Score=50.33 Aligned_cols=50 Identities=20% Similarity=0.479 Sum_probs=41.3
Q ss_pred CCCCCCcccccccccccCCCCceecCCCCccCHHHHHHH--HhcCCCCCccCCCC
Q 040167 169 SPSEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEW--MERSENCPVCGKVM 221 (227)
Q Consensus 169 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~W--l~~~~tCPvCr~~v 221 (227)
...+++..|.||-+.++. ..++||+|..|-.|..+. |-....||+||++.
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 345677899999999887 889999999999998654 45678999999864
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.55 E-value=0.013 Score=49.78 Aligned_cols=53 Identities=17% Similarity=0.360 Sum_probs=44.9
Q ss_pred CCcccccccccccCCCC-ceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPENP-KIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
....||||.+.+...-+ .++-+|||+|..+|+.+.+.....||||.+++.-.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 45799999999987554 455679999999999999999999999999886554
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.53 E-value=0.0018 Score=55.96 Aligned_cols=43 Identities=21% Similarity=0.652 Sum_probs=33.4
Q ss_pred CCcccccccccccCCCCceecCCCCcc-CHHHHHHHHhcCCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHF-HLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~F-H~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
....|.||++...+ .+.|+|||.. |..|-+. -+.||+||+.|+
T Consensus 299 ~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 36789999999877 8999999964 5555433 348999998764
No 76
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.19 E-value=0.011 Score=36.86 Aligned_cols=41 Identities=24% Similarity=0.636 Sum_probs=22.9
Q ss_pred cccccccccCCCCceecCCCCccCHHHHHHHHhcCC--CCCcc
Q 040167 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSE--NCPVC 217 (227)
Q Consensus 177 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~--tCPvC 217 (227)
|.+|-+....+..-....|+=.+|..|+..+++... .||.|
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 567777766644433445888999999999997655 79987
No 77
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.011 Score=52.67 Aligned_cols=45 Identities=27% Similarity=0.658 Sum_probs=34.1
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
...+.|.||+++..+ .+.+||||.-+ |+.-- +.-.+||+||+.+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 345789999999776 88999999966 66553 33345999998653
No 78
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.13 E-value=0.012 Score=51.01 Aligned_cols=46 Identities=35% Similarity=0.623 Sum_probs=38.6
Q ss_pred CcccccccccccC-CCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 174 EDVCPTCLEEYTP-ENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
+..||||.|.+.. ...+..++|+|.-|..|..+.....=+||+|.+
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 4469999998876 446778999999999999888766689999987
No 79
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.62 E-value=0.031 Score=46.86 Aligned_cols=50 Identities=22% Similarity=0.554 Sum_probs=38.9
Q ss_pred CCCcccccccccccCCCCceecCCCCccCHHHHHHHHhc--------CCCCCccCCCCc
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER--------SENCPVCGKVMV 222 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--------~~tCPvCr~~v~ 222 (227)
+-...|..|--.+..++. +.|-|-|.||.+|+.+|-.. .-.||-|.++|.
T Consensus 48 DY~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 344579999887776664 56889999999999999753 237999998874
No 80
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.58 E-value=0.029 Score=49.69 Aligned_cols=55 Identities=22% Similarity=0.504 Sum_probs=38.3
Q ss_pred ccCCCCCCcccccccccccCC-CCceecCCCCccCHHHHHHHH-hcCCCCCccCCCC
Q 040167 167 IYSPSEDEDVCPTCLEEYTPE-NPKIVTKCSHHFHLGCIYEWM-ERSENCPVCGKVM 221 (227)
Q Consensus 167 ~~~~~~~~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl-~~~~tCPvCr~~v 221 (227)
++.+.++++.||.|+|+++.. .-..--+||-..|.-|...-- ..+..||-||...
T Consensus 7 i~~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 7 IHNSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 345566778899999998863 334456789877777744432 2367899999754
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.39 E-value=0.022 Score=49.58 Aligned_cols=47 Identities=30% Similarity=0.589 Sum_probs=34.8
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHH-hcCCCCCcc-CCCCcc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWM-ERSENCPVC-GKVMVF 223 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl-~~~~tCPvC-r~~v~~ 223 (227)
..|+.|-.-+. ++....-|+|.||..||..-| +....||.| |+.+..
T Consensus 275 LkCplc~~Llr--np~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll 323 (427)
T COG5222 275 LKCPLCHCLLR--NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL 323 (427)
T ss_pred ccCcchhhhhh--CcccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence 68999977654 345444579999999999887 556789999 444443
No 82
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.39 E-value=0.049 Score=53.23 Aligned_cols=53 Identities=32% Similarity=0.745 Sum_probs=41.1
Q ss_pred CCCcccccccccccCCCCceecCCC-----CccCHHHHHHHHhcCC--CCCccCCCCcccC
Q 040167 172 EDEDVCPTCLEEYTPENPKIVTKCS-----HHFHLGCIYEWMERSE--NCPVCGKVMVFDE 225 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~~--tCPvCr~~v~~~e 225 (227)
+++..|.||.-+=..++++ .-||. -..|.+|+.+||+-+. .|-+|+.+++|++
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 3557999999886666655 35553 5689999999998654 6999999988875
No 83
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.24 E-value=0.041 Score=53.94 Aligned_cols=41 Identities=24% Similarity=0.697 Sum_probs=33.8
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKV 220 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 220 (227)
..|.+|--.++ -|.+.-.|+|.||..|+. +....||-|+-+
T Consensus 841 skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 58999976654 478889999999999988 556789999863
No 84
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.19 E-value=0.052 Score=47.84 Aligned_cols=43 Identities=26% Similarity=0.579 Sum_probs=34.5
Q ss_pred CCcccccccccccCCCCceecCC--CCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKC--SHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
+-.+||||.+.+. +-+.+| ||.-|..|=. +.++.||.||.+|.
T Consensus 47 ~lleCPvC~~~l~----~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLS----PPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCc----ccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 3468999999987 456889 7998888854 56789999998875
No 85
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.94 E-value=0.026 Score=49.38 Aligned_cols=44 Identities=23% Similarity=0.514 Sum_probs=30.1
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
-|--|--.+.. .-+.++|.|+||++|... ...+.||.|...|..
T Consensus 92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQR 135 (389)
T ss_pred eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHHH
Confidence 45555333221 245789999999999654 446689999877654
No 86
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.74 E-value=0.1 Score=47.21 Aligned_cols=46 Identities=24% Similarity=0.518 Sum_probs=39.9
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcC---CCCCccCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS---ENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~ 219 (227)
-.+|||=.+.-.++||+..|.|||+-.+.-|.+-.+.. ..||.|=.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 35999999999999999999999999999999977543 47999943
No 87
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.74 E-value=0.0073 Score=54.24 Aligned_cols=50 Identities=18% Similarity=0.482 Sum_probs=42.0
Q ss_pred CcccccccccccCC-CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 174 EDVCPTCLEEYTPE-NPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 174 ~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
...|+||.+.|... .....+-|||.+|.+||.+||.....||-|+.+++.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 35899999988764 345667899999999999999998999999987753
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.41 E-value=0.037 Score=53.94 Aligned_cols=44 Identities=30% Similarity=0.843 Sum_probs=36.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCC--CCCccCCCCc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSE--NCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~--tCPvCr~~v~ 222 (227)
..|.||++ . ...+++.|+|.||..|+.+-++... .||+||..+.
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 68999999 3 3488899999999999999886543 5999987654
No 89
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.13 E-value=0.067 Score=45.68 Aligned_cols=52 Identities=25% Similarity=0.658 Sum_probs=37.0
Q ss_pred CCCCCcccccccccccCCCCce--ecCC-----CCccCHHHHHHHHhcCC--------CCCccCCCCc
Q 040167 170 PSEDEDVCPTCLEEYTPENPKI--VTKC-----SHHFHLGCIYEWMERSE--------NCPVCGKVMV 222 (227)
Q Consensus 170 ~~~~~~~C~ICle~~~~~~~~~--~l~C-----~H~FH~~CI~~Wl~~~~--------tCPvCr~~v~ 222 (227)
..+.|..|=||+..=++ +... +-|| .|=.|.+||..|+..++ +||.|+++..
