Query 041711
Match_columns 210
No_of_seqs 267 out of 1472
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 09:53:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041711.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041711hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.9 1.6E-23 3.4E-28 182.9 5.7 173 21-207 70-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 1.3E-16 2.8E-21 100.4 2.5 44 156-199 1-44 (44)
3 COG5540 RING-finger-containing 99.5 2.7E-14 5.9E-19 121.7 4.2 51 154-204 322-373 (374)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 2.7E-13 5.8E-18 94.5 4.9 45 155-199 19-73 (73)
5 PHA02929 N1R/p28-like protein; 99.4 2.3E-13 4.9E-18 114.4 4.6 74 128-203 149-227 (238)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 9E-12 2E-16 108.9 3.5 50 154-203 286-345 (491)
7 KOG0317 Predicted E3 ubiquitin 99.2 1.9E-11 4.2E-16 103.8 3.8 49 154-205 238-286 (293)
8 PF13920 zf-C3HC4_3: Zinc fing 99.2 3E-11 6.4E-16 77.9 3.5 46 155-203 2-48 (50)
9 PF12861 zf-Apc11: Anaphase-pr 99.1 3.5E-11 7.5E-16 85.3 3.4 50 154-203 20-82 (85)
10 PLN03208 E3 ubiquitin-protein 99.1 5.9E-11 1.3E-15 96.4 4.4 48 154-204 17-80 (193)
11 KOG0823 Predicted E3 ubiquitin 99.1 3.9E-11 8.5E-16 99.2 3.3 49 154-205 46-97 (230)
12 cd00162 RING RING-finger (Real 99.1 7.8E-11 1.7E-15 72.7 3.8 44 157-202 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 99.1 7E-11 1.5E-15 72.3 3.3 39 158-198 1-39 (39)
14 PHA02926 zinc finger-like prot 99.0 1.1E-10 2.3E-15 96.2 3.3 51 154-204 169-231 (242)
15 PF14634 zf-RING_5: zinc-RING 99.0 4.9E-10 1.1E-14 70.3 3.3 44 157-200 1-44 (44)
16 PF15227 zf-C3HC4_4: zinc fing 98.9 8.9E-10 1.9E-14 68.5 3.4 38 158-198 1-42 (42)
17 KOG0320 Predicted E3 ubiquitin 98.9 7.4E-10 1.6E-14 88.3 2.6 51 154-205 130-180 (187)
18 COG5194 APC11 Component of SCF 98.9 1.4E-09 3E-14 75.6 3.3 48 156-203 21-81 (88)
19 PF00097 zf-C3HC4: Zinc finger 98.9 1.3E-09 2.8E-14 67.1 2.4 39 158-198 1-41 (41)
20 KOG0802 E3 ubiquitin ligase [P 98.9 8.3E-10 1.8E-14 103.4 2.1 49 154-202 290-340 (543)
21 smart00184 RING Ring finger. E 98.8 2.8E-09 6E-14 63.4 3.4 38 158-198 1-39 (39)
22 smart00504 Ubox Modified RING 98.8 2.9E-09 6.3E-14 71.3 3.8 45 157-204 3-47 (63)
23 KOG1493 Anaphase-promoting com 98.7 1.7E-09 3.7E-14 74.5 -0.2 50 154-203 19-81 (84)
24 TIGR00599 rad18 DNA repair pro 98.7 1.2E-08 2.7E-13 91.6 3.6 48 154-204 25-72 (397)
25 PF13445 zf-RING_UBOX: RING-ty 98.6 3.1E-08 6.8E-13 61.8 3.0 38 158-196 1-43 (43)
26 KOG2930 SCF ubiquitin ligase, 98.6 2.2E-08 4.7E-13 72.9 2.4 49 154-202 45-107 (114)
27 KOG0828 Predicted E3 ubiquitin 98.6 2.5E-08 5.3E-13 90.3 2.0 51 154-204 570-635 (636)
28 smart00744 RINGv The RING-vari 98.5 8.3E-08 1.8E-12 61.6 3.3 42 157-199 1-49 (49)
29 KOG0287 Postreplication repair 98.5 3.5E-08 7.5E-13 85.8 1.6 46 156-204 24-69 (442)
30 COG5574 PEX10 RING-finger-cont 98.5 5.3E-08 1.1E-12 82.1 2.4 47 154-203 214-262 (271)
31 COG5219 Uncharacterized conser 98.5 6.5E-08 1.4E-12 93.2 2.6 50 154-203 1468-1523(1525)
32 KOG2164 Predicted E3 ubiquitin 98.5 7.6E-08 1.6E-12 87.7 2.6 47 155-204 186-237 (513)
33 KOG1734 Predicted RING-contain 98.4 8.2E-08 1.8E-12 81.2 0.8 50 154-203 223-281 (328)
34 COG5432 RAD18 RING-finger-cont 98.4 2.1E-07 4.5E-12 79.6 2.5 46 155-203 25-70 (391)
35 PF04564 U-box: U-box domain; 98.3 4.2E-07 9.2E-12 63.1 3.1 48 154-204 3-51 (73)
36 PF11793 FANCL_C: FANCL C-term 98.3 1.3E-07 2.9E-12 65.2 -0.2 49 155-203 2-66 (70)
37 KOG2177 Predicted E3 ubiquitin 98.2 7.3E-07 1.6E-11 75.0 1.7 44 154-200 12-55 (386)
38 KOG4265 Predicted E3 ubiquitin 98.1 2E-06 4.3E-11 75.5 3.3 47 154-203 289-336 (349)
39 KOG4445 Uncharacterized conser 98.1 9.2E-07 2E-11 75.9 1.0 53 154-206 114-189 (368)
40 KOG0804 Cytoplasmic Zn-finger 98.1 1.2E-06 2.7E-11 78.7 1.8 48 154-203 174-222 (493)
41 KOG1039 Predicted E3 ubiquitin 98.0 2.6E-06 5.5E-11 75.4 2.6 50 154-203 160-221 (344)
42 PF14835 zf-RING_6: zf-RING of 97.9 2E-06 4.4E-11 57.7 -0.0 45 156-205 8-53 (65)
43 KOG0825 PHD Zn-finger protein 97.7 7.8E-06 1.7E-10 77.9 -0.3 49 154-202 122-170 (1134)
44 KOG0311 Predicted E3 ubiquitin 97.7 5.8E-06 1.3E-10 72.5 -1.1 50 154-205 42-92 (381)
45 KOG4159 Predicted E3 ubiquitin 97.5 4E-05 8.6E-10 69.2 2.2 48 154-204 83-130 (398)
46 KOG4172 Predicted E3 ubiquitin 97.5 2.6E-05 5.5E-10 50.6 0.0 45 155-203 7-54 (62)
47 KOG0978 E3 ubiquitin ligase in 97.3 5.5E-05 1.2E-09 72.2 0.5 48 155-205 643-691 (698)
48 KOG1941 Acetylcholine receptor 97.2 0.00011 2.4E-09 65.5 1.1 46 155-200 365-413 (518)
49 KOG0297 TNF receptor-associate 97.2 0.00018 4E-09 65.1 2.0 49 154-204 20-68 (391)
50 PF05883 Baculo_RING: Baculovi 97.1 0.00019 4E-09 55.3 1.4 36 155-190 26-67 (134)
51 TIGR00570 cdk7 CDK-activating 97.1 0.00035 7.6E-09 61.0 2.6 36 169-204 19-55 (309)
52 PF11789 zf-Nse: Zinc-finger o 97.1 0.00039 8.5E-09 45.9 2.1 41 155-197 11-53 (57)
53 KOG0827 Predicted E3 ubiquitin 97.0 0.00033 7.3E-09 62.3 1.5 31 173-203 23-56 (465)
54 KOG1785 Tyrosine kinase negati 96.9 0.0003 6.6E-09 62.9 0.9 47 155-204 369-417 (563)
55 KOG3970 Predicted E3 ubiquitin 96.9 0.0009 2E-08 55.7 3.2 46 156-202 51-104 (299)
56 COG5152 Uncharacterized conser 96.8 0.00038 8.3E-09 56.8 0.8 43 156-201 197-239 (259)
57 KOG1428 Inhibitor of type V ad 96.8 0.00084 1.8E-08 68.1 3.0 52 153-204 3484-3545(3738)
58 KOG2879 Predicted E3 ubiquitin 96.7 0.0016 3.5E-08 55.6 3.6 48 153-203 237-287 (298)
59 PHA03096 p28-like protein; Pro 96.7 0.00085 1.8E-08 58.2 1.7 45 156-200 179-231 (284)
60 KOG3039 Uncharacterized conser 96.6 0.0024 5.3E-08 53.8 3.8 52 154-205 220-272 (303)
61 KOG1813 Predicted E3 ubiquitin 96.6 0.00068 1.5E-08 58.4 0.4 47 155-204 241-287 (313)
62 PHA02825 LAP/PHD finger-like p 96.5 0.0025 5.5E-08 50.3 3.4 46 154-203 7-59 (162)
63 KOG1571 Predicted E3 ubiquitin 96.5 0.0016 3.5E-08 57.5 2.2 44 154-203 304-347 (355)
64 KOG2660 Locus-specific chromos 96.5 0.00076 1.6E-08 58.9 0.1 48 154-203 14-61 (331)
65 KOG1002 Nucleotide excision re 96.3 0.0018 3.9E-08 59.9 1.7 48 154-204 535-587 (791)
66 PHA02862 5L protein; Provision 96.3 0.0032 6.9E-08 49.0 2.7 44 156-203 3-53 (156)
67 PF10367 Vps39_2: Vacuolar sor 96.3 0.0017 3.8E-08 47.4 1.2 32 154-186 77-108 (109)
68 PF12906 RINGv: RING-variant d 96.3 0.0033 7.1E-08 39.8 2.3 40 158-198 1-47 (47)
69 KOG1952 Transcription factor N 96.1 0.0031 6.8E-08 61.1 2.1 47 154-200 190-244 (950)
70 PF14570 zf-RING_4: RING/Ubox 96.1 0.0043 9.2E-08 39.5 2.0 45 158-202 1-47 (48)
71 PF04641 Rtf2: Rtf2 RING-finge 95.9 0.011 2.3E-07 50.7 4.2 49 154-203 112-161 (260)
72 KOG1814 Predicted E3 ubiquitin 95.8 0.005 1.1E-07 55.4 2.1 38 154-191 183-220 (445)
73 KOG0801 Predicted E3 ubiquitin 95.7 0.0033 7.2E-08 49.8 0.4 29 154-182 176-204 (205)
74 KOG4275 Predicted E3 ubiquitin 95.7 0.002 4.4E-08 55.5 -0.9 41 155-202 300-341 (350)
75 PF10272 Tmpp129: Putative tra 95.5 0.042 9.1E-07 49.2 6.6 28 176-203 311-351 (358)
76 KOG4692 Predicted E3 ubiquitin 95.4 0.0081 1.8E-07 53.2 1.9 47 154-203 421-467 (489)
77 PF08746 zf-RING-like: RING-li 95.4 0.0074 1.6E-07 37.5 1.0 41 158-198 1-43 (43)
78 KOG3268 Predicted E3 ubiquitin 95.2 0.013 2.9E-07 47.2 2.3 52 156-207 166-232 (234)
79 KOG0826 Predicted E3 ubiquitin 95.1 0.02 4.2E-07 50.3 3.1 44 154-200 299-343 (357)
80 COG5236 Uncharacterized conser 95.1 0.023 4.9E-07 50.3 3.5 47 153-202 59-107 (493)
81 KOG0827 Predicted E3 ubiquitin 95.0 0.0013 2.8E-08 58.7 -4.5 50 155-204 196-246 (465)
82 PF03854 zf-P11: P-11 zinc fin 94.5 0.015 3.3E-07 36.7 0.8 33 173-205 15-48 (50)
83 KOG1645 RING-finger-containing 94.3 0.037 8.1E-07 49.9 2.9 32 170-201 21-54 (463)
84 KOG2114 Vacuolar assembly/sort 93.8 0.038 8.2E-07 53.9 2.3 44 154-202 839-882 (933)
85 PF07800 DUF1644: Protein of u 93.7 0.072 1.6E-06 42.2 3.3 33 155-190 2-47 (162)
86 KOG1001 Helicase-like transcri 93.5 0.03 6.4E-07 54.2 1.0 44 156-203 455-500 (674)
87 KOG2034 Vacuolar sorting prote 93.2 0.043 9.3E-07 53.8 1.6 37 153-190 815-851 (911)
88 KOG1940 Zn-finger protein [Gen 93.1 0.05 1.1E-06 47.0 1.6 45 156-200 159-204 (276)
89 KOG0298 DEAD box-containing he 93.0 0.034 7.5E-07 56.4 0.7 47 154-202 1152-1198(1394)
90 KOG2932 E3 ubiquitin ligase in 93.0 0.043 9.4E-07 47.9 1.2 42 157-202 92-133 (389)
91 PF14447 Prok-RING_4: Prokaryo 92.6 0.078 1.7E-06 34.6 1.6 46 156-206 8-53 (55)
92 KOG3899 Uncharacterized conser 92.2 0.36 7.8E-06 42.0 5.7 28 176-203 325-365 (381)