T Consensus 16 ~~e~eR~CWiCF~TdeD-n~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDED-NRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcc-cchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34567899999987443 3322 4566 48899999999994332 6999998743
No 90
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.09 E-value=0.092 Score=51.07 Aligned_cols=30 Identities=27% Similarity=0.772 Sum_probs=25.9
Q ss_pred CCCceecCCCCccCHHHHHHHHhcCCCCCc
Q 040167 187 ENPKIVTKCSHHFHLGCIYEWMERSENCPV 216 (227)
Q Consensus 187 ~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv 216 (227)
+...+...|+|.-|.+|+.+|++....||-
T Consensus 1040 gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1040 GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 445567889999999999999999999984
No 91
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.02 E-value=0.1 Score=46.03 Aligned_cols=52 Identities=29% Similarity=0.676 Sum_probs=40.7
Q ss_pred CCCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 170 PSEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 170 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
...+...||||+..-. |+.++.-=|-+||-.||...+...+.|||=..+...
T Consensus 296 l~~~~~~CpvClk~r~--Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQ--NPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASV 347 (357)
T ss_pred CCCccccChhHHhccC--CCceEEecceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence 3445679999998744 455555569999999999999999999997766543
No 92
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.22 E-value=0.099 Score=51.64 Aligned_cols=39 Identities=28% Similarity=0.557 Sum_probs=32.6
Q ss_pred CCCCCCcccccccccccCCCCceecCCCCccCHHHHHHHH
Q 040167 169 SPSEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWM 208 (227)
Q Consensus 169 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl 208 (227)
...+..+.|.||.-.+.. .+-.+-+|||.||.+||.+-.
T Consensus 812 ~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 445678899999888764 578889999999999998765
No 93
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=91.14 E-value=0.064 Score=54.85 Aligned_cols=44 Identities=27% Similarity=0.628 Sum_probs=38.1
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
-..|.||++.... ...+..|||.|+..|+..|++.+..||+|+.
T Consensus 1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 3489999998762 3567889999999999999999999999973
No 94
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.66 E-value=0.15 Score=44.65 Aligned_cols=49 Identities=24% Similarity=0.701 Sum_probs=37.6
Q ss_pred CcccccccccccCCCC-ceecCCC-----CccCHHHHHHHHh--cCCCCCccCCCCc
Q 040167 174 EDVCPTCLEEYTPENP-KIVTKCS-----HHFHLGCIYEWME--RSENCPVCGKVMV 222 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~-~~~l~C~-----H~FH~~CI~~Wl~--~~~tCPvCr~~v~ 222 (227)
+..|-||.++....+. ....+|. +..|..|+..|+. .+..|.+|.+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4689999998664321 5567773 7789999999996 6678999988654
No 95
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.40 E-value=0.14 Score=46.79 Aligned_cols=39 Identities=28% Similarity=0.606 Sum_probs=29.9
Q ss_pred CCccccccc-ccccCCCCceecCCCCccCHHHHHHHHhcC
Q 040167 173 DEDVCPTCL-EEYTPENPKIVTKCSHHFHLGCIYEWMERS 211 (227)
Q Consensus 173 ~~~~C~ICl-e~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 211 (227)
...+|.||. +....+.......|+|.||..|+.+.++.+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 457899999 444443444578999999999999998743
No 96
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=90.08 E-value=0.39 Score=38.21 Aligned_cols=36 Identities=19% Similarity=0.450 Sum_probs=21.3
Q ss_pred CcccccccccccCC---------CCceecCCC-CccCHHHHHHHHh
Q 040167 174 EDVCPTCLEEYTPE---------NPKIVTKCS-HHFHLGCIYEWME 209 (227)
Q Consensus 174 ~~~C~ICle~~~~~---------~~~~~l~C~-H~FH~~CI~~Wl~ 209 (227)
+..||||||-.... +..+-.-|+ -.-|..|+++.-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 46899999986650 000011121 2457889998764
No 97
>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=89.65 E-value=0.2 Score=45.16 Aligned_cols=29 Identities=24% Similarity=0.776 Sum_probs=22.2
Q ss_pred CCCccCHHHHHHHHhc-------------CCCCCccCCCCcc
Q 040167 195 CSHHFHLGCIYEWMER-------------SENCPVCGKVMVF 223 (227)
Q Consensus 195 C~H~FH~~CI~~Wl~~-------------~~tCPvCr~~v~~ 223 (227)
|.=.+|.+||.+||.. +..||.||+.+-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 4567799999999943 2379999998643
No 98
>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=87.95 E-value=0.49 Score=30.29 Aligned_cols=43 Identities=26% Similarity=0.619 Sum_probs=20.3
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHh---cCC--CCCccCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME---RSE--NCPVCGKV 220 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~---~~~--tCPvCr~~ 220 (227)
..|||-...+.. +++...|.|.-+.+ +..||+ +.. .||+|+++
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 368888877653 67788899983221 234553 233 59999874
No 99
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=86.59 E-value=0.16 Score=49.11 Aligned_cols=45 Identities=29% Similarity=0.650 Sum_probs=37.2
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcC---CCCCccCCCCc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS---ENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~~v~ 222 (227)
.+|+||++.|.. .+.+.|.|.|+..|+..-|+.. ..||+|+..+.
T Consensus 22 lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 589999999887 5889999999999998777554 47999986543
No 100
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=86.21 E-value=0.94 Score=29.53 Aligned_cols=45 Identities=22% Similarity=0.728 Sum_probs=32.9
Q ss_pred CcccccccccccC-CCCceecCCCCccCHHHHHHHHhcCCCCCc--cCCCCc
Q 040167 174 EDVCPTCLEEYTP-ENPKIVTKCSHHFHLGCIYEWMERSENCPV--CGKVMV 222 (227)
Q Consensus 174 ~~~C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv--Cr~~v~ 222 (227)
...|++|-+.|.+ ++.++...|+-.+|+.| |.+ ...|-+ |.+.+.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C---~~~-~g~C~~~~c~~~~~ 52 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDC---WEK-AGGCINYSCGTGFE 52 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHH---Hhh-CCceEeccCCCCcc
Confidence 4589999999985 55677788999999999 432 455655 655543
No 101
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.13 E-value=0.35 Score=46.08 Aligned_cols=49 Identities=37% Similarity=0.800 Sum_probs=41.2
Q ss_pred CCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccCC
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDET 226 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e~ 226 (227)
.+..+.|.||+++. ..+..+|. |..|+.+|+..+..||+|++.+..++.
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred hcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 34568999999998 35667788 899999999999999999998887763
No 102
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.75 E-value=0.28 Score=46.80 Aligned_cols=42 Identities=26% Similarity=0.713 Sum_probs=29.6
Q ss_pred Cccccccccc-----ccCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 040167 174 EDVCPTCLEE-----YTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCG 218 (227)
Q Consensus 174 ~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 218 (227)
...|.||... |..++......|+++||..|. -+.+..||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~---~r~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCL---RRKSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHH---hccCCCCCchH
Confidence 4578888432 333556777889999999994 34455599994
No 103
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.52 E-value=1 Score=34.85 Aligned_cols=52 Identities=19% Similarity=0.286 Sum_probs=36.8
Q ss_pred CCcccccccccccCCCCceec-CCCCccCHHHHHHHHh---cCCCCCccCCCCccc
Q 040167 173 DEDVCPTCLEEYTPENPKIVT-KCSHHFHLGCIYEWME---RSENCPVCGKVMVFD 224 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l-~C~H~FH~~CI~~Wl~---~~~tCPvCr~~v~~~ 224 (227)
.-.+|.||.|.-.++.-+.-- =||-..|-.|-...++ ....||+|++.++..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 457999999987764433222 2698888887655444 456899999987654
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.00 E-value=0.79 Score=40.04 Aligned_cols=29 Identities=24% Similarity=0.630 Sum_probs=22.5
Q ss_pred CCCccCHHHHHHHHh-------------cCCCCCccCCCCcc
Q 040167 195 CSHHFHLGCIYEWME-------------RSENCPVCGKVMVF 223 (227)
Q Consensus 195 C~H~FH~~CI~~Wl~-------------~~~tCPvCr~~v~~ 223 (227)
|.-.+|.+|+.+|+. .+.+||.||+.+-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 567889999998873 24589999997643
No 105
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.13 E-value=1.2 Score=41.32 Aligned_cols=37 Identities=24% Similarity=0.526 Sum_probs=31.8
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERS 211 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 211 (227)
....|.||.+.+.. ....+.|+|.|+..|+...+.++
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 44689999999875 57889999999999999998754
No 107
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=78.97 E-value=1.5 Score=36.39 Aligned_cols=41 Identities=24% Similarity=0.734 Sum_probs=30.6
Q ss_pred Cccccccccc-----ccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 174 EDVCPTCLEE-----YTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
+..|-||-++ |..+.......|+-+||..|.. +..||-|..
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 4688899753 3435667778899999999955 267999943
No 108
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.52 E-value=0.75 Score=45.14 Aligned_cols=43 Identities=28% Similarity=0.689 Sum_probs=33.3
Q ss_pred CcccccccccccC-C---CCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 040167 174 EDVCPTCLEEYTP-E---NPKIVTKCSHHFHLGCIYEWMERSENCPVC 217 (227)
Q Consensus 174 ~~~C~ICle~~~~-~---~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 217 (227)
+..|.-|.+.... + ...+++.|+|.||..|+.--+.+++ |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 4589999988664 2 4678899999999999988776665 5444
No 109
>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=77.02 E-value=0.72 Score=39.20 Aligned_cols=47 Identities=26% Similarity=0.730 Sum_probs=33.7
Q ss_pred CcccccccccccC-CC-CceecC-CCCccCHHHHHHHHhcC-CCCC--ccCCC
Q 040167 174 EDVCPTCLEEYTP-EN-PKIVTK-CSHHFHLGCIYEWMERS-ENCP--VCGKV 220 (227)
Q Consensus 174 ~~~C~ICle~~~~-~~-~~~~l~-C~H~FH~~CI~~Wl~~~-~tCP--vCr~~ 220 (227)
+..||||..+--. .+ ...+-| |-|..|.+|+++-|.+. ..|| -|.+-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 4589999876433 23 223334 99999999999999655 5799 77653
No 110
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.83 E-value=1.3 Score=38.60 Aligned_cols=45 Identities=27% Similarity=0.656 Sum_probs=36.1
Q ss_pred CcccccccccccCCCCceecCC----CCccCHHHHHHHHhcC-----------CCCCccCCCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKC----SHHFHLGCIYEWMERS-----------ENCPVCGKVM 221 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C----~H~FH~~CI~~Wl~~~-----------~tCPvCr~~v 221 (227)
-..|.+|.|.+++ ....+| .|.||.-|-.+-++++ ..||+-...|
T Consensus 268 pLcCTLC~ERLED---THFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~v 327 (352)
T KOG3579|consen 268 PLCCTLCHERLED---THFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNV 327 (352)
T ss_pred ceeehhhhhhhcc---CceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcc
Confidence 3689999999988 556677 7999999999999765 3688766554
No 111
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.09 E-value=2.6 Score=37.32 Aligned_cols=46 Identities=28% Similarity=0.535 Sum_probs=38.1
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER---SENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~ 219 (227)
-..||+=-|.-+++|++..+.|||+.-..-+...-+. +..||.|-.
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 3689999898899999999999999999988886543 347999943
No 112
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.91 E-value=1.5 Score=36.55 Aligned_cols=39 Identities=26% Similarity=0.542 Sum_probs=27.7
Q ss_pred ccccccccccCCCCceecCCCC-ccCHHHHHHHHhcCCCCCccCCCC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSH-HFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H-~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
.|-+|-+. +..+.++||.| .+|..|=.. -..||+|+..+
T Consensus 160 ~Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 160 SCRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred cceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 38888776 44588999976 466667432 45699998654
No 113
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.38 E-value=1.3 Score=42.66 Aligned_cols=39 Identities=21% Similarity=0.596 Sum_probs=31.5
Q ss_pred cccccccccccCCC-CceecCCCCccCHHHHHHHHhcCCCCC
Q 040167 175 DVCPTCLEEYTPEN-PKIVTKCSHHFHLGCIYEWMERSENCP 215 (227)
Q Consensus 175 ~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCP 215 (227)
..|+||+..|.... ..+.+.|||..|..|+..-. +.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 47999998887643 57789999999999998855 45677
No 114
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=71.19 E-value=4.5 Score=28.36 Aligned_cols=49 Identities=18% Similarity=0.415 Sum_probs=21.0
Q ss_pred CcccccccccccC---CCC-ceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 040167 174 EDVCPTCLEEYTP---ENP-KIVTKCSHHFHLGCIY-EWMERSENCPVCGKVMV 222 (227)
Q Consensus 174 ~~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI~-~Wl~~~~tCPvCr~~v~ 222 (227)
...|.||-++... +++ +....|+--.++.|.. +.-+.++.||.|++...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 4689999998765 332 3446678888999984 44466789999997654
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=70.81 E-value=3 Score=41.27 Aligned_cols=49 Identities=16% Similarity=0.321 Sum_probs=34.3
Q ss_pred CCcccccccccccC-CC---CceecCCCCccCHHHHHHHHhc------CCCCCccCCCC
Q 040167 173 DEDVCPTCLEEYTP-EN---PKIVTKCSHHFHLGCIYEWMER------SENCPVCGKVM 221 (227)
Q Consensus 173 ~~~~C~ICle~~~~-~~---~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~v 221 (227)
+.+.|.||.-++.. .+ ...+-.|+|.||-.||..|..+ +-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 45678888877776 12 2334459999999999999843 23688886543
No 116
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=68.26 E-value=4.5 Score=35.96 Aligned_cols=50 Identities=22% Similarity=0.492 Sum_probs=38.5
Q ss_pred cccccccccccC-CCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCccc
Q 040167 175 DVCPTCLEEYTP-ENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFD 224 (227)
Q Consensus 175 ~~C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~ 224 (227)
..|+||-+.... ....+-.+|++.-|+.|+..-.....+||.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 689999998743 33444456788888889888888899999999876543
No 117
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.02 E-value=3.9 Score=35.03 Aligned_cols=33 Identities=21% Similarity=0.321 Sum_probs=29.5
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHh
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME 209 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 209 (227)
-+.|..||..+.+ +++.+=||+|+++||.+.+.
T Consensus 43 FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRD---PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccC---CccCCCCeeeeHHHHHHHHH
Confidence 3789999999987 78888999999999999874
No 118
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=66.39 E-value=1.9 Score=27.03 Aligned_cols=43 Identities=21% Similarity=0.505 Sum_probs=29.6
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHh------cCCCCCccC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME------RSENCPVCG 218 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~------~~~tCPvCr 218 (227)
.|.||...-..+..+.--.|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4889988545555666677899999999865432 123577775
No 119
>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=65.73 E-value=2 Score=39.12 Aligned_cols=45 Identities=27% Similarity=0.613 Sum_probs=0.0
Q ss_pred cccccccccccC-----------CCCceecCCCCccCHHHHHHHHhc------CCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTP-----------ENPKIVTKCSHHFHLGCIYEWMER------SENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~-----------~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~v~ 222 (227)
..||+=|..+.. ..+-+-+.|||++... .|-.+ ..+||+||++=+
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccCC
Confidence 467776654422 3466789999998764 57632 457999998643
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=64.68 E-value=4.1 Score=34.06 Aligned_cols=46 Identities=26% Similarity=0.650 Sum_probs=36.0
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
-..|.+|..-... ..+.-.|+=.+|..||.+.+.+...||-|..-+
T Consensus 181 lk~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 3589999876543 244566888999999999999999999996533
No 121
>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=64.25 E-value=0.46 Score=32.65 Aligned_cols=40 Identities=25% Similarity=0.667 Sum_probs=21.8
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~ 222 (227)
..||+|..++.... +|.++..|-.. ++....||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 47999988866422 56666666554 455678999988774
No 122
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=62.82 E-value=33 Score=30.60 Aligned_cols=41 Identities=7% Similarity=-0.147 Sum_probs=31.3
Q ss_pred cccccccccccCCCCceecCCCC-ccCHHHHHHHHhcCCCCCccCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSH-HFHLGCIYEWMERSENCPVCGKV 220 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H-~FH~~CI~~Wl~~~~tCPvCr~~ 220 (227)
..|-.|-+.... .++.+|+| .|+-+|.. +..+.+||+|...