93 PF05290 Baculo_IE-1: Baculovi 92.1 0.14 3.1E-06 39.4 2.9 50 155-207 80-136 (140)
94 COG5175 MOT2 Transcriptional r 92.0 0.1 2.2E-06 46.2 2.2 51 154-204 13-65 (480)
95 KOG3161 Predicted E3 ubiquitin 91.6 0.057 1.2E-06 51.3 0.2 42 156-200 12-54 (861)
96 COG5222 Uncharacterized conser 91.5 0.11 2.3E-06 45.3 1.7 42 156-200 275-318 (427)
97 COG5220 TFB3 Cdk activating ki 90.9 0.12 2.6E-06 43.7 1.4 45 155-199 10-60 (314)
98 cd02127 PA_hPAP21_like PA_hPAP 90.8 0.061 1.3E-06 40.6 -0.4 67 29-105 33-106 (118)
99 KOG3002 Zn finger protein [Gen 90.6 0.17 3.7E-06 44.3 2.2 42 155-203 48-91 (299)
100 KOG4185 Predicted E3 ubiquitin 90.1 0.19 4.1E-06 43.5 2.1 35 168-202 19-54 (296)
101 KOG1812 Predicted E3 ubiquitin 89.0 0.13 2.9E-06 46.5 0.3 39 154-192 145-184 (384)
102 KOG0309 Conserved WD40 repeat- 88.9 0.24 5.3E-06 48.0 2.0 39 158-197 1031-1069(1081)
103 KOG1609 Protein involved in mR 88.1 0.24 5.1E-06 42.8 1.3 48 155-202 78-133 (323)
104 KOG0802 E3 ubiquitin ligase [P 88.0 0.25 5.5E-06 46.6 1.5 46 154-206 478-523 (543)
105 KOG1100 Predicted E3 ubiquitin 88.0 0.28 6.1E-06 40.7 1.6 41 158-205 161-202 (207)
106 cd02123 PA_C_RZF_like PA_C-RZF 88.0 0.13 2.7E-06 40.6 -0.5 73 25-107 62-139 (153)
107 PF14446 Prok-RING_1: Prokaryo 87.8 0.6 1.3E-05 30.4 2.7 33 154-186 4-37 (54)
108 COG5183 SSM4 Protein involved 87.5 0.42 9.2E-06 46.8 2.6 50 154-204 11-67 (1175)
109 cd02125 PA_VSR PA_VSR: Proteas 87.5 0.22 4.7E-06 38.1 0.6 69 28-106 40-118 (127)
110 KOG3053 Uncharacterized conser 87.1 0.3 6.5E-06 41.6 1.3 49 154-202 19-81 (293)
111 KOG2817 Predicted E3 ubiquitin 86.2 0.67 1.4E-05 41.8 3.0 46 155-200 334-382 (394)
112 cd02122 PA_GRAIL_like PA _GRAI 83.9 0.25 5.3E-06 38.4 -0.7 68 28-105 58-128 (138)
113 PF02757 YLP: YLP motif; Inte 82.7 0.77 1.7E-05 19.1 0.9 8 17-24 1-8 (9)
114 KOG4362 Transcriptional regula 82.0 0.36 7.7E-06 46.5 -0.5 45 156-203 22-69 (684)
115 KOG4718 Non-SMC (structural ma 81.7 0.75 1.6E-05 38.2 1.3 44 155-200 181-224 (235)
116 KOG1812 Predicted E3 ubiquitin 81.2 0.76 1.6E-05 41.7 1.3 44 155-198 306-351 (384)
117 KOG1815 Predicted E3 ubiquitin 80.8 0.86 1.9E-05 42.0 1.5 37 154-192 69-105 (444)
118 cd02129 PA_hSPPL_like PA_hSPPL 80.7 0.3 6.4E-06 37.1 -1.3 68 29-106 43-113 (120)
119 PF02891 zf-MIZ: MIZ/SP-RING z 80.6 2.4 5.3E-05 26.9 3.1 42 157-201 4-50 (50)
120 cd04813 PA_1 PA_1: Protease-as 79.9 0.74 1.6E-05 34.6 0.6 85 7-101 14-105 (117)
121 KOG2066 Vacuolar assembly/sort 79.0 0.82 1.8E-05 44.6 0.8 44 155-199 784-831 (846)
122 KOG0825 PHD Zn-finger protein 77.8 1.3 2.8E-05 43.5 1.7 50 154-203 95-154 (1134)
123 KOG3005 GIY-YIG type nuclease 74.8 1.8 3.9E-05 37.2 1.7 48 155-202 182-242 (276)
124 PF13901 DUF4206: Domain of un 74.3 2.3 5E-05 35.0 2.1 41 155-200 152-197 (202)
125 KOG0824 Predicted E3 ubiquitin 73.2 2 4.3E-05 37.6 1.5 14 192-205 42-55 (324)
126 smart00249 PHD PHD zinc finger 71.2 2.8 6E-05 24.9 1.5 31 157-187 1-31 (47)
127 KOG3113 Uncharacterized conser 71.2 4.9 0.00011 34.4 3.4 50 154-205 110-160 (293)
128 cd02132 PA_GO-like PA_GO-like: 70.4 0.95 2.1E-05 35.0 -1.0 68 28-105 57-129 (139)
129 KOG2068 MOT2 transcription fac 70.4 3.9 8.4E-05 36.2 2.7 52 155-206 249-301 (327)
130 KOG3579 Predicted E3 ubiquitin 67.6 3.4 7.3E-05 36.0 1.7 35 155-192 268-306 (352)
131 KOG1829 Uncharacterized conser 65.0 2.4 5.1E-05 40.4 0.3 42 154-198 510-556 (580)
132 cd04817 PA_VapT_like PA_VapT_l 64.2 1.6 3.4E-05 34.0 -0.9 67 29-105 55-131 (139)
133 PF07975 C1_4: TFIIH C1-like d 63.9 6.7 0.00014 25.2 2.2 42 158-199 2-50 (51)
134 PF01363 FYVE: FYVE zinc finge 63.2 3.7 8.1E-05 27.3 1.0 36 154-189 8-44 (69)
135 KOG3842 Adaptor protein Pellin 63.2 21 0.00046 31.7 5.8 51 154-204 340-415 (429)
136 KOG2807 RNA polymerase II tran 63.1 6.9 0.00015 34.7 2.8 48 154-201 329-376 (378)
137 PF06844 DUF1244: Protein of u 62.5 4.8 0.0001 27.3 1.4 13 179-191 11-23 (68)
138 PF00628 PHD: PHD-finger; Int 61.5 4.4 9.5E-05 25.2 1.0 43 157-199 1-49 (51)
139 cd02126 PA_EDEM3_like PA_EDEM3 57.9 3.5 7.5E-05 31.2 0.1 67 29-105 39-116 (126)
140 smart00132 LIM Zinc-binding do 57.3 14 0.0003 20.9 2.7 36 158-202 2-37 (39)
141 cd00065 FYVE FYVE domain; Zinc 56.7 7.6 0.00016 24.7 1.6 35 156-190 3-38 (57)
142 KOG4185 Predicted E3 ubiquitin 52.7 2.1 4.6E-05 36.9 -2.1 47 155-201 207-265 (296)
143 KOG3039 Uncharacterized conser 52.5 10 0.00022 32.5 2.0 35 154-191 42-76 (303)
144 PF02225 PA: PA domain; Inter 52.3 1.2 2.7E-05 31.5 -3.1 70 26-105 29-101 (101)
145 smart00368 LRR_RI Leucine rich 52.2 8.2 0.00018 21.2 1.0 14 8-21 1-14 (28)
146 PF14569 zf-UDP: Zinc-binding 52.2 18 0.00039 25.4 2.8 49 154-202 8-61 (80)
147 KOG0269 WD40 repeat-containing 51.7 13 0.00028 36.5 2.8 41 156-197 780-820 (839)
148 PF06906 DUF1272: Protein of u 51.3 25 0.00053 23.1 3.2 44 157-202 7-51 (57)
149 cd02130 PA_ScAPY_like PA_ScAPY 50.6 5.1 0.00011 29.9 -0.1 67 29-105 43-112 (122)
150 PF13504 LRR_7: Leucine rich r 49.6 10 0.00022 18.3 1.0 11 9-19 1-11 (17)
151 PF04423 Rad50_zn_hook: Rad50 47.6 6 0.00013 25.3 -0.1 11 194-204 22-32 (54)
152 TIGR00622 ssl1 transcription f 47.3 22 0.00048 26.6 2.9 44 156-199 56-110 (112)
153 smart00064 FYVE Protein presen 46.3 13 0.00029 24.5 1.5 37 155-191 10-47 (68)
154 PF10571 UPF0547: Uncharacteri 44.7 12 0.00025 20.5 0.8 12 194-205 2-13 (26)
155 COG0353 RecR Recombinational D 43.1 49 0.0011 27.3 4.5 31 78-108 5-35 (198)
156 COG5109 Uncharacterized conser 42.8 21 0.00047 31.6 2.6 45 155-199 336-383 (396)
157 PF13717 zinc_ribbon_4: zinc-r 42.5 13 0.00027 21.9 0.8 25 157-181 4-36 (36)
158 PF07191 zinc-ribbons_6: zinc- 41.9 2.5 5.5E-05 29.0 -2.6 38 157-202 3-40 (70)
159 KOG1729 FYVE finger containing 41.6 4.8 0.0001 35.1 -1.6 38 156-193 215-252 (288)
160 PRK13844 recombination protein 40.7 58 0.0012 26.9 4.7 30 79-108 9-38 (200)
161 PLN02189 cellulose synthase 40.6 29 0.00064 35.4 3.5 50 154-203 33-87 (1040)
162 PF07649 C1_3: C1-like domain; 40.0 23 0.0005 19.6 1.6 29 157-185 2-30 (30)
163 PF02318 FYVE_2: FYVE-type zin 39.3 18 0.0004 27.0 1.5 45 154-199 53-101 (118)
164 KOG1815 Predicted E3 ubiquitin 38.7 8.9 0.00019 35.3 -0.4 39 154-192 225-268 (444)
165 cd04816 PA_SaNapH_like PA_SaNa 38.4 8 0.00017 28.8 -0.6 68 28-105 41-112 (122)
166 PF13832 zf-HC5HC2H_2: PHD-zin 37.8 27 0.00059 25.3 2.2 32 155-188 55-88 (110)
167 PLN02638 cellulose synthase A 37.4 37 0.00081 34.9 3.6 50 154-203 16-70 (1079)
168 PLN02436 cellulose synthase A 37.1 36 0.00078 35.0 3.5 50 154-203 35-89 (1094)
169 PF05605 zf-Di19: Drought indu 36.7 14 0.0003 23.5 0.4 37 156-202 3-41 (54)
170 PF14169 YdjO: Cold-inducible 36.7 17 0.00037 24.1 0.8 13 192-204 39-51 (59)
171 PF00412 LIM: LIM domain; Int 36.6 36 0.00078 21.3 2.4 26 158-184 1-26 (58)
172 TIGR01367 pyrE_Therm orotate p 36.3 20 0.00042 29.1 1.3 18 192-209 169-186 (187)
173 cd00350 rubredoxin_like Rubred 35.6 21 0.00044 20.4 1.0 9 193-201 18-26 (33)
174 PLN02195 cellulose synthase A 33.8 64 0.0014 32.9 4.6 51 154-204 5-60 (977)
175 cd02124 PA_PoS1_like PA_PoS1_l 33.8 15 0.00032 28.0 0.2 29 29-64 54-82 (129)
176 COG3492 Uncharacterized protei 33.4 22 0.00048 25.7 1.0 13 179-191 42-54 (104)
177 PRK00076 recR recombination pr 33.3 92 0.002 25.6 4.8 30 79-108 5-34 (196)
178 COG5276 Uncharacterized conser 33.2 20 0.00043 31.8 0.9 24 5-36 187-210 (370)
179 KOG0824 Predicted E3 ubiquitin 33.0 13 0.00028 32.6 -0.2 46 154-202 104-150 (324)
180 smart00647 IBR In Between Ring 32.2 8.1 0.00018 24.8 -1.3 14 175-188 45-58 (64)
181 PF04216 FdhE: Protein involve 32.2 5.8 0.00013 34.3 -2.6 47 154-201 171-220 (290)
182 PLN02400 cellulose synthase 31.6 35 0.00077 35.0 2.4 50 154-203 35-89 (1085)
183 COG4847 Uncharacterized protei 31.4 60 0.0013 23.6 3.0 36 156-192 7-42 (103)
184 KOG3726 Uncharacterized conser 31.2 24 0.00052 34.3 1.2 41 155-198 654-695 (717)
185 KOG1245 Chromatin remodeling c 31.2 17 0.00036 38.5 0.1 49 154-202 1107-1159(1404)
186 cd00538 PA PA: Protease-associ 31.1 14 0.0003 26.9 -0.4 71 26-106 42-117 (126)
187 COG5574 PEX10 RING-finger-cont 30.9 52 0.0011 28.4 3.0 37 154-190 94-132 (271)
188 PF13719 zinc_ribbon_5: zinc-r 30.2 36 0.00078 20.0 1.4 25 157-181 4-36 (37)
189 PLN02915 cellulose synthase A 29.5 69 0.0015 32.9 4.0 50 154-203 14-68 (1044)
190 TIGR00615 recR recombination p 29.2 1.1E+02 0.0025 25.1 4.7 30 79-108 5-34 (195)
191 smart00734 ZnF_Rad18 Rad18-lik 28.7 28 0.00061 18.9 0.7 10 194-203 3-12 (26)