T Consensus 344 ~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 344 LKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred cccccccCceee---eEeecCCcccChhhhhh--cccCCcccccccc
Confidence 578788776554 77899986 57778877 5678899999764
No 123
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=61.41 E-value=5.2 Score=38.27 Aligned_cols=36 Identities=28% Similarity=0.608 Sum_probs=25.8
Q ss_pred CCCcccccccccccC----C------CCceecCCCCccCHHHHHHH
Q 040167 172 EDEDVCPTCLEEYTP----E------NPKIVTKCSHHFHLGCIYEW 207 (227)
Q Consensus 172 ~~~~~C~ICle~~~~----~------~~~~~l~C~H~FH~~CI~~W 207 (227)
+....|+||.|.|+. + ...+.+.=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 677899999999876 1 11233335889999998664
No 124
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=60.60 E-value=7 Score=38.51 Aligned_cols=43 Identities=19% Similarity=0.403 Sum_probs=30.6
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCc--cCC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPV--CGK 219 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv--Cr~ 219 (227)
.|.+|-..+. |...-.-.|+|.-|..|+++|+.....||. |..
T Consensus 781 ~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 781 KCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred Cceeecceee-eeEeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 5666654433 222334569999999999999998888876 644
No 125
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=60.27 E-value=4.7 Score=26.79 Aligned_cols=14 Identities=36% Similarity=0.764 Sum_probs=10.9
Q ss_pred CCCCCccCCCCccc
Q 040167 211 SENCPVCGKVMVFD 224 (227)
Q Consensus 211 ~~tCPvCr~~v~~~ 224 (227)
...||+|+.+|...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 35899999988653
No 126
>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 PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=59.21 E-value=5.7 Score=23.48 Aligned_cols=25 Identities=32% Similarity=0.846 Sum_probs=15.9
Q ss_pred ccccccccccCCC--------CceecCCCCccC
Q 040167 176 VCPTCLEEYTPEN--------PKIVTKCSHHFH 200 (227)
Q Consensus 176 ~C~ICle~~~~~~--------~~~~l~C~H~FH 200 (227)
+|+=|.-.|...+ .+....|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 6888887776532 244456777774
No 128
>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=57.73 E-value=6.2 Score=21.66 Aligned_cols=23 Identities=30% Similarity=0.745 Sum_probs=10.3
Q ss_pred ccccccccccCCCCceecCCCCcc
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHF 199 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~F 199 (227)
.||-|-..+.. ....-..|||.|
T Consensus 2 ~CP~C~~~V~~-~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE-SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh-hcCcCCCCCCCC
Confidence 45666555432 222233355554
No 129
>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=55.82 E-value=7.5 Score=26.36 Aligned_cols=11 Identities=27% Similarity=0.966 Sum_probs=8.3
Q ss_pred cCHHHHHHHHh
Q 040167 199 FHLGCIYEWME 209 (227)
Q Consensus 199 FH~~CI~~Wl~ 209 (227)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 130
>PLN02189 cellulose synthase
Probab=55.64 E-value=9.8 Score=38.98 Aligned_cols=48 Identities=23% Similarity=0.434 Sum_probs=34.6
Q ss_pred cccccccccccC---CCCc-eecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTP---ENPK-IVTKCSHHFHLGCIYE-WMERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~v~ 222 (227)
..|.||-++... +++- ..-.|+--.|+.|.+- .-+.++.||.|++...
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 589999999764 3333 3344888899999832 2345678999998765
No 131
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=55.64 E-value=6.4 Score=34.06 Aligned_cols=47 Identities=28% Similarity=0.511 Sum_probs=32.8
Q ss_pred cccccccccccCCCCce----ecCCCCccCHHHHHHHH-hc--------CCCCCccCCCC
Q 040167 175 DVCPTCLEEYTPENPKI----VTKCSHHFHLGCIYEWM-ER--------SENCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~----~l~C~H~FH~~CI~~Wl-~~--------~~tCPvCr~~v 221 (227)
.+|-||.+++...+..+ -.-|+-++|..|+..-+ .. ...||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 68999999994322221 23478899999999844 22 35899998853
No 132
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=55.44 E-value=6.8 Score=23.22 Aligned_cols=25 Identities=28% Similarity=0.731 Sum_probs=16.1
Q ss_pred ccccccccccCC--------CCceecCCCCccC
Q 040167 176 VCPTCLEEYTPE--------NPKIVTKCSHHFH 200 (227)
Q Consensus 176 ~C~ICle~~~~~--------~~~~~l~C~H~FH 200 (227)
.||-|...|... ..++...|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 688888777652 2344566777774
No 133
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.05 E-value=6.6 Score=35.92 Aligned_cols=43 Identities=23% Similarity=0.612 Sum_probs=30.6
Q ss_pred cccccccccccC--CCCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 040167 175 DVCPTCLEEYTP--ENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217 (227)
Q Consensus 175 ~~C~ICle~~~~--~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 217 (227)
..|++|.-.+.. |-..+.-.|+|.|+..|...|......|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 578888766543 3233333499999999999998877766544
No 134
>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=53.04 E-value=12 Score=21.56 Aligned_cols=10 Identities=50% Similarity=1.116 Sum_probs=6.8
Q ss_pred cCCCCCccCC
Q 040167 210 RSENCPVCGK 219 (227)
Q Consensus 210 ~~~tCPvCr~ 219 (227)
....||+|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 3447888865
No 135
>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=52.45 E-value=7.4 Score=25.06 Aligned_cols=29 Identities=34% Similarity=0.665 Sum_probs=14.6
Q ss_pred ceecCCCCccCHHHHHHHHhcCCCCCccC
Q 040167 190 KIVTKCSHHFHLGCIYEWMERSENCPVCG 218 (227)
Q Consensus 190 ~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 218 (227)
-+-..|+++|+.+|=.---+.=.+||-|-
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred EECCCCCCccccCcChhhhccccCCcCCC
Confidence 34567899999999322224556899883
No 136
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=46.99 E-value=12 Score=20.92 Aligned_cols=29 Identities=17% Similarity=0.372 Sum_probs=11.0
Q ss_pred ccccccccccCCCCceecCCCCccCHHHH
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCI 204 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI 204 (227)
.|.+|.+....+..-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 57788777654344556788888999886
No 137
>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=46.84 E-value=4.7 Score=27.01 Aligned_cols=37 Identities=11% Similarity=0.326 Sum_probs=19.7
Q ss_pred CCCcccccccccccCCC-CceecCCCCccCHHHHHHHH
Q 040167 172 EDEDVCPTCLEEYTPEN-PKIVTKCSHHFHLGCIYEWM 208 (227)
Q Consensus 172 ~~~~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl 208 (227)
.+...|.+|...|..-. ...--.||++|+..|....+
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34579999999997632 33446689999999986554
No 138
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=46.78 E-value=9.2 Score=27.64 Aligned_cols=35 Identities=23% Similarity=0.663 Sum_probs=27.6
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
..|-||-.... +=+|+||..|-++ +..|.+|.+.|
T Consensus 45 ~~C~~CK~~v~--------q~g~~YCq~CAYk----kGiCamCGKki 79 (90)
T PF10235_consen 45 SKCKICKTKVH--------QPGAKYCQTCAYK----KGICAMCGKKI 79 (90)
T ss_pred ccccccccccc--------cCCCccChhhhcc----cCcccccCCee
Confidence 57999965432 2488999999877 78999999877
No 139
>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=46.66 E-value=6.4 Score=21.95 Aligned_cols=13 Identities=54% Similarity=1.249 Sum_probs=6.6
Q ss_pred CCCccCCCCcccC
Q 040167 213 NCPVCGKVMVFDE 225 (227)
Q Consensus 213 tCPvCr~~v~~~e 225 (227)
+||+|...+...+
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4999998887443
No 140
>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=45.92 E-value=6.2 Score=25.31 Aligned_cols=10 Identities=40% Similarity=1.265 Sum_probs=5.1
Q ss_pred CCCccCCCCc
Q 040167 213 NCPVCGKVMV 222 (227)
Q Consensus 213 tCPvCr~~v~ 222 (227)
.||||..+|.