192 PF14311 DUF4379: Domain of un 28.4 37 0.0008 21.6 1.4 23 175-198 33-55 (55)
193 PF13771 zf-HC5HC2H: PHD-like 28.1 35 0.00076 23.6 1.3 30 156-187 37-68 (90)
194 KOG2071 mRNA cleavage and poly 27.8 30 0.00065 33.1 1.1 36 154-189 512-557 (579)
195 PF10497 zf-4CXXC_R1: Zinc-fin 27.6 46 0.00099 24.5 1.9 24 177-200 37-69 (105)
196 PRK11827 hypothetical protein; 26.9 25 0.00055 23.3 0.4 18 187-204 3-20 (60)
197 PF00560 LRR_1: Leucine Rich R 26.7 26 0.00057 17.8 0.3 10 10-19 1-10 (22)
198 PF13516 LRR_6: Leucine Rich r 26.6 32 0.00069 17.7 0.7 11 8-18 1-11 (24)
199 KOG4218 Nuclear hormone recept 25.7 25 0.00054 31.6 0.2 47 154-201 14-76 (475)
200 PF06750 DiS_P_DiS: Bacterial 24.9 61 0.0013 23.2 2.1 39 154-204 32-70 (92)
201 PF08309 LVIVD: LVIVD repeat; 24.6 63 0.0014 19.6 1.8 11 7-17 19-29 (42)
202 PF13983 YsaB: YsaB-like lipop 24.2 47 0.001 22.8 1.3 16 2-17 25-40 (77)
203 PF09723 Zn-ribbon_8: Zinc rib 23.7 18 0.00039 21.9 -0.7 25 175-200 10-34 (42)
204 cd02133 PA_C5a_like PA_C5a_lik 23.7 20 0.00043 27.4 -0.7 68 29-107 46-114 (143)
205 KOG4430 Topoisomerase I-bindin 23.5 30 0.00066 32.8 0.4 52 154-205 259-311 (553)
206 KOG1512 PHD Zn-finger protein 23.4 33 0.00072 30.0 0.6 33 154-186 313-345 (381)
207 PF10146 zf-C4H2: Zinc finger- 23.3 53 0.0012 27.7 1.8 23 181-203 197-219 (230)
208 PF09889 DUF2116: Uncharacteri 23.1 48 0.001 21.9 1.1 14 192-205 3-16 (59)
209 COG2835 Uncharacterized conser 23.0 40 0.00087 22.4 0.8 11 194-204 10-20 (60)
210 KOG2979 Protein involved in DN 22.8 45 0.00097 28.7 1.2 41 156-198 177-219 (262)
211 cd04818 PA_subtilisin_1 PA_sub 22.6 29 0.00064 25.4 0.1 69 28-106 38-109 (118)
212 KOG4021 Mitochondrial ribosoma 22.4 43 0.00094 27.7 1.0 20 182-201 97-117 (239)
213 PF09237 GAGA: GAGA factor; I 22.3 27 0.00058 22.6 -0.2 8 194-201 26-33 (54)
214 COG4647 AcxC Acetone carboxyla 21.9 53 0.0012 25.4 1.3 23 158-183 60-82 (165)
215 PF10083 DUF2321: Uncharacteri 21.9 68 0.0015 25.5 2.0 26 177-205 27-52 (158)
216 KOG4451 Uncharacterized conser 21.5 71 0.0015 27.1 2.1 25 180-204 251-275 (286)
217 KOG4443 Putative transcription 21.4 49 0.0011 32.1 1.3 28 175-202 40-72 (694)
218 COG4068 Uncharacterized protei 20.9 61 0.0013 21.5 1.3 15 192-206 8-22 (64)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.88 E-value=1.6e-23 Score=182.85 Aligned_cols=173 Identities=19% Similarity=0.281 Sum_probs=101.6
Q ss_pred CCCCCCCCCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchh--HH-HHHHHhhhhccCcChHH
Q 041711 21 IPDQDRNLSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDS--FL-EDLRANLLSTQGLGECA 97 (210)
Q Consensus 21 ~~~~~~~~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~--~~-~~l~~~ll~~~~l~~~~ 97 (210)
.+|.....+.+|+++|+|..|+|..+ .++|||+||++ +|++++...+. .. .+-....+..+.++...
T Consensus 70 ~~p~~~~~~~~~laLI~Rg~CsFe~K-------v~~AQ~aGfka---aIVynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ 139 (348)
T KOG4628|consen 70 NFPEHSTRSTSFLALIRRGGCSFEDK-------VLNAQRAGFKA---AIVYNNVGSEDLVAMASNPSKVDIHIVFVSVFS 139 (348)
T ss_pred cCccCCCCCcceEEEEEccCCchHHH-------HhhcccccCce---EEEecCCCCchheeeccCCccceeEEEEEeeeh
Confidence 33566788899999999999999655 56999999999 66555443321 00 00001112222333333
Q ss_pred HHHHHHHHHHHHHhc-----cccCCCCCCcc-------------------------------ccccCCCHHHHhhcccce
Q 041711 98 QEILMKTILDEAKAA-----AHATPYDPECS-------------------------------LVAVGVQLEVVRVIETWE 141 (210)
Q Consensus 98 ~e~l~~~v~~~~~~~-----~~~~~~~~~~~-------------------------------~~~~g~~~~~~~~l~~~~ 141 (210)
.+.+.++.......- ....+.++... ..-.++.+..++.+|...
T Consensus 140 ge~l~~~~~~~~~~~~~~~~~~~~~~ws~~~~~~i~~l~v~~il~~~f~i~~~~~~~~~r~~~~~~r~~k~~l~~~p~~~ 219 (348)
T KOG4628|consen 140 GELLSSYAGRTEFECLLIPLGFDTSPWSILAISLISLLTVVAILVTCFFIYRIRRLIRARNRLRRNRLIKRLLKKLPVRT 219 (348)
T ss_pred HHHHHHhhcccceeeeeccccccCCcchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHhhCCcEE
Confidence 444433322211100 01111111100 001122333444444433
Q ss_pred eeeecccCccccCccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC-CCCccCcCCCCCCC
Q 041711 142 IAILEEGSGLILGQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN-NCPTCRFTLPCTTT 207 (210)
Q Consensus 142 ~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~-~CPlCR~~i~~~~~ 207 (210)
+. .+...... .+|+||||+|..|+++++|||+|.||..||++||...+ .||+||++++....
T Consensus 220 f~---~~~~~~~~-~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 220 FT---KGDDEDAT-DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred ec---cccccCCC-ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 33 32222112 58999999999999999999999999999999999875 59999999966543
No 2
>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=99.63 E-value=1.3e-16 Score=100.40 Aligned_cols=44 Identities=55% Similarity=1.311 Sum_probs=40.4
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCR 199 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR 199 (210)
++|+||+++|..++.++.++|+|.||..||.+|++.+.+||+||
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 36999999999889999999999999999999999999999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=2.7e-14 Score=121.66 Aligned_cols=51 Identities=37% Similarity=0.901 Sum_probs=47.3
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHh-cCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLV-TGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i~~ 204 (210)
.+-+|+|||+.|..++..++|||+|.||..|+++|+. .+..||+||.++|.
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 4578999999999999999999999999999999999 67899999999975
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.41 E-value=2.7e-13 Score=94.46 Aligned_cols=45 Identities=38% Similarity=0.959 Sum_probs=35.8
Q ss_pred ccccccccccccCC----------CeeEEeCCCCcccHHhHHHHHhcCCCCCccC
Q 041711 155 QERCVICLEEFSEG----------DEVISLQCSHVHHRHCILKWLVTGNNCPTCR 199 (210)
Q Consensus 155 ~~~C~ICle~~~~~----------~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR 199 (210)
++.|+||++.|... -.+...+|+|.||..||.+||..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44699999999421 2344449999999999999999999999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.40 E-value=2.3e-13 Score=114.40 Aligned_cols=74 Identities=23% Similarity=0.398 Sum_probs=52.0
Q ss_pred CCCHHHHhhcccceeeeecccCccccCccccccccccccCCCe----eEEe-CCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 128 GVQLEVVRVIETWEIAILEEGSGLILGQERCVICLEEFSEGDE----VISL-QCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 128 g~~~~~~~~l~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~----~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
|...+.++.+|.......... ....+.+|+||++.+..++. ..++ +|+|.||..||.+|+..+.+||+||.++
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~~--~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKLY--NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred chhHHHHHhcchhhhhhhhhh--cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 455566666666543211110 11245789999999876431 2344 8999999999999999999999999987
Q ss_pred C
Q 041711 203 P 203 (210)
Q Consensus 203 ~ 203 (210)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 4
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=9e-12 Score=108.93 Aligned_cols=50 Identities=34% Similarity=0.864 Sum_probs=43.2
Q ss_pred Ccccccccccc-ccCC---------CeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEE-FSEG---------DEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~-~~~~---------~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
++..|+||+++ |..+ ..+..|||||.||.+|+..|+.+.++||+||.++-
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 56789999999 5443 24678999999999999999999999999999963
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.9e-11 Score=103.84 Aligned_cols=49 Identities=31% Similarity=0.767 Sum_probs=42.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
....|.+||+..++ +..+||||.||+.||..|+..+..||+||..+...
T Consensus 238 a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 34679999999765 55789999999999999999999999999988543
No 8
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.15 E-value=3e-11 Score=77.87 Aligned_cols=46 Identities=33% Similarity=0.794 Sum_probs=38.9
Q ss_pred ccccccccccccCCCeeEEeCCCCc-ccHHhHHHHHhcCCCCCccCcCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHV-HHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
+..|.||++.... +..+||+|. ||..|+..|+..+..||+||++|.
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 4579999998653 667799999 999999999999999999999874
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.13 E-value=3.5e-11 Score=85.33 Aligned_cols=50 Identities=44% Similarity=0.956 Sum_probs=40.1
Q ss_pred CccccccccccccC--------CCe-eEEe-CCCCcccHHhHHHHHhc---CCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE--------GDE-VISL-QCSHVHHRHCILKWLVT---GNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~--------~~~-~~~L-pC~H~Fh~~CI~~Wl~~---~~~CPlCR~~i~ 203 (210)
+++.|.||...|.. |+. +.++ .|+|.||..||.+|++. +..||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 46789999999972 332 3344 89999999999999986 468999999864
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.11 E-value=5.9e-11 Score=96.38 Aligned_cols=48 Identities=29% Similarity=0.759 Sum_probs=39.8
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc----------------CCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT----------------GNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~----------------~~~CPlCR~~i~~ 204 (210)
+..+|+||++.+.+ +++++|+|.||+.||..|+.. +..||+||..+..
T Consensus 17 ~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 55789999998754 567899999999999999852 2479999999854
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=3.9e-11 Score=99.21 Aligned_cols=49 Identities=29% Similarity=0.749 Sum_probs=41.2
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC---CCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG---NNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CPlCR~~i~~~ 205 (210)
...+|.|||+.- +.++++.|||.||+.||.+||..+ +.||+||..|..+
T Consensus 46 ~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 46 GFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred Cceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 567899999983 457778999999999999999874 5799999988544
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=99.11 E-value=7.8e-11 Score=72.74 Aligned_cols=44 Identities=52% Similarity=1.121 Sum_probs=36.4
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhc-CCCCCccCcCC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT-GNNCPTCRFTL 202 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i 202 (210)
+|+||++.+ .+.....+|+|.||..|+..|+.. +..||+||..+
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 233444479999999999999998 67899999764
No 13
>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=99.10 E-value=7e-11 Score=72.26 Aligned_cols=39 Identities=38% Similarity=0.984 Sum_probs=33.1
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlC 198 (210)
|+||++.+.+ .++.++|||.||..|+.+|+..+..||+|
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 8999999865 44677999999999999999998899998
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.05 E-value=1.1e-10 Score=96.21 Aligned_cols=51 Identities=31% Similarity=0.633 Sum_probs=39.8
Q ss_pred CccccccccccccCC-----CeeEEe-CCCCcccHHhHHHHHhcC------CCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEG-----DEVISL-QCSHVHHRHCILKWLVTG------NNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~-----~~~~~L-pC~H~Fh~~CI~~Wl~~~------~~CPlCR~~i~~ 204 (210)
.+.+|+||||..-.+ ....+| +|+|.||..||..|...+ .+||+||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 457899999987432 224556 999999999999999863 469999998743
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.97 E-value=4.9e-10 Score=70.32 Aligned_cols=44 Identities=32% Similarity=0.723 Sum_probs=38.3
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
.|.||++.|.......+++|+|.||..|+..+......||+||+
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 49999999965566888899999999999999866679999985
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.93 E-value=8.9e-10 Score=68.54 Aligned_cols=38 Identities=37% Similarity=0.911 Sum_probs=29.9
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHhcC----CCCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG----NNCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~----~~CPlC 198 (210)
|+||++.|.+ ++.|+|||.||..||..|.+.. ..||.|
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 8999999975 7789999999999999999874 369988
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=7.4e-10 Score=88.27 Aligned_cols=51 Identities=39% Similarity=0.772 Sum_probs=42.9
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
+...|+|||+.++... +..++|||+||..||...++....||+||..|..+
T Consensus 130 ~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 4578999999997633 34579999999999999999999999999877543
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.88 E-value=1.4e-09 Score=75.61 Aligned_cols=48 Identities=40% Similarity=0.838 Sum_probs=37.2
Q ss_pred ccccccccccc-----------CCCee-EEe-CCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 156 ERCVICLEEFS-----------EGDEV-ISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 156 ~~C~ICle~~~-----------~~~~~-~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
+.|+||...|- .+++. ..- .|+|.||..||.+||..+..||++|++..
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 45777766553 34433 333 79999999999999999999999999874
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.86 E-value=1.3e-09 Score=67.06 Aligned_cols=39 Identities=49% Similarity=1.111 Sum_probs=32.9
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHh--cCCCCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLV--TGNNCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~--~~~~CPlC 198 (210)
|+||++.+.. ....++|+|.||..|+..|+. ....||+|
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 8999999865 234679999999999999999 34689998
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=8.3e-10 Score=103.44 Aligned_cols=49 Identities=41% Similarity=0.993 Sum_probs=44.0
Q ss_pred CccccccccccccCCCe--eEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDE--VISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~--~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
....|.||+|++..+.. +..|+|+|.||..|+..|+.+..+||+||..+
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 46789999999988654 67889999999999999999999999999954
No 21
>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=98.84 E-value=2.8e-09 Score=63.43 Aligned_cols=38 Identities=50% Similarity=1.168 Sum_probs=32.6
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHh-cCCCCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLV-TGNNCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~-~~~~CPlC 198 (210)
|+||++.. .....++|+|.||..|+..|+. .+..||+|
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 78999883 4577789999999999999998 56689997
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.84 E-value=2.9e-09 Score=71.29 Aligned_cols=45 Identities=27% Similarity=0.440 Sum_probs=40.2
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
.|+||++.+.+ ++.++|||+|+..||.+|+..+.+||+|+.++..
T Consensus 3 ~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 3 LCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred CCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 69999999876 5677999999999999999998899999998843
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=1.7e-09 Score=74.52 Aligned_cols=50 Identities=46% Similarity=0.941 Sum_probs=39.2
Q ss_pred CccccccccccccC--------CCe-eEEe-CCCCcccHHhHHHHHhcC---CCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE--------GDE-VISL-QCSHVHHRHCILKWLVTG---NNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~--------~~~-~~~L-pC~H~Fh~~CI~~Wl~~~---~~CPlCR~~i~ 203 (210)
++++|.||.-.|.. |+. +.++ -|.|.||..||.+|+... ..||+||+...
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 45689999999963 332 3344 799999999999999874 47999999763
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=98.68 E-value=1.2e-08 Score=91.59 Aligned_cols=48 Identities=31% Similarity=0.587 Sum_probs=41.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
....|+||++.|.. +++++|+|.||..||..|+.....||+||..+..
T Consensus 25 ~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 44689999999864 4567999999999999999988899999998754
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.61 E-value=3.1e-08 Score=61.83 Aligned_cols=38 Identities=37% Similarity=0.810 Sum_probs=22.9
Q ss_pred cccccccccCCC-eeEEeCCCCcccHHhHHHHHhcC----CCCC
Q 041711 158 CVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTG----NNCP 196 (210)
Q Consensus 158 C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~----~~CP 196 (210)
|+||.+ |...+ .+++|+|||+|+..|+.+++..+ -.||
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 75544 57888999999999999999854 2576
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.2e-08 Score=72.94 Aligned_cols=49 Identities=33% Similarity=0.681 Sum_probs=37.5
Q ss_pred Ccccccccccccc------------CCCeeEEe--CCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFS------------EGDEVISL--QCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~------------~~~~~~~L--pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
.-+.|+||..-+- ..++..+. -|+|.||..||.+||+.+..||+|.++.
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 3467999876552 12233333 7999999999999999999999997764
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=2.5e-08 Score=90.32 Aligned_cols=51 Identities=35% Similarity=0.907 Sum_probs=40.3
Q ss_pred CccccccccccccC---CCe-----------eEEeCCCCcccHHhHHHHHh-cCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSE---GDE-----------VISLQCSHVHHRHCILKWLV-TGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~-----------~~~LpC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i~~ 204 (210)
....|+|||.++.- +.. -+.+||.|.||..|+.+|+. .+-.||+||.++|.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 45689999999852 111 23349999999999999999 45699999999974
No 28
>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=98.53 E-value=8.3e-08 Score=61.63 Aligned_cols=42 Identities=21% Similarity=0.748 Sum_probs=33.2
Q ss_pred ccccccccccCCCeeEEeCCC-----CcccHHhHHHHHhcC--CCCCccC
Q 041711 157 RCVICLEEFSEGDEVISLQCS-----HVHHRHCILKWLVTG--NNCPTCR 199 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~~--~~CPlCR 199 (210)
.|.||++ ...++...+.||. |.+|..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 3344556677885 899999999999765 4899995
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.51 E-value=3.5e-08 Score=85.81 Aligned_cols=46 Identities=39% Similarity=0.722 Sum_probs=41.3
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
-.|.||.+.|.. ++++||+|.||.-||..+|+.++.||.|+.++.+
T Consensus 24 LRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 24 LRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 469999999875 5677999999999999999999999999988754
No 30
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=5.3e-08 Score=82.14 Aligned_cols=47 Identities=30% Similarity=0.683 Sum_probs=39.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHH-HHhcCC-CCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILK-WLVTGN-NCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~-Wl~~~~-~CPlCR~~i~ 203 (210)
.+..|+||++.... +..++|||.||+.||.. |-.++. .||+||+.+-
T Consensus 214 ~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 214 ADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred cccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 46789999998654 55789999999999999 887776 4999999773
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.48 E-value=6.5e-08 Score=93.18 Aligned_cols=50 Identities=32% Similarity=0.830 Sum_probs=39.0
Q ss_pred CccccccccccccCCC----eeEEeCCCCcccHHhHHHHHhc--CCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGD----EVISLQCSHVHHRHCILKWLVT--GNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~----~~~~LpC~H~Fh~~CI~~Wl~~--~~~CPlCR~~i~ 203 (210)
+-++|+||+..+..-+ .-+.-.|+|.||..|+.+|+.. +.+||+||..++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 5678999999886212 1123369999999999999986 468999998875
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=7.6e-08 Score=87.68 Aligned_cols=47 Identities=34% Similarity=0.729 Sum_probs=38.3
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC-----CCCCccCcCCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG-----NNCPTCRFTLPC 204 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-----~~CPlCR~~i~~ 204 (210)
+..|+|||+.... +..+.|||+||..||..++... ..||+||..|-.
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 5689999998654 3455799999999999988764 479999998844
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=8.2e-08 Score=81.20 Aligned_cols=50 Identities=26% Similarity=0.741 Sum_probs=41.8
Q ss_pred CccccccccccccCCC-------eeEEeCCCCcccHHhHHHHHh--cCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGD-------EVISLQCSHVHHRHCILKWLV--TGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~-------~~~~LpC~H~Fh~~CI~~Wl~--~~~~CPlCR~~i~ 203 (210)
++..|+||-..+.... ....|.|+|+||..||.-|.. ++++||-|+..+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 6778999998886543 567889999999999999975 4679999988763
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.36 E-value=2.1e-07 Score=79.61 Aligned_cols=46 Identities=33% Similarity=0.505 Sum_probs=40.1
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
...|-||-+.|.. +..++|||.||.-||...|..++.||+||.+..
T Consensus 25 ~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 25 MLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 3579999998865 456699999999999999999999999998763
No 35
>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=98.33 E-value=4.2e-07 Score=63.06 Aligned_cols=48 Identities=27% Similarity=0.386 Sum_probs=37.7
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc-CCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT-GNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i~~ 204 (210)
+...|+|+.+-|.+ ++++++||+|...||..|+.. +.+||+|+.++..
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 34579999999875 778899999999999999999 7899999998854
No 36
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.28 E-value=1.3e-07 Score=65.16 Aligned_cols=49 Identities=22% Similarity=0.645 Sum_probs=23.6
Q ss_pred cccccccccccc-CCCeeEEe----CCCCcccHHhHHHHHhc----C-------CCCCccCcCCC
Q 041711 155 QERCVICLEEFS-EGDEVISL----QCSHVHHRHCILKWLVT----G-------NNCPTCRFTLP 203 (210)
Q Consensus 155 ~~~C~ICle~~~-~~~~~~~L----pC~H~Fh~~CI~~Wl~~----~-------~~CPlCR~~i~ 203 (210)
+.+|.||++.+. .++.+... .|+..||..|+.+||.. + ..||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 357999999876 44433333 59999999999999975 1 13999999874
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=7.3e-07 Score=75.00 Aligned_cols=44 Identities=36% Similarity=0.729 Sum_probs=38.2
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
+...|+||++.|... .+++|+|.||..|+..+....-.||.||.