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 8999988764
No 141
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.52 E-value=17 Score=37.44 Aligned_cols=48 Identities=23% Similarity=0.568 Sum_probs=35.4
Q ss_pred cccccccccccC---CCC-ceecCCCCccCHHHH-HHHHhcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTP---ENP-KIVTKCSHHFHLGCI-YEWMERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI-~~Wl~~~~tCPvCr~~v~ 222 (227)
..|.||-++... +++ +..-.|+--.|+.|. ++.-+.++.||.|++..+
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 599999999765 332 345667888999998 334456779999998765
No 142
>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=44.13 E-value=11 Score=20.54 Aligned_cols=9 Identities=44% Similarity=1.180 Sum_probs=7.1
Q ss_pred CCCccCCCC
Q 040167 213 NCPVCGKVM 221 (227)
Q Consensus 213 tCPvCr~~v 221 (227)
.||+|.+.|
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589997776
No 143
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.03 E-value=21 Score=30.74 Aligned_cols=51 Identities=22% Similarity=0.335 Sum_probs=36.3
Q ss_pred CCcccccccccccCC-CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPE-NPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
....|||=--++... .-..+.+|||+|-..-+.+.- ..+|++|...+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccC
Confidence 356899876655531 235678899999998887743 678999998765443
No 144
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.79 E-value=34 Score=25.75 Aligned_cols=45 Identities=20% Similarity=0.444 Sum_probs=34.3
Q ss_pred cccccccccccCC-----------CCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 175 DVCPTCLEEYTPE-----------NPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 175 ~~C~ICle~~~~~-----------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
..|--|+..|... ..-.-..|+++|+.+|=.-|-+.=.+||-|..
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 4699999888642 11236789999999998877787788999963
No 145
>PLN02436 cellulose synthase A
Probab=42.65 E-value=21 Score=36.89 Aligned_cols=48 Identities=21% Similarity=0.462 Sum_probs=34.3
Q ss_pred cccccccccccC---CCC-ceecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTP---ENP-KIVTKCSHHFHLGCIYE-WMERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~v~ 222 (227)
..|.||-++... +++ +..-.|+--.|+.|.+- .-+.++.||.|++...
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 599999999754 443 33445788899999833 2245678999998765
No 146
>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=42.58 E-value=21 Score=22.68 Aligned_cols=35 Identities=17% Similarity=0.390 Sum_probs=26.9
Q ss_pred cccccccccccCCC-CceecCCCCccCHHHHHHHHh
Q 040167 175 DVCPTCLEEYTPEN-PKIVTKCSHHFHLGCIYEWME 209 (227)
Q Consensus 175 ~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~ 209 (227)
..|.+|-..|..-. ....-.||++|+..|....+.
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 57999998888633 344567999999999887654
No 147
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=41.72 E-value=27 Score=31.10 Aligned_cols=50 Identities=20% Similarity=0.464 Sum_probs=34.9
Q ss_pred CCcccccccccccC---------------CC-CceecCCCCccCHHHHHHHHhc---------CCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTP---------------EN-PKIVTKCSHHFHLGCIYEWMER---------SENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~---------------~~-~~~~l~C~H~FH~~CI~~Wl~~---------~~tCPvCr~~v~ 222 (227)
.+..||||+..=.. +- .....||||+--..=..=|-+- +..||.|-+.+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 46799999865211 11 2346899999888888888753 357999987654
No 148
>PRK05978 hypothetical protein; Provisional
Probab=41.56 E-value=16 Score=28.90 Aligned_cols=25 Identities=16% Similarity=0.626 Sum_probs=19.5
Q ss_pred CCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 196 SHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 196 ~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
|+.|+ .+|+-+..||.|..++.+.+
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCC
Confidence 35564 68899999999999887654
No 149
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=40.85 E-value=17 Score=24.36 Aligned_cols=13 Identities=46% Similarity=1.160 Sum_probs=9.5
Q ss_pred CCCCCccCCCCcc
Q 040167 211 SENCPVCGKVMVF 223 (227)
Q Consensus 211 ~~tCPvCr~~v~~ 223 (227)
...||+|++.+..
T Consensus 6 ~v~CP~C~k~~~w 18 (62)
T PRK00418 6 TVNCPTCGKPVEW 18 (62)
T ss_pred cccCCCCCCcccc
Confidence 4568999887754
No 150
>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=40.67 E-value=26 Score=19.75 Aligned_cols=37 Identities=22% Similarity=0.555 Sum_probs=22.6
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
.|..|-+.+.... ..+..=+..||..| ..|..|++.|
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc-EEEEeCCccccccC--------CCCcccCCcC
Confidence 3777877766532 22222367888877 3577777665
No 151
>PRK11827 hypothetical protein; Provisional
Probab=40.61 E-value=11 Score=25.16 Aligned_cols=21 Identities=19% Similarity=0.515 Sum_probs=13.8
Q ss_pred HHHHhcCCCCCccCCCCcccC
Q 040167 205 YEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 205 ~~Wl~~~~tCPvCr~~v~~~e 225 (227)
++||..--.||+|+.++.+++
T Consensus 2 d~~LLeILaCP~ckg~L~~~~ 22 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYNQ 22 (60)
T ss_pred ChHHHhheECCCCCCcCeEcC
Confidence 345555567888887776653
No 152
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=39.79 E-value=16 Score=31.49 Aligned_cols=45 Identities=27% Similarity=0.452 Sum_probs=34.4
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhc--CCCCCccCCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER--SENCPVCGKV 220 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~ 220 (227)
+..|||=...+ .++++..+|+|+|-++=|...+.. .-.||+=..+
T Consensus 176 s~rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 45888875554 468899999999999999999854 4468875443
No 153
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=39.06 E-value=6.8 Score=34.40 Aligned_cols=38 Identities=24% Similarity=0.432 Sum_probs=29.6
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhc
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER 210 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~ 210 (227)
...+|.||+++|..+.....+.|.-.||..|+..|+..
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTT 250 (288)
T ss_pred CceecHHHHHHHhcccccchhhcccccccccccccccc
Confidence 34499999999986555555666669999999999954
No 154
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.84 E-value=23 Score=24.55 Aligned_cols=45 Identities=24% Similarity=0.632 Sum_probs=28.4
Q ss_pred ccccccccccCCCCceecCC--CCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 176 VCPTCLEEYTPENPKIVTKC--SHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
.|--|-.++-.+..- .+-| .|.||.+|...-| ...||.|.-.+..