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 456899999999875 67899999999999999985568999993
No 38
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2e-06 Score=75.51 Aligned_cols=47 Identities=34% Similarity=0.743 Sum_probs=39.6
Q ss_pred CccccccccccccCCCeeEEeCCCCc-ccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHV-HHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~-Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
...+|.|||.+-. ...+|||.|. -|..|.+...-+.+.||+||+++.
T Consensus 289 ~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 4678999999854 3778999996 688899888777899999999984
No 39
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.10 E-value=9.2e-07 Score=75.94 Aligned_cols=53 Identities=28% Similarity=0.666 Sum_probs=43.7
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc-----------------------CCCCCccCcCCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT-----------------------GNNCPTCRFTLPCTT 206 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-----------------------~~~CPlCR~~i~~~~ 206 (210)
....|+|||--|..++...+++|.|+||..|+.++|+. +..||+||..|-.+.
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 44679999999999998889999999999999887653 124999999985543
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.09 E-value=1.2e-06 Score=78.70 Aligned_cols=48 Identities=29% Similarity=0.937 Sum_probs=37.8
Q ss_pred CccccccccccccCCC-eeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
+-.+|++|||.+...- .++.+.|.|.||..|+..|- ..+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 4568999999997643 23445899999999999994 468999997553
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=2.6e-06 Score=75.43 Aligned_cols=50 Identities=32% Similarity=0.749 Sum_probs=39.0
Q ss_pred CccccccccccccCCC----eeEEe-CCCCcccHHhHHHHHh--c-----CCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGD----EVISL-QCSHVHHRHCILKWLV--T-----GNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~----~~~~L-pC~H~Fh~~CI~~Wl~--~-----~~~CPlCR~~i~ 203 (210)
.+..|.||++.+...- ...+| +|.|.||..||..|.. + .+.||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 4678999999986533 13445 6999999999999984 3 367999998763
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.92 E-value=2e-06 Score=57.74 Aligned_cols=45 Identities=29% Similarity=0.703 Sum_probs=22.9
Q ss_pred cccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 156 ERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
-.|++|.+.+.. ++.| .|.|.||..||..-+. ..||+|+.+...+
T Consensus 8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 469999998754 4444 9999999999988544 3599999876444
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.68 E-value=7.8e-06 Score=77.89 Aligned_cols=49 Identities=20% Similarity=0.446 Sum_probs=42.4
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
....|++|+..+.++......+|+|.||..||..|-....+||+||..+
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 4567999999988766555668999999999999999999999999876
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=5.8e-06 Score=72.50 Aligned_cols=50 Identities=36% Similarity=0.634 Sum_probs=39.2
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc-CCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT-GNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i~~~ 205 (210)
.+-.|+|||+.+.. .....-|.|.||..||..-|.. +++||.||..+-.+
T Consensus 42 ~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 34679999999864 1222379999999999999976 57999999987443
No 45
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=4e-05 Score=69.21 Aligned_cols=48 Identities=23% Similarity=0.522 Sum_probs=41.9
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
.+..|.||+..+.. ++.+||||.||..||.+-+..+..||.||..+..
T Consensus 83 sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 56789999888765 6677999999999999999988999999998864
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=2.6e-05 Score=50.64 Aligned_cols=45 Identities=29% Similarity=0.654 Sum_probs=32.2
Q ss_pred ccccccccccccCCCeeEEe-CCCCc-ccHHhHHHHHh-cCCCCCccCcCCC
Q 041711 155 QERCVICLEEFSEGDEVISL-QCSHV-HHRHCILKWLV-TGNNCPTCRFTLP 203 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~L-pC~H~-Fh~~CI~~Wl~-~~~~CPlCR~~i~ 203 (210)
.++|.||+|.-.+ . +| .|||. .|..|-.+-++ .+..||+||.+|.
T Consensus 7 ~dECTICye~pvd---s-VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD---S-VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch---H-HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3689999987432 1 44 89997 46667555444 6789999999873
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=5.5e-05 Score=72.17 Aligned_cols=48 Identities=21% Similarity=0.641 Sum_probs=38.2
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC-CCCCccCcCCCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG-NNCPTCRFTLPCT 205 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CPlCR~~i~~~ 205 (210)
--.|+.|-..+.+ .++..|+|.||..||.+-+..+ +.||.|-..+...
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 4579999866543 4456999999999999998764 7999999888543
No 48
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.23 E-value=0.00011 Score=65.48 Aligned_cols=46 Identities=30% Similarity=0.723 Sum_probs=38.3
Q ss_pred ccccccccccccCCC-eeEEeCCCCcccHHhHHHHHhcC--CCCCccCc
Q 041711 155 QERCVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTG--NNCPTCRF 200 (210)
Q Consensus 155 ~~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~--~~CPlCR~ 200 (210)
+--|..|-+.+..+. ....|||.|+||..|....|.++ ++||-||.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 456999999986543 56778999999999999999775 58999983
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.18 E-value=0.00018 Score=65.08 Aligned_cols=49 Identities=27% Similarity=0.586 Sum_probs=40.9
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
....|+||...+.+.- ....|+|.||..|+..|+..+..||.|++.+..
T Consensus 20 ~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred ccccCccccccccCCC--CCCCCCCcccccccchhhccCcCCcccccccch
Confidence 5578999999987532 125899999999999999999999999887743
No 50
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.14 E-value=0.00019 Score=55.28 Aligned_cols=36 Identities=19% Similarity=0.541 Sum_probs=30.4
Q ss_pred ccccccccccccCCCeeEEeCCC------CcccHHhHHHHHh
Q 041711 155 QERCVICLEEFSEGDEVISLQCS------HVHHRHCILKWLV 190 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~------H~Fh~~CI~~Wl~ 190 (210)
..+|+||++.+..++.++.++|+ |.||..|+.+|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 45899999999985667777886 9999999999943
No 51
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.07 E-value=0.00035 Score=60.98 Aligned_cols=36 Identities=22% Similarity=0.501 Sum_probs=28.1
Q ss_pred CeeEEeCCCCcccHHhHHHHHhc-CCCCCccCcCCCC
Q 041711 169 DEVISLQCSHVHHRHCILKWLVT-GNNCPTCRFTLPC 204 (210)
Q Consensus 169 ~~~~~LpC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i~~ 204 (210)
-...+-+|||.||..||+..+.. ...||.|+.++..
T Consensus 19 ~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 19 LKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred cccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 33445589999999999997655 4589999988754
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.05 E-value=0.00039 Score=45.92 Aligned_cols=41 Identities=29% Similarity=0.715 Sum_probs=28.3
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC--CCCCc
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG--NNCPT 197 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--~~CPl 197 (210)
...|+|.+..|.+ .++...|+|+|-...|..|++.+ ..||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4679999999864 45556999999999999999543 47998
No 53
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00033 Score=62.33 Aligned_cols=31 Identities=29% Similarity=0.914 Sum_probs=25.6
Q ss_pred EeCCCCcccHHhHHHHHhcC---CCCCccCcCCC
Q 041711 173 SLQCSHVHHRHCILKWLVTG---NNCPTCRFTLP 203 (210)
Q Consensus 173 ~LpC~H~Fh~~CI~~Wl~~~---~~CPlCR~~i~ 203 (210)
+-.|||+||..|+.+|+..- +.||+||-.++
T Consensus 23 i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 23 IGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 45699999999999999873 57999994443
No 54
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.91 E-value=0.0003 Score=62.87 Aligned_cols=47 Identities=32% Similarity=0.762 Sum_probs=37.9
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc--CCCCCccCcCCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT--GNNCPTCRFTLPC 204 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--~~~CPlCR~~i~~ 204 (210)
-+.|-||-|. +..+.+-||||..|..|+..|-.. ..+||.||..|-.
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 3569999876 444666699999999999999844 5799999998843
No 55
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.0009 Score=55.69 Aligned_cols=46 Identities=26% Similarity=0.668 Sum_probs=38.6
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC--------CCCCccCcCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG--------NNCPTCRFTL 202 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--------~~CPlCR~~i 202 (210)
..|..|-..+..|+.++ |.|-|.||+.|+..|-..- -.||.|-++|
T Consensus 51 pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 46999999998888554 7799999999999997651 2599999988
No 56
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.84 E-value=0.00038 Score=56.84 Aligned_cols=43 Identities=21% Similarity=0.603 Sum_probs=37.7
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFT 201 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~ 201 (210)
..|.||-++|.. +++..|||.||..|...-++....|-+|-..
T Consensus 197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 479999999965 6678999999999999988889999999654
No 57
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.80 E-value=0.00084 Score=68.10 Aligned_cols=52 Identities=29% Similarity=0.662 Sum_probs=41.4
Q ss_pred cCccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC----------CCCCccCcCCCC
Q 041711 153 LGQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG----------NNCPTCRFTLPC 204 (210)
Q Consensus 153 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~----------~~CPlCR~~i~~ 204 (210)
+.++.|.||+.+--.......|.|+|.||..|...-|.++ -+||+|+.+|..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 3567899999886655667889999999999998766553 259999998853
No 58
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0016 Score=55.60 Aligned_cols=48 Identities=21% Similarity=0.432 Sum_probs=37.9
Q ss_pred cCccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcC--CCCCccCcCCC
Q 041711 153 LGQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTG--NNCPTCRFTLP 203 (210)
Q Consensus 153 ~~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~--~~CPlCR~~i~ 203 (210)
..+.+|++|-+.-. .+.+. +|+|.||..||..-+... .+||.|-.+.+
T Consensus 237 t~~~~C~~Cg~~Pt---iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPT---IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCC---CCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 36788999987733 34455 899999999999877643 68999988875
No 59
>PHA03096 p28-like protein; Provisional
Probab=96.67 E-value=0.00085 Score=58.21 Aligned_cols=45 Identities=27% Similarity=0.443 Sum_probs=33.7
Q ss_pred cccccccccccCCC----eeEEe-CCCCcccHHhHHHHHhcC---CCCCccCc
Q 041711 156 ERCVICLEEFSEGD----EVISL-QCSHVHHRHCILKWLVTG---NNCPTCRF 200 (210)
Q Consensus 156 ~~C~ICle~~~~~~----~~~~L-pC~H~Fh~~CI~~Wl~~~---~~CPlCR~ 200 (210)
..|.||++...... .-..| .|.|.||..||..|...+ .+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 57999999886532 34566 799999999999999863 34555543
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.57 E-value=0.0024 Score=53.83 Aligned_cols=52 Identities=15% Similarity=0.225 Sum_probs=46.1
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
....|+||.+.+.+.-...+| ||||+|+.+|+.+.+..-..||+|-.++.+.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 456899999999998888888 9999999999999999889999998877543
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.00068 Score=58.42 Aligned_cols=47 Identities=26% Similarity=0.528 Sum_probs=40.2
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
...|-||...|.. +++..|+|.||..|-..-++....|++|-+.+..
T Consensus 241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Ccccccccccccc---chhhcCCceeehhhhccccccCCcceeccccccc
Confidence 3459999999875 6678999999999999988888999999887643
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.52 E-value=0.0025 Score=50.35 Aligned_cols=46 Identities=24% Similarity=0.680 Sum_probs=34.0
Q ss_pred CccccccccccccCCCeeEEeCC--CC---cccHHhHHHHHhcC--CCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQC--SH---VHHRHCILKWLVTG--NNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC--~H---~Fh~~CI~~Wl~~~--~~CPlCR~~i~ 203 (210)
.+..|-||.++-. .. .-|| +. .-|..|+.+|+..+ .+|++|+++..
T Consensus 7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 5568999998843 22 2355 44 55999999999875 58999998763
No 63
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.0016 Score=57.50 Aligned_cols=44 Identities=32% Similarity=0.704 Sum_probs=32.9
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
....|.||+++..+ ...+||||+=| |...- +..++||+||+.|.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 45789999999654 66779999955 66553 33456999999873
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.45 E-value=0.00076 Score=58.91 Aligned_cols=48 Identities=25% Similarity=0.642 Sum_probs=39.4
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
...+|.+|-..|-+.. .+.-|-|.||..||...|.....||+|...|-
T Consensus 14 ~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 4568999998886532 23369999999999999999999999987763
No 65
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.32 E-value=0.0018 Score=59.91 Aligned_cols=48 Identities=27% Similarity=0.723 Sum_probs=37.8
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc-----CCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT-----GNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~-----~~~CPlCR~~i~~ 204 (210)
+..+|.+|-+.- +......|.|.||..||..+... +-+||+|.-.+.-
T Consensus 535 ~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 535 GEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred CceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 567899998873 44566799999999999888754 3589999776643
No 66
>PHA02862 5L protein; Provisional
Probab=96.30 E-value=0.0032 Score=49.01 Aligned_cols=44 Identities=25% Similarity=0.636 Sum_probs=33.4
Q ss_pred cccccccccccCCCeeEEeCCC-----CcccHHhHHHHHhc--CCCCCccCcCCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCS-----HVHHRHCILKWLVT--GNNCPTCRFTLP 203 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~--~~~CPlCR~~i~ 203 (210)
+.|-||+++-.+ . .-||. ..-|..|+.+|++. +..||+|+.+..
T Consensus 3 diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 579999998432 2 24653 57899999999986 358999998763
No 67
>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=96.29 E-value=0.0017 Score=47.38 Aligned_cols=32 Identities=25% Similarity=0.688 Sum_probs=26.4
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHH
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCIL 186 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~ 186 (210)
+...|++|-..+.. ....+.||+|.||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 56789999999976 445566999999999975
No 68
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.28 E-value=0.0033 Score=39.83 Aligned_cols=40 Identities=33% Similarity=0.860 Sum_probs=27.4
Q ss_pred cccccccccCCCeeEEeCCC-----CcccHHhHHHHHhc--CCCCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCS-----HVHHRHCILKWLVT--GNNCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~--~~~CPlC 198 (210)
|-||++.-...+ ..+.||+ -.-|..|+.+|+.. +.+|++|
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 3445764 37799999999985 4579988
No 69
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.09 E-value=0.0031 Score=61.11 Aligned_cols=47 Identities=36% Similarity=0.822 Sum_probs=36.5
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcC-C------CCCccCc
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTG-N------NCPTCRF 200 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~-~------~CPlCR~ 200 (210)
+..+|.||++.+.....+=.- .|-|+||..||..|-... . .||-|+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 567899999999765543333 688999999999998752 1 4999983
No 70
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.07 E-value=0.0043 Score=39.48 Aligned_cols=45 Identities=33% Similarity=0.728 Sum_probs=21.7
Q ss_pred cccccccccCCC-eeEEeCCCCcccHHhHHHHHh-cCCCCCccCcCC
Q 041711 158 CVICLEEFSEGD-EVISLQCSHVHHRHCILKWLV-TGNNCPTCRFTL 202 (210)
Q Consensus 158 C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i 202 (210)
|++|.+++...+ ...--+|++..|..|-..-+. ....||-||.+.
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 789999994433 333336789999999777775 367899999863
No 71
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.86 E-value=0.011 Score=50.71 Aligned_cols=49 Identities=20% Similarity=0.491 Sum_probs=40.7
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
....|+|...+|......+.| ||||+|...++..-- ....||+|-.++.
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 567899999999766667777 999999999999973 3568999988875
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.005 Score=55.38 Aligned_cols=38 Identities=29% Similarity=0.560 Sum_probs=31.3
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT 191 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~ 191 (210)
.-..|.||+++.........+||+|+||..|...++..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI 220 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence 34679999999764456667799999999999999875
No 73
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.70 E-value=0.0033 Score=49.84 Aligned_cols=29 Identities=38% Similarity=0.906 Sum_probs=26.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccH
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHR 182 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~ 182 (210)
...+|.||||+++.|+.+..|||-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 55689999999999999999999999996
No 74
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.002 Score=55.49 Aligned_cols=41 Identities=29% Similarity=0.775 Sum_probs=30.1
Q ss_pred ccccccccccccCCCeeEEeCCCCcc-cHHhHHHHHhcCCCCCccCcCC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVH-HRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~F-h~~CI~~Wl~~~~~CPlCR~~i 202 (210)
...|+||++.- .....|+|||.- |..|-.. -..||+||+-|
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCC---cceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence 67899999874 347788999963 5556433 23899999865
No 75
>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=95.48 E-value=0.042 Score=49.18 Aligned_cols=28 Identities=32% Similarity=0.825 Sum_probs=23.2
Q ss_pred CCCcccHHhHHHHHhcC-------------CCCCccCcCCC
Q 041711 176 CSHVHHRHCILKWLVTG-------------NNCPTCRFTLP 203 (210)
Q Consensus 176 C~H~Fh~~CI~~Wl~~~-------------~~CPlCR~~i~ 203 (210)
|.-.+|.+|+.+|+..+ -.||+||..+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 78889999999998653 24999999874
No 76
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0081 Score=53.19 Aligned_cols=47 Identities=26% Similarity=0.496 Sum_probs=39.0
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
++..|+||+..-- ..+..||+|.-|..||.+.|.+.+.|=.|+..+.
T Consensus 421 Ed~lCpICyA~pi---~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAGPI---NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred ccccCcceecccc---hhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 6778999986522 2344599999999999999999999999998775
No 77
>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=95.36 E-value=0.0074 Score=37.49 Aligned_cols=41 Identities=27% Similarity=0.731 Sum_probs=23.5
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC--CCCcc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN--NCPTC 198 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~--~CPlC 198 (210)
|.+|-+....|..-..-.|+=.+|..|+..+++.+. .||.|
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 677877776655332234888999999999998865 79987
No 78
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.19 E-value=0.013 Score=47.18 Aligned_cols=52 Identities=25% Similarity=0.613 Sum_probs=36.8
Q ss_pred cccccccccccCCCe----eEEeCCCCcccHHhHHHHHhc----C-------CCCCccCcCCCCCCC
Q 041711 156 ERCVICLEEFSEGDE----VISLQCSHVHHRHCILKWLVT----G-------NNCPTCRFTLPCTTT 207 (210)
Q Consensus 156 ~~C~ICle~~~~~~~----~~~LpC~H~Fh~~CI~~Wl~~----~-------~~CPlCR~~i~~~~~ 207 (210)
..|.||+..--.|.. .-...|+.-||.-|+..||+. + ..||.|-.++.-+.+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 458888765444432 223479999999999999975 1 249999998865544
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.06 E-value=0.02 Score=50.26 Aligned_cols=44 Identities=25% Similarity=0.582 Sum_probs=35.8
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
....|++|+....+.. ++ .=|-+||..||-.++...+.||+=-.
T Consensus 299 ~~~~CpvClk~r~Npt---vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~ 343 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPT---VLEVSGYVFCYPCIFSYVVNYGHCPVTGY 343 (357)
T ss_pred ccccChhHHhccCCCc---eEEecceEEeHHHHHHHHHhcCCCCccCC
Confidence 5678999999876532 44 45999999999999999999998543
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.05 E-value=0.023 Score=50.33 Aligned_cols=47 Identities=23% Similarity=0.502 Sum_probs=36.9
Q ss_pred cCccccccccccccCCCeeEEeCCCCcccHHhHHH--HHhcCCCCCccCcCC
Q 041711 153 LGQERCVICLEEFSEGDEVISLQCSHVHHRHCILK--WLVTGNNCPTCRFTL 202 (210)
Q Consensus 153 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~--Wl~~~~~CPlCR~~i 202 (210)
++...|.||-+.+. ...++||+|.-|-.|..+ .|..++.||+||...
T Consensus 59 Een~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 59 EENMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 35678999988753 355779999999999854 455688999999864
No 81
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.96 E-value=0.0013 Score=58.69 Aligned_cols=50 Identities=32% Similarity=0.702 Sum_probs=43.0
Q ss_pred ccccccccccccCC-CeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 155 QERCVICLEEFSEG-DEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 155 ~~~C~ICle~~~~~-~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
...|+||.+.+... +.+..+-|+|.+|..|+.+||..+..||.||+.++.
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 35799999998765 456667899999999999999999999999998864
No 82
>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=94.55 E-value=0.015 Score=36.70 Aligned_cols=33 Identities=30% Similarity=0.699 Sum_probs=23.7
Q ss_pred EeCCC-CcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 173 SLQCS-HVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 173 ~LpC~-H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
.+.|+ |+.|..|+...|.....||+|..++|..
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 44785 9999999999999999999999999875
No 83
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.25 E-value=0.037 Score=49.89 Aligned_cols=32 Identities=41% Similarity=0.906 Sum_probs=26.1
Q ss_pred eeEEeCCCCcccHHhHHHHHhcC--CCCCccCcC
Q 041711 170 EVISLQCSHVHHRHCILKWLVTG--NNCPTCRFT 201 (210)
Q Consensus 170 ~~~~LpC~H~Fh~~CI~~Wl~~~--~~CPlCR~~ 201 (210)
.+..+.|+|.|-..||.+||-++ ..||.|...
T Consensus 21 r~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 21 RIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred EEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 45667999999999999999642 479999753
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.80 E-value=0.038 Score=53.91 Aligned_cols=44 Identities=25% Similarity=0.668 Sum_probs=33.0
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
+...|..|--.+.- ..+...|+|.||.+|.. .....||-|+...
T Consensus 839 q~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 44689999887654 23334899999999998 4456899998743
No 85
>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=93.68 E-value=0.072 Score=42.19 Aligned_cols=33 Identities=24% Similarity=0.618 Sum_probs=21.8
Q ss_pred ccccccccccccCCCeeEEeCC------------C-CcccHHhHHHHHh
Q 041711 155 QERCVICLEEFSEGDEVISLQC------------S-HVHHRHCILKWLV 190 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC------------~-H~Fh~~CI~~Wl~ 190 (210)
+..|+||||---+ .+.|-| + -.-|..|+++.-+
T Consensus 2 d~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 4579999987433 334444 2 3458899999854
No 86
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.48 E-value=0.03 Score=54.17 Aligned_cols=44 Identities=30% Similarity=0.636 Sum_probs=35.9
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC--CCCCccCcCCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG--NNCPTCRFTLP 203 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~--~~CPlCR~~i~ 203 (210)
..|.||++ -+...+.+|+|.||..|+..-+... ..||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 68999999 2456677999999999999988763 36999998663
No 87
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.19 E-value=0.043 Score=53.77 Aligned_cols=37 Identities=22% Similarity=0.569 Sum_probs=29.5
Q ss_pred cCccccccccccccCCCeeEEeCCCCcccHHhHHHHHh
Q 041711 153 LGQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLV 190 (210)
Q Consensus 153 ~~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~ 190 (210)
+.++.|.+|.-.+.. +.-.+.||+|.||+.|+.+-..
T Consensus 815 ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 367789999988875 3456669999999999977643
No 88
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.07 E-value=0.05 Score=46.97 Aligned_cols=45 Identities=29% Similarity=0.609 Sum_probs=38.1
Q ss_pred cccccccccccCCC-eeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 156 ERCVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 156 ~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
..|+||.+.+.... .+..++|+|.-|..|.......+-+||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 45999999987665 4567799999999999988877789999977
No 89
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.04 E-value=0.034 Score=56.36 Aligned_cols=47 Identities=28% Similarity=0.584 Sum_probs=38.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
+...|.||++.+... ..+..|+|.+|..|...|+..+..||+|+...