T Consensus 7 nCECCDrDLpp~s~d-A~ICtfEcTFCadCae~~l--~g~CPnCGGelv~ 53 (84)
T COG3813 7 NCECCDRDLPPDSTD-ARICTFECTFCADCAENRL--HGLCPNCGGELVA 53 (84)
T ss_pred CCcccCCCCCCCCCc-eeEEEEeeehhHhHHHHhh--cCcCCCCCchhhc
Confidence 344454444432211 2235 5889999998855 7789999877643
No 155
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.46 E-value=26 Score=25.62 Aligned_cols=32 Identities=22% Similarity=0.349 Sum_probs=22.0
Q ss_pred CcccccccccccCCCCceecC--CCCccCHHHHHHH
Q 040167 174 EDVCPTCLEEYTPENPKIVTK--CSHHFHLGCIYEW 207 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~--C~H~FH~~CI~~W 207 (227)
...|.||..... -.+.-.. |...||..|...+
T Consensus 55 ~~~C~iC~~~~G--~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGG--ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCc--eeEEcCCCCCCcCCCHHHHHHC
Confidence 469999998732 2233333 7789999998663
No 156
>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=38.05 E-value=16 Score=27.51 Aligned_cols=45 Identities=24% Similarity=0.560 Sum_probs=29.7
Q ss_pred CCcccccccccccC--CCCceecCCCCccCHHHHHHHHhcCC---CCCccCC
Q 040167 173 DEDVCPTCLEEYTP--ENPKIVTKCSHHFHLGCIYEWMERSE---NCPVCGK 219 (227)
Q Consensus 173 ~~~~C~ICle~~~~--~~~~~~l~C~H~FH~~CI~~Wl~~~~---tCPvCr~ 219 (227)
.+..|.+|...|.. +.......|.|.+|..|-.. ..+. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 45699999998754 44677888999999998544 1112 3777754
No 157
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.55 E-value=11 Score=33.14 Aligned_cols=47 Identities=28% Similarity=0.650 Sum_probs=37.3
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVM 221 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v 221 (227)
..+.|-||...+.. +...-.|.|.|+..|...|.+..+.||.|+...
T Consensus 104 ~~~~~~~~~g~l~v--pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 104 DHDICYICYGKLTV--PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CccceeeeeeeEEe--cccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 45789999888775 122233999999999999999999999998653
No 158
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=37.55 E-value=5.3 Score=21.19 Aligned_cols=8 Identities=50% Similarity=1.257 Sum_probs=3.8
Q ss_pred CCCccCCC
Q 040167 213 NCPVCGKV 220 (227)
Q Consensus 213 tCPvCr~~ 220 (227)
.||.|.++
T Consensus 15 fC~~CG~~ 22 (23)
T PF13240_consen 15 FCPNCGTP 22 (23)
T ss_pred chhhhCCc
Confidence 35555443
No 159
>PLN02400 cellulose synthase
Probab=37.49 E-value=19 Score=37.18 Aligned_cols=48 Identities=17% Similarity=0.446 Sum_probs=34.8
Q ss_pred cccccccccccC---CCC-ceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 040167 175 DVCPTCLEEYTP---ENP-KIVTKCSHHFHLGCIY-EWMERSENCPVCGKVMV 222 (227)
Q Consensus 175 ~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI~-~Wl~~~~tCPvCr~~v~ 222 (227)
..|.||-++... +++ +..-.|+--.|+.|.. +.-+.++.||.||+..+
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 599999999765 332 4456677789999983 33345678999998765
No 160
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.16 E-value=28 Score=20.19 Aligned_cols=9 Identities=56% Similarity=1.571 Sum_probs=6.0
Q ss_pred CCCCccCCC
Q 040167 212 ENCPVCGKV 220 (227)
Q Consensus 212 ~tCPvCr~~ 220 (227)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 468888653
No 161
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=35.34 E-value=10 Score=24.29 Aligned_cols=19 Identities=42% Similarity=0.807 Sum_probs=14.8
Q ss_pred HhcCCCCCccCCCCcccCC
Q 040167 208 MERSENCPVCGKVMVFDET 226 (227)
Q Consensus 208 l~~~~tCPvCr~~v~~~e~ 226 (227)
|+...-||+||+-+.+.|+
T Consensus 31 LelkKycp~~~khtlhkE~ 49 (50)
T COG0267 31 LELKKYCPVCRKHTLHKET 49 (50)
T ss_pred EEEEecCcccccEEEEeec
Confidence 3455679999999888775
No 162
>PF15616 TerY-C: TerY-C metal binding domain
Probab=34.66 E-value=14 Score=28.54 Aligned_cols=44 Identities=32% Similarity=0.644 Sum_probs=32.6
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDE 225 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e 225 (227)
....||=|-..+. .++-.|+++|| |.. +...+||-|.+.+.+..
T Consensus 76 g~PgCP~CGn~~~----fa~C~CGkl~C---i~g--~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 76 GAPGCPHCGNQYA----FAVCGCGKLFC---IDG--EGEVTCPWCGNEGSFGA 119 (131)
T ss_pred CCCCCCCCcChhc----EEEecCCCEEE---eCC--CCCEECCCCCCeeeecc
Confidence 4468999988866 45568999985 433 45678999999876653
No 163
>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=34.63 E-value=7.8 Score=23.63 Aligned_cols=30 Identities=23% Similarity=0.537 Sum_probs=16.2
Q ss_pred ecCCCCccCHHHHHHHHhcCCCCCccCC-CCc
Q 040167 192 VTKCSHHFHLGCIYEWMERSENCPVCGK-VMV 222 (227)
Q Consensus 192 ~l~C~H~FH~~CI~~Wl~~~~tCPvCr~-~v~ 222 (227)
...|||.|-.---..= .....||.|+. .+.
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGSTEVR 38 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCCCceE
Confidence 4567777755210000 12447999988 443
No 164
>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=33.59 E-value=52 Score=24.33 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=18.8
Q ss_pred CCccCHHHHHHHHhcC---------CCCCccCC
Q 040167 196 SHHFHLGCIYEWMERS---------ENCPVCGK 219 (227)
Q Consensus 196 ~H~FH~~CI~~Wl~~~---------~tCPvCr~ 219 (227)
.=.|+..||..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 6779999999888432 26999985
No 165
>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=33.14 E-value=94 Score=20.41 Aligned_cols=46 Identities=26% Similarity=0.664 Sum_probs=31.7
Q ss_pred cccccccccccCCCCceecCC--CCccCHHHHHHHHhcCCCCCccCCCCcc
Q 040167 175 DVCPTCLEEYTPENPKIVTKC--SHHFHLGCIYEWMERSENCPVCGKVMVF 223 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~v~~ 223 (227)
..|-.|-.++..+..-. .-| ...|+..|...-| ...||.|.-.++.
T Consensus 6 pnCE~C~~dLp~~s~~A-~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEA-YICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcc-eEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 35667777766544221 225 4679999999977 7889999887754
No 166
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.42 E-value=8.5 Score=33.46 Aligned_cols=47 Identities=23% Similarity=0.511 Sum_probs=36.2
Q ss_pred CcccccccccccC---CCCceecC--------CCCccCHHHHHHHHhcC-CCCCccCCC
Q 040167 174 EDVCPTCLEEYTP---ENPKIVTK--------CSHHFHLGCIYEWMERS-ENCPVCGKV 220 (227)
Q Consensus 174 ~~~C~ICle~~~~---~~~~~~l~--------C~H~FH~~CI~~Wl~~~-~tCPvCr~~ 220 (227)
+..|.||...|.. .....++. |+|..+..||..-+... ..||.|++.
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 3579999999984 22344455 99999999999998554 589999863
No 167
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=31.13 E-value=52 Score=29.49 Aligned_cols=46 Identities=26% Similarity=0.494 Sum_probs=35.0
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 219 (227)
...|=-|.++.......+.-.|.|+||++|=.---+.=..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 3459999888777667778889999999995443355568999964
No 168
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=30.18 E-value=43 Score=34.55 Aligned_cols=50 Identities=22% Similarity=0.438 Sum_probs=35.8
Q ss_pred CCcccccccccccC---CCC-ceecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 040167 173 DEDVCPTCLEEYTP---ENP-KIVTKCSHHFHLGCIYE-WMERSENCPVCGKVMV 222 (227)
Q Consensus 173 ~~~~C~ICle~~~~---~~~-~~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~v~ 222 (227)
....|.||-++... +++ +..-.|+--.|+.|..- .-+.++.||.|++...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34689999998765 332 34556788899999832 2345678999998765
No 169
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=30.15 E-value=13 Score=23.99 Aligned_cols=20 Identities=25% Similarity=0.776 Sum_probs=15.4
Q ss_pred Cceec-CCCCccCHHHHHHHH
Q 040167 189 PKIVT-KCSHHFHLGCIYEWM 208 (227)
Q Consensus 189 ~~~~l-~C~H~FH~~CI~~Wl 208 (227)
..+.- .|+|.|+..|-.+|-
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CeeECCCCCCeECCCCCCcCC
Confidence 34444 789999999988884
No 170
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.98 E-value=13 Score=28.99 Aligned_cols=50 Identities=22% Similarity=0.438 Sum_probs=31.1
Q ss_pred CCCCccccccccc-ccCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCCC
Q 040167 171 SEDEDVCPTCLEE-YTPENPKIVTKCSHHFHLGCIYEWMERSE----NCPVCGKV 220 (227)
Q Consensus 171 ~~~~~~C~ICle~-~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~----tCPvCr~~ 220 (227)
.+++.+|-||+.. |.++-.....-|.-.||..|-.+--.+++ .|-+|++.
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 3466799999965 45544445555666666666555443433 47777764
No 171
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=29.53 E-value=32 Score=22.78 Aligned_cols=16 Identities=44% Similarity=0.856 Sum_probs=12.9
Q ss_pred CCCCCccCCCCcccCC
Q 040167 211 SENCPVCGKVMVFDET 226 (227)
Q Consensus 211 ~~tCPvCr~~v~~~e~ 226 (227)
+.-|++|.+.++.+|-
T Consensus 8 H~HC~VCg~aIp~de~ 23 (64)
T COG4068 8 HRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CccccccCCcCCCccc
Confidence 4579999999988763
No 172
>PF14353 CpXC: CpXC protein
Probab=29.32 E-value=52 Score=24.77 Aligned_cols=45 Identities=24% Similarity=0.473 Sum_probs=21.9
Q ss_pred ccccccccccCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcc
Q 040167 176 VCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMER---SENCPVCGKVMVF 223 (227)
Q Consensus 176 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~v~~ 223 (227)
+||-|...+... +.+.-.=.....=..+-|.. ..+||.|++.+..
T Consensus 3 tCP~C~~~~~~~---v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 3 TCPHCGHEFEFE---VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred CCCCCCCeeEEE---EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 677777776541 11111111222333333322 2378888876543
No 173
>PRK01343 zinc-binding protein; Provisional
Probab=29.11 E-value=29 Score=22.88 Aligned_cols=12 Identities=42% Similarity=1.007 Sum_probs=8.4
Q ss_pred CCCCCccCCCCc
Q 040167 211 SENCPVCGKVMV 222 (227)
Q Consensus 211 ~~tCPvCr~~v~ 222 (227)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456888887654
No 174
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.81 E-value=33 Score=21.91 Aligned_cols=23 Identities=30% Similarity=0.878 Sum_probs=12.0
Q ss_pred CCCCccCHHHHHHHHhcCCCCCcc
Q 040167 194 KCSHHFHLGCIYEWMERSENCPVC 217 (227)
Q Consensus 194 ~C~H~FH~~CI~~Wl~~~~tCPvC 217 (227)
.|+|.|-..= ..-..+...||.|
T Consensus 33 ~Cgh~w~~~v-~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASV-NDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccH-hhhccCCCCCCCC
Confidence 3455554432 2222556778887
No 175
>TIGR01023 rpmG_bact ribosomal protein L33, bacterial type. This model describes bacterial ribosomal protein L33 and its chloroplast and mitochondrial equivalents.
Probab=27.88 E-value=20 Score=23.33 Aligned_cols=19 Identities=37% Similarity=0.807 Sum_probs=14.7
Q ss_pred HhcCCCCCccCCCCcccCC
Q 040167 208 MERSENCPVCGKVMVFDET 226 (227)
Q Consensus 208 l~~~~tCPvCr~~v~~~e~ 226 (227)
|+...-||.|++-+.+.|+
T Consensus 35 L~lkKycp~~~khtlhkE~ 53 (54)
T TIGR01023 35 LELRKYCPVCRKHVLHKEA 53 (54)
T ss_pred eEEECcCCCCCCeEeEEec
Confidence 3445679999999888775
No 176
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=27.72 E-value=19 Score=23.31 Aligned_cols=19 Identities=32% Similarity=0.361 Sum_probs=14.7
Q ss_pred HhcCCCCCccCCCCcccCC
Q 040167 208 MERSENCPVCGKVMVFDET 226 (227)
Q Consensus 208 l~~~~tCPvCr~~v~~~e~ 226 (227)
|+...-||.|++-+.+.|+
T Consensus 34 L~lkKycp~~~khtlhkE~ 52 (53)
T PRK00595 34 LELKKYDPVLRKHVLHKET 52 (53)
T ss_pred eEEECcCCCCCCEEeEEec
Confidence 3456679999998888775
No 177
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=26.93 E-value=30 Score=23.03 Aligned_cols=14 Identities=50% Similarity=1.170 Sum_probs=10.5
Q ss_pred CCCccCCCCcccCC
Q 040167 213 NCPVCGKVMVFDET 226 (227)
Q Consensus 213 tCPvCr~~v~~~e~ 226 (227)
.||+||.++.++++
T Consensus 10 aCP~~kg~L~~~~~ 23 (60)
T COG2835 10 ACPVCKGPLVYDEE 23 (60)
T ss_pred eccCcCCcceEecc
Confidence 58999888776653
No 178
>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=25.89 E-value=26 Score=21.92 Aligned_cols=23 Identities=35% Similarity=0.884 Sum_probs=14.6
Q ss_pred ecCCCCccCHHHHHHHHh----cCCCCCccCC
Q 040167 192 VTKCSHHFHLGCIYEWME----RSENCPVCGK 219 (227)
Q Consensus 192 ~l~C~H~FH~~CI~~Wl~----~~~tCPvCr~ 219 (227)
...|+|.|-. |.. ....||.|+.
T Consensus 8 C~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 8 CTACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred eCCCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 4567887764 332 2337999987
No 179
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.87 E-value=33 Score=24.84 Aligned_cols=11 Identities=27% Similarity=0.957 Sum_probs=10.1
Q ss_pred cCHHHHHHHHh
Q 040167 199 FHLGCIYEWME 209 (227)
Q Consensus 199 FH~~CI~~Wl~ 209 (227)
||+.|+..|..
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 180
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.32 E-value=40 Score=23.48 Aligned_cols=32 Identities=22% Similarity=0.366 Sum_probs=21.7
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHH
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYE 206 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~ 206 (227)
..|.+|......--.-....|.-.||..|...
T Consensus 37 ~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 58999987633211223456889999999765
No 181
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=25.27 E-value=45 Score=26.00 Aligned_cols=41 Identities=27% Similarity=0.583 Sum_probs=24.6
Q ss_pred CCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcccCC
Q 040167 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDET 226 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~v~~~e~ 226 (227)
....||-|-..|...+...... ......||.|+..+...+.