T Consensus 1152 ~~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence 345799999998731 22557999999999999999999999998543
No 90
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.03 E-value=0.043 Score=47.87 Aligned_cols=42 Identities=21% Similarity=0.378 Sum_probs=28.6
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
.|.-|--.+.. .-|.+||+|+||.+|... ..-+.||.|-.+|
T Consensus 92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 46666544432 345669999999999643 2246899997665
No 91
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.56 E-value=0.078 Score=34.60 Aligned_cols=46 Identities=26% Similarity=0.527 Sum_probs=32.3
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCCCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPCTT 206 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~~ 206 (210)
..|..|... +..-.++||+|.-+..|-.-+ +-+-||+|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 456666554 344557799999999996553 3468999999885543
No 92
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.21 E-value=0.36 Score=41.99 Aligned_cols=28 Identities=29% Similarity=0.784 Sum_probs=22.8
Q ss_pred CCCcccHHhHHHHHhc-------------CCCCCccCcCCC
Q 041711 176 CSHVHHRHCILKWLVT-------------GNNCPTCRFTLP 203 (210)
Q Consensus 176 C~H~Fh~~CI~~Wl~~-------------~~~CPlCR~~i~ 203 (210)
|...+|..|+.+|+.. +-+||+||..+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 7888999999999764 336999999774
No 93
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.15 E-value=0.14 Score=39.37 Aligned_cols=50 Identities=22% Similarity=0.416 Sum_probs=35.6
Q ss_pred ccccccccccccCCCeeEEe-C---CCCcccHHhHHHHHhc---CCCCCccCcCCCCCCC
Q 041711 155 QERCVICLEEFSEGDEVISL-Q---CSHVHHRHCILKWLVT---GNNCPTCRFTLPCTTT 207 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~L-p---C~H~Fh~~CI~~Wl~~---~~~CPlCR~~i~~~~~ 207 (210)
-.+|.||.|.-.+ .+-| | ||-..|..|-....+. .+.||+|++++-....
T Consensus 80 lYeCnIC~etS~e---e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 80 LYECNICKETSAE---ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred ceeccCcccccch---hhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 3689999988544 2345 3 8999999876554443 5799999999855433
No 94
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.05 E-value=0.1 Score=46.19 Aligned_cols=51 Identities=20% Similarity=0.467 Sum_probs=34.2
Q ss_pred CccccccccccccCCCee-EEeCCCCcccHHhHHHHHh-cCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEV-ISLQCSHVHHRHCILKWLV-TGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i~~ 204 (210)
+++-|+.|+|++...++- .-.|||-..|.-|-..--. .+..||-||+...+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 445699999999865543 3347887767666433222 25789999987643
No 95
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.62 E-value=0.057 Score=51.31 Aligned_cols=42 Identities=36% Similarity=0.672 Sum_probs=32.7
Q ss_pred cccccccccccCCC-eeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 156 ERCVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 156 ~~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
-.|.||+..|.... .++.|-|||+.|..|+..- .+.+|| |++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 46999999887644 4667789999999999874 456788 654
No 96
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.49 E-value=0.11 Score=45.31 Aligned_cols=42 Identities=24% Similarity=0.570 Sum_probs=32.8
Q ss_pred cccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcC-CCCCccCc
Q 041711 156 ERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTG-NNCPTCRF 200 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~-~~CPlCR~ 200 (210)
-.|+.|-.-+.+ +..+ .|+|.||.+||...|... ..||.|.+
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 469999877654 3345 589999999999988765 68999944
No 97
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=90.89 E-value=0.12 Score=43.70 Aligned_cols=45 Identities=24% Similarity=0.645 Sum_probs=34.8
Q ss_pred ccccccccccccCCCeeEEe--C-CCCcccHHhHHHHHhcCC-CCC--ccC
Q 041711 155 QERCVICLEEFSEGDEVISL--Q-CSHVHHRHCILKWLVTGN-NCP--TCR 199 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~L--p-C~H~Fh~~CI~~Wl~~~~-~CP--lCR 199 (210)
+..|+||..+.--.-.+..| | |-|.-|..|+++-++..+ .|| -|-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 45799999876544444444 6 999999999999999875 799 663
No 98
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=90.79 E-value=0.061 Score=40.62 Aligned_cols=67 Identities=18% Similarity=0.106 Sum_probs=43.6
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCc-hhHHHH------HHHhhhhccCcChHHHHHH
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQ-DSFLED------LRANLLSTQGLGECAQEIL 101 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~-~~~~~~------l~~~ll~~~~l~~~~~e~l 101 (210)
-.++|.+++|..|+|..+ .+++|++|..+ -|++++... ...... .....++++++...+.+.|
T Consensus 33 ~~g~I~Lv~RG~C~F~~K-------~~~Aq~aGA~a---vII~n~~~~~~~~~~~m~~~~~~~~i~IP~v~Is~~dG~~L 102 (118)
T cd02127 33 INGNIALIERGGCSFLTK-------AINAQKAGALA---VIITDVNNDSDEYYVEMIQDDSSRRADIPAAFLLGKNGYMI 102 (118)
T ss_pred cCCeEEEEECCCCCHHHH-------HHHHHHCCCcE---EEEEECCCCccccceEecCCCCCCCceEEEEEecHHHHHHH
Confidence 468999999999999544 56899999988 555544322 111100 1122467788888888877
Q ss_pred HHHH
Q 041711 102 MKTI 105 (210)
Q Consensus 102 ~~~v 105 (210)
...+
T Consensus 103 ~~~l 106 (118)
T cd02127 103 RKTL 106 (118)
T ss_pred HHHH
Confidence 5544
No 99
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.63 E-value=0.17 Score=44.30 Aligned_cols=42 Identities=31% Similarity=0.765 Sum_probs=32.4
Q ss_pred ccccccccccccCCCeeEEeCC--CCcccHHhHHHHHhcCCCCCccCcCCC
Q 041711 155 QERCVICLEEFSEGDEVISLQC--SHVHHRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC--~H~Fh~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
--+|+||.+.+... ++.| ||.-|..|-. .....||.||.++.
T Consensus 48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 35799999998752 4567 6888888854 45678999999886
No 100
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.11 E-value=0.19 Score=43.47 Aligned_cols=35 Identities=31% Similarity=0.501 Sum_probs=29.7
Q ss_pred CCeeEEeCCCCcccHHhHHHHHhcC-CCCCccCcCC
Q 041711 168 GDEVISLQCSHVHHRHCILKWLVTG-NNCPTCRFTL 202 (210)
Q Consensus 168 ~~~~~~LpC~H~Fh~~CI~~Wl~~~-~~CPlCR~~i 202 (210)
...+++|.|||.||..|+.+-+... ..||.||...
T Consensus 19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3457889999999999999988765 4899999985
No 101
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.00 E-value=0.13 Score=46.49 Aligned_cols=39 Identities=26% Similarity=0.533 Sum_probs=28.8
Q ss_pred Cccccccccccc-cCCCeeEEeCCCCcccHHhHHHHHhcC
Q 041711 154 GQERCVICLEEF-SEGDEVISLQCSHVHHRHCILKWLVTG 192 (210)
Q Consensus 154 ~~~~C~ICle~~-~~~~~~~~LpC~H~Fh~~CI~~Wl~~~ 192 (210)
...+|.||+.+. ...+...+..|+|.||..|+.+.+..+
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 456899999444 333444456899999999999888753
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=88.95 E-value=0.24 Score=48.04 Aligned_cols=39 Identities=36% Similarity=0.952 Sum_probs=29.3
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCc
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPT 197 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPl 197 (210)
|+||--.+. |.......|+|+-|..|...|+.....||.
T Consensus 1031 C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 666544432 334445589999999999999999999985
No 103
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.10 E-value=0.24 Score=42.83 Aligned_cols=48 Identities=31% Similarity=0.676 Sum_probs=35.7
Q ss_pred ccccccccccccCCCe-eEEeCCC-----CcccHHhHHHHHhc--CCCCCccCcCC
Q 041711 155 QERCVICLEEFSEGDE-VISLQCS-----HVHHRHCILKWLVT--GNNCPTCRFTL 202 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~-~~~LpC~-----H~Fh~~CI~~Wl~~--~~~CPlCR~~i 202 (210)
+..|-||.++...... ....||. +..|..|+..|+.. +..|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 4679999998754322 3344774 67899999999995 46899998755
No 104
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.04 E-value=0.25 Score=46.62 Aligned_cols=46 Identities=30% Similarity=0.730 Sum_probs=38.4
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPCTT 206 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~~ 206 (210)
....|.||+++. ..++.+|. |..|..+|+..+.+||+|+..+..++
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 567899999998 35567888 89999999999999999988775443
No 105
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.99 E-value=0.28 Score=40.73 Aligned_cols=41 Identities=29% Similarity=0.536 Sum_probs=28.5
Q ss_pred cccccccccCCCeeEEeCCCC-cccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 158 CVICLEEFSEGDEVISLQCSH-VHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H-~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
|-.|-+. +..+..+||.| .+|..|-.. -+.||+|+......
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence 8888765 34466669986 566667543 45699999876543
No 106
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=87.96 E-value=0.13 Score=40.63 Aligned_cols=73 Identities=22% Similarity=0.217 Sum_probs=46.8
Q ss_pred CCCCCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhH-H-HHH---HHhhhhccCcChHHHH
Q 041711 25 DRNLSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSF-L-EDL---RANLLSTQGLGECAQE 99 (210)
Q Consensus 25 ~~~~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~-~-~~l---~~~ll~~~~l~~~~~e 99 (210)
......++|.+++|..|+|..+ .+++|++|..+ .++.++...... + ..- ...-+++++++..+.+
T Consensus 62 ~~~~~~g~IvLV~RG~CtF~~K-------v~nAq~aGA~a---vII~n~~~~~~~~m~~~~~~~~~v~IP~v~Is~~dg~ 131 (153)
T cd02123 62 NSNASGSFIVLIRRGNCSFETK-------VRNAQRAGYKA---AIVYNDESNDLISMSGNDQEIKGIDIPSVFVGKSTGE 131 (153)
T ss_pred ccccCCCeEEEEECCCCCHHHH-------HHHHHHCCCCE---EEEEECCCCcceeccCCCCCCcCCEEEEEEeeHHHHH
Confidence 3467789999999999999544 55999999888 555554322111 0 000 1224577788888888
Q ss_pred HHHHHHHH
Q 041711 100 ILMKTILD 107 (210)
Q Consensus 100 ~l~~~v~~ 107 (210)
.|...+..
T Consensus 132 ~L~~~l~~ 139 (153)
T cd02123 132 ILKKYASY 139 (153)
T ss_pred HHHHHHhc
Confidence 77555443
No 107
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.78 E-value=0.6 Score=30.39 Aligned_cols=33 Identities=27% Similarity=0.752 Sum_probs=27.2
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHH
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCIL 186 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~ 186 (210)
....|.+|-+.|..++.+++- .|+-.+|+.|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 346799999999877777777 699999999943
No 108
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.53 E-value=0.42 Score=46.80 Aligned_cols=50 Identities=24% Similarity=0.693 Sum_probs=37.1
Q ss_pred CccccccccccccCCCeeEEeCCC-----CcccHHhHHHHHhcC--CCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCS-----HVHHRHCILKWLVTG--NNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~-----H~Fh~~CI~~Wl~~~--~~CPlCR~~i~~ 204 (210)
+...|-||..+=..++ +-.-||+ ..-|.+|+.+|+... ..|-+|+.++.-
T Consensus 11 d~~~CRICr~e~~~d~-pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 11 DKRSCRICRTEDIRDD-PLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred cchhceeecCCCCCCC-cCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 5578999998855444 3233776 468999999999864 579999987743
No 109
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=87.47 E-value=0.22 Score=38.10 Aligned_cols=69 Identities=14% Similarity=0.066 Sum_probs=43.4
Q ss_pred CCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhH-H----H----HHH-HhhhhccCcChHH
Q 041711 28 LSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSF-L----E----DLR-ANLLSTQGLGECA 97 (210)
Q Consensus 28 ~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~-~----~----~l~-~~ll~~~~l~~~~ 97 (210)
...++|.+|+|..|+|..+ .+++|++|..+ -|+.++.+.... + . ... ...++++.+...+
T Consensus 40 ~~~~~IvLv~RG~C~F~~K-------~~~Aq~aGA~a---vII~n~~~~~~~~m~~~~~~~~~~~~~~i~IP~v~Is~~~ 109 (127)
T cd02125 40 GRRPVILLLDRGGCFFTLK-------AWNAQQAGAAA---VLVADNVDEPLLTMDTPEESGSADYIEKITIPSALITKAF 109 (127)
T ss_pred CCCceEEEEECCCcCHHHH-------HHHHHHCCCcE---EEEEECCCCccccccCcccccccccCCCceEeEEEECHHH
Confidence 4567999999999999544 56999999988 455444322110 0 0 000 1135677778878
Q ss_pred HHHHHHHHH
Q 041711 98 QEILMKTIL 106 (210)
Q Consensus 98 ~e~l~~~v~ 106 (210)
.+.|...+.
T Consensus 110 G~~L~~~l~ 118 (127)
T cd02125 110 GEKLKKAIS 118 (127)
T ss_pred HHHHHHHHh
Confidence 887755543
No 110
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.10 E-value=0.3 Score=41.65 Aligned_cols=49 Identities=20% Similarity=0.600 Sum_probs=34.7
Q ss_pred CccccccccccccCCCee-EEeCC-----CCcccHHhHHHHHhcCC--------CCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEV-ISLQC-----SHVHHRHCILKWLVTGN--------NCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~-~~LpC-----~H~Fh~~CI~~Wl~~~~--------~CPlCR~~i 202 (210)
.+..|-||+..=+++... =+-|| .|--|..|+..|+..+. +||-|++..
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 566799999875443221 22366 37889999999997642 499998864
No 111
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.18 E-value=0.67 Score=41.81 Aligned_cols=46 Identities=24% Similarity=0.500 Sum_probs=38.2
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC---CCCccCc
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN---NCPTCRF 200 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~---~CPlCR~ 200 (210)
-..|+|=.+.-++...++.|.|||+...+-+.+..+... .||-|-.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 357999888887778899999999999999999776643 6999944
No 112
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=83.92 E-value=0.25 Score=38.36 Aligned_cols=68 Identities=7% Similarity=-0.036 Sum_probs=43.6
Q ss_pred CCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCC-chhHHHHHH--HhhhhccCcChHHHHHHHHH
Q 041711 28 LSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSD-QDSFLEDLR--ANLLSTQGLGECAQEILMKT 104 (210)
Q Consensus 28 ~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~-~~~~~~~l~--~~ll~~~~l~~~~~e~l~~~ 104 (210)
.-.++|.+|+|..|+|..+ .++++++|..+ -|++++.+ .......-. ...++.+.+...+++.|...
T Consensus 58 ~~~g~IaLV~RG~C~F~~K-------~~nA~~aGA~a---VIIyn~~~~~~~~~~m~~~~~~~ip~v~Is~~~G~~l~~~ 127 (138)
T cd02122 58 NGEPWIALIQRGNCTFEEK-------IKLAAERNASA---VVIYNNPGTGNETVKMSHPGTGDIVAIMITNPKGMEILEL 127 (138)
T ss_pred cCCCeEEEEECCCCCHHHH-------HHHHHHCCCcE---EEEEECCCCCCceeeccCCCCCcceEEEEcHHHHHHHHHH
Confidence 3569999999999999543 45899999988 55555554 111110000 11245667778888888665
Q ss_pred H
Q 041711 105 I 105 (210)
Q Consensus 105 v 105 (210)
+
T Consensus 128 l 128 (138)
T cd02122 128 L 128 (138)
T ss_pred H
Confidence 4
No 113
>PF02757 YLP: YLP motif; InterPro: IPR004019 The YLP motif is found in one or several copies in various Drosophila proteins. Its function is unknown, however the presence of completely conserved tyrosine residues and its presence in the human Erbb-2 and ErbB-4 receptor protein-tyrosine kinases (2.7.10.1 from EC) may suggest it could be a substrate for tyrosine kinases. ErbBs (1-4) are single-pass transmembrane proteins that activate a wide variety of signalling pathways, including those involved in proliferation, migration, differentiation, survival, and apoptosis; they are frequently misregulated in cancer []. ErbB-2 is an essential component of a neuregulin-receptor complex, although neuregulins do not interact with it alone. ErbB-4 specifically binds and is activated by neuregulins, NRG-2, NRG-3, heparin-binding EGF-like growth factor, betacellulin and NTAK [].
Probab=82.66 E-value=0.77 Score=19.08 Aligned_cols=8 Identities=50% Similarity=1.028 Sum_probs=6.5
Q ss_pred cCCCCCCC
Q 041711 17 SNDYIPDQ 24 (210)
Q Consensus 17 ~~~~~~~~ 24 (210)
||+|+||.
T Consensus 1 s~eYLpP~ 8 (9)
T PF02757_consen 1 SNEYLPPV 8 (9)
T ss_pred CccccCCC
Confidence 58999985
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.03 E-value=0.36 Score=46.54 Aligned_cols=45 Identities=29% Similarity=0.713 Sum_probs=36.3
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC---CCCCccCcCCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG---NNCPTCRFTLP 203 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CPlCR~~i~ 203 (210)
.+|.||+..+... ..+.|.|.|+..|+..-|... ..||+|+..++
T Consensus 22 lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 4799999998764 456999999999998777654 47999997663
No 115
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=81.65 E-value=0.75 Score=38.22 Aligned_cols=44 Identities=27% Similarity=0.594 Sum_probs=35.0
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
-..|.+|.+-.-.| ++.=.|+-.+|..|+...+.....||.|-.
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 35799998876543 233378899999999999999999999943
No 116
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.17 E-value=0.76 Score=41.66 Aligned_cols=44 Identities=18% Similarity=0.460 Sum_probs=33.0
Q ss_pred ccccccccccccCCCeeEEe--CCCCcccHHhHHHHHhcCCCCCcc
Q 041711 155 QERCVICLEEFSEGDEVISL--QCSHVHHRHCILKWLVTGNNCPTC 198 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~L--pC~H~Fh~~CI~~Wl~~~~~CPlC 198 (210)
...|++|.-.++-.+....+ .|+|.||..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 45789888777544433222 699999999999999988877555
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.80 E-value=0.86 Score=42.00 Aligned_cols=37 Identities=35% Similarity=0.734 Sum_probs=30.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG 192 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~ 192 (210)
....|.||.+.+.. ....+.|+|.||..|....+..+
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 45689999999865 45566999999999999999874
No 118
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=80.72 E-value=0.3 Score=37.11 Aligned_cols=68 Identities=9% Similarity=-0.181 Sum_probs=43.0
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHH---HHHHhhhhccCcChHHHHHHHHHH
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLE---DLRANLLSTQGLGECAQEILMKTI 105 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~---~l~~~ll~~~~l~~~~~e~l~~~v 105 (210)
-.|-|.+|+|..|+|..| ..++|++|..+ -+++++........ ......++++++...+.+.++..+
T Consensus 43 l~gkIaLV~RG~CsF~~K-------~~~Aq~aGA~a---VII~nn~~~~~~~~~~~~~~~v~IP~v~Is~~dG~~i~~~l 112 (120)
T cd02129 43 LKGKAVVVMRGNCTFYEK-------ARLAQSLGAEG---LLIVSRERLVPPSGNRSEYEKIDIPVALLSYKDMLDIQQTF 112 (120)
T ss_pred cCCeEEEEECCCcCHHHH-------HHHHHHCCCCE---EEEEECCCCCCCCCCCCCCcCCcccEEEEeHHHHHHHHHHh
Confidence 468899999999999544 45899999988 45444443111100 011234577777777777776555
Q ss_pred H
Q 041711 106 L 106 (210)
Q Consensus 106 ~ 106 (210)
.
T Consensus 113 ~ 113 (120)
T cd02129 113 G 113 (120)
T ss_pred c
Confidence 4
No 119
>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=80.56 E-value=2.4 Score=26.92 Aligned_cols=42 Identities=21% Similarity=0.558 Sum_probs=19.7
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC---C--CCCccCcC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG---N--NCPTCRFT 201 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~--~CPlCR~~ 201 (210)
.|+|....+.. .++...|.|.-|.+ +..||... + .||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 58888877754 45666899984422 34555442 2 59999764
No 120
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=79.86 E-value=0.74 Score=34.63 Aligned_cols=85 Identities=14% Similarity=0.020 Sum_probs=48.5
Q ss_pred HHhhcceeeccCCC--CCCCCCCCCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHH---
Q 041711 7 YNAHLKVVHLSNDY--IPDQDRNLSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLE--- 81 (210)
Q Consensus 7 ~~~~~~~~~~~~~~--~~~~~~~~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~--- 81 (210)
+|.|++...+++.. =.+.+.....+.|.+++|..|+|..+ .++++++|..+ -++.++.+......
T Consensus 14 ~~~~~~~~~~~~p~~gC~~~~~~~l~gkIvLV~RG~CsF~~K-------~~nAq~aGA~a---vII~n~~~~~~~~~m~~ 83 (117)
T cd04813 14 LNPHLRGSYKVSPTDACSLQEHAEIDGKVALVLRGGCGFLDK-------VMWAQRRGAKA---VIVGDDEPGRGLITMFS 83 (117)
T ss_pred cCccccccccCCCCCCCCCCCcCCcCCeEEEEECCCCCHHHH-------HHHHHHCCCcE---EEEEECCCcccceeccc
Confidence 45565555554321 11223445679999999999999543 45899999888 55554443211100
Q ss_pred --HHHHhhhhccCcChHHHHHH
Q 041711 82 --DLRANLLSTQGLGECAQEIL 101 (210)
Q Consensus 82 --~l~~~ll~~~~l~~~~~e~l 101 (210)
......++.+++...+.++|
T Consensus 84 ~~~~~~v~IPav~Is~~~g~~L 105 (117)
T cd04813 84 NGDTDNVTIPAMFTSRTSYHLL 105 (117)
T ss_pred CCCCCCcEEEEEEEcHHHHHHH
Confidence 00112346666666666655
No 121
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.95 E-value=0.82 Score=44.64 Aligned_cols=44 Identities=27% Similarity=0.665 Sum_probs=33.5
Q ss_pred ccccccccccccCC----CeeEEeCCCCcccHHhHHHHHhcCCCCCccC
Q 041711 155 QERCVICLEEFSEG----DEVISLQCSHVHHRHCILKWLVTGNNCPTCR 199 (210)
Q Consensus 155 ~~~C~ICle~~~~~----~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR 199 (210)
...|.-|.+..... ..+.++.|+|.||..|+..-+.++. |-.|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 45799999887632 4677889999999999987766554 65553
No 122
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.76 E-value=1.3 Score=43.46 Aligned_cols=50 Identities=10% Similarity=0.068 Sum_probs=35.1
Q ss_pred CccccccccccccCCC-eeEEeC---CCCcccHHhHHHHHhc------CCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSEGD-EVISLQ---CSHVHHRHCILKWLVT------GNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~-~~~~Lp---C~H~Fh~~CI~~Wl~~------~~~CPlCR~~i~ 203 (210)
...+|.||--+++... ....+| |.|.||..||..|+.+ +-.|+.|..-|.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 4456777777776622 222334 9999999999999875 236888876553
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=74.83 E-value=1.8 Score=37.18 Aligned_cols=48 Identities=27% Similarity=0.592 Sum_probs=34.8
Q ss_pred ccccccccccccCCCeeEEe----CCCCcccHHhHHHHHhc---------CCCCCccCcCC
Q 041711 155 QERCVICLEEFSEGDEVISL----QCSHVHHRHCILKWLVT---------GNNCPTCRFTL 202 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~L----pC~H~Fh~~CI~~Wl~~---------~~~CPlCR~~i 202 (210)
..+|-+|.++|.+.+..+.. -|.-.+|..|+..-+.. ...||.|+..+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 36899999999654544433 38899999999984433 23599998744
No 124
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=74.30 E-value=2.3 Score=35.02 Aligned_cols=41 Identities=29% Similarity=0.679 Sum_probs=27.0
Q ss_pred cccccccccc-----ccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 155 QERCVICLEE-----FSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 155 ~~~C~ICle~-----~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
+..|-||-++ |+.....+.-.|+-+||..|.. +..||-|-+
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 4678888753 2222223333799999999965 267999943
No 125
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.20 E-value=2 Score=37.59 Aligned_cols=14 Identities=36% Similarity=0.952 Sum_probs=11.7
Q ss_pred CCCCCccCcCCCCC
Q 041711 192 GNNCPTCRFTLPCT 205 (210)
Q Consensus 192 ~~~CPlCR~~i~~~ 205 (210)
+.+|++||++|++.
T Consensus 42 k~~CavCR~pids~ 55 (324)
T KOG0824|consen 42 KKTCAVCRFPIDST 55 (324)
T ss_pred CCCCceecCCCCcc
Confidence 56899999999765
No 126
>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 KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.16 E-value=4.9 Score=34.40 Aligned_cols=50 Identities=14% Similarity