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d-------------~~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLD-------------MDGTFTCPRCGEELEEDDN 138 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcC-------------CCCcEECCCCCCEEEEcCc
Confidence 4567888877766422111100 0233689999999887764
No 182
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=24.11 E-value=39 Score=28.85 Aligned_cols=46 Identities=24% Similarity=0.496 Sum_probs=34.2
Q ss_pred CcccccccccccCCCCceecCCCCccCHHHHHHHHhcCC--CCCc--cCCCC
Q 040167 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSE--NCPV--CGKVM 221 (227)
Q Consensus 174 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~--tCPv--Cr~~v 221 (227)
+..|||=+..+.. ++...+|+|.|-.+=|...+.... .||+ |-+.+
T Consensus 189 ~nrCpitl~p~~~--pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~ 238 (275)
T COG5627 189 SNRCPITLNPDFY--PILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKE 238 (275)
T ss_pred cccCCcccCcchh--HHHHhhhcccccHHHHHHHhcCCceeecchhhcchhe
Confidence 4689998777643 577889999999999999987443 4664 54433
No 183
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=24.02 E-value=39 Score=21.95 Aligned_cols=14 Identities=29% Similarity=0.838 Sum_probs=8.7
Q ss_pred CCCCccCCCCcccC
Q 040167 212 ENCPVCGKVMVFDE 225 (227)
Q Consensus 212 ~tCPvCr~~v~~~e 225 (227)
.+||.|...+.+.+
T Consensus 3 ~~CP~CG~~iev~~ 16 (54)
T TIGR01206 3 FECPDCGAEIELEN 16 (54)
T ss_pred cCCCCCCCEEecCC
Confidence 46777777665543
No 184
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=23.43 E-value=26 Score=22.39 Aligned_cols=19 Identities=37% Similarity=0.707 Sum_probs=14.4
Q ss_pred HhcCCCCCccCCCCcccCC
Q 040167 208 MERSENCPVCGKVMVFDET 226 (227)
Q Consensus 208 l~~~~tCPvCr~~v~~~e~ 226 (227)
|+-+.-||.||+-..+.|+
T Consensus 31 LelkKycp~c~khtlhkE~ 49 (50)
T PRK00504 31 LELKKFCPRCNKHTLHKET 49 (50)
T ss_pred EEEECcCCCCCCeEeeeec
Confidence 3456679999998887764
No 185
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.38 E-value=49 Score=29.14 Aligned_cols=53 Identities=15% Similarity=0.197 Sum_probs=35.7
Q ss_pred CCCcccccccccccC------CCCceecCCCCccCHHHHHHHHhc-------------CCCCCccCCCCccc
Q 040167 172 EDEDVCPTCLEEYTP------ENPKIVTKCSHHFHLGCIYEWMER-------------SENCPVCGKVMVFD 224 (227)
Q Consensus 172 ~~~~~C~ICle~~~~------~~~~~~l~C~H~FH~~CI~~Wl~~-------------~~tCPvCr~~v~~~ 224 (227)
.....|.||++.-+. +..+...+|.-.+|-.||.--++. -..|-+|.++..-+
T Consensus 256 ~~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~ 327 (381)
T KOG1512|consen 256 QRRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIES 327 (381)
T ss_pred cchhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccch
Confidence 345689999986543 235667889999999998644332 23677787765443
No 186
>KOG2017 consensus Molybdopterin synthase sulfurylase [Coenzyme transport and metabolism]
Probab=23.33 E-value=23 Score=32.12 Aligned_cols=24 Identities=13% Similarity=0.307 Sum_probs=15.0
Q ss_pred CCCCcccccccccccCCCCceecC
Q 040167 171 SEDEDVCPTCLEEYTPENPKIVTK 194 (227)
Q Consensus 171 ~~~~~~C~ICle~~~~~~~~~~l~ 194 (227)
.+..+.+.||.-..+....+..|+
T Consensus 375 ~~~~~I~ViCrrGNdSQ~Av~~Lr 398 (427)
T KOG2017|consen 375 TESKDIFVICRRGNDSQRAVRILR 398 (427)
T ss_pred ccCCCEEEEeCCCCchHHHHHHHH
Confidence 345568999987765544444454
No 187
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.91 E-value=24 Score=26.30 Aligned_cols=29 Identities=38% Similarity=0.723 Sum_probs=20.1
Q ss_pred cccccccccccCCCCceecCCCCccCHHHHHHHHh
Q 040167 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWME 209 (227)
Q Consensus 175 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 209 (227)
..|++|..+|..++.. +..|..|..+|-+
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 4799999998875433 3355667777874
No 188
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=22.74 E-value=32 Score=36.84 Aligned_cols=53 Identities=25% Similarity=0.503 Sum_probs=42.7
Q ss_pred CCCCCCcccccccccccCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCCCC
Q 040167 169 SPSEDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSE----NCPVCGKVM 221 (227)
Q Consensus 169 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~----tCPvCr~~v 221 (227)
..+...-.|.||+.....++......|.--||..|+..-+.... .||-|++.-
T Consensus 1103 ~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1103 DRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 34445678999999988877777888999999999999886543 799998753
No 189
>CHL00104 rpl33 ribosomal protein L33
Probab=22.31 E-value=29 Score=23.58 Aligned_cols=19 Identities=32% Similarity=0.614 Sum_probs=14.4
Q ss_pred HhcCCCCCccCCCCcccCC
Q 040167 208 MERSENCPVCGKVMVFDET 226 (227)
Q Consensus 208 l~~~~tCPvCr~~v~~~e~ 226 (227)
|+...-||.|++-..+.|+
T Consensus 46 LelkKycp~c~kHtlhkE~ 64 (66)
T CHL00104 46 LELKKFCPYCYKHTIHKEI 64 (66)
T ss_pred eEEECcCCCCCCEeeEeec
Confidence 3455679999998888774
No 190
>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=22.11 E-value=6.8 Score=34.19 Aligned_cols=48 Identities=21% Similarity=0.316 Sum_probs=20.0
Q ss_pred CCcccccccccccCCCCceec--CCCCccCHHHHHHHHhcCCCCCccCCC
Q 040167 173 DEDVCPTCLEEYTPENPKIVT--KCSHHFHLGCIYEWMERSENCPVCGKV 220 (227)
Q Consensus 173 ~~~~C~ICle~~~~~~~~~~l--~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 220 (227)
....||||=...........- -=.|.+|.-|=.+|--....||.|...
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 446999997664321100000 014556667888898778899999753
No 191
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=21.73 E-value=43 Score=27.78 Aligned_cols=22 Identities=23% Similarity=0.548 Sum_probs=13.5
Q ss_pred HHHHHHHHh-cCCCCCccCCCCc
Q 040167 201 LGCIYEWME-RSENCPVCGKVMV 222 (227)
Q Consensus 201 ~~CI~~Wl~-~~~tCPvCr~~v~ 222 (227)
+.||.+--. ..+-||+||.+..
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 347766432 3567888887643
No 192
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=21.09 E-value=47 Score=20.81 Aligned_cols=13 Identities=15% Similarity=0.268 Sum_probs=6.2
Q ss_pred CcccccccccccC
Q 040167 174 EDVCPTCLEEYTP 186 (227)
Q Consensus 174 ~~~C~ICle~~~~ 186 (227)
-..|.+|-..+..
T Consensus 26 Cf~C~~C~~~l~~ 38 (58)
T PF00412_consen 26 CFKCSKCGKPLND 38 (58)
T ss_dssp TSBETTTTCBTTT
T ss_pred ccccCCCCCccCC
Confidence 3455555554443
No 193
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.60 E-value=79 Score=23.55 Aligned_cols=31 Identities=23% Similarity=0.663 Sum_probs=21.9
Q ss_pred CCCcccccccccccC--CCCceecCCCCccCHH
Q 040167 172 EDEDVCPTCLEEYTP--ENPKIVTKCSHHFHLG 202 (227)
Q Consensus 172 ~~~~~C~ICle~~~~--~~~~~~l~C~H~FH~~ 202 (227)
+...+|+-|-..|.. ..+++...||..|...
T Consensus 7 GtKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 344688888877765 4466777788887765
No 194
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.49 E-value=40 Score=20.66 Aligned_cols=14 Identities=43% Similarity=1.089 Sum_probs=9.8
Q ss_pred CCCCccCCCCcccC
Q 040167 212 ENCPVCGKVMVFDE 225 (227)
Q Consensus 212 ~tCPvCr~~v~~~e 225 (227)
..||.|+..+.+++
T Consensus 22 ~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 22 VRCPYCGYRILFKE 35 (46)
T ss_pred eECCCCCCeEEEcc
Confidence 46888888776554
No 195
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=20.19 E-value=51 Score=24.63 Aligned_cols=25 Identities=32% Similarity=0.654 Sum_probs=17.6
Q ss_pred cccccccccccC--CCCceecCCCCcc
Q 040167 175 DVCPTCLEEYTP--ENPKIVTKCSHHF 199 (227)
Q Consensus 175 ~~C~ICle~~~~--~~~~~~l~C~H~F 199 (227)
..||-|..+|+. +...+...|+|-+
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccccc
Confidence 369999998875 4556666677753
Done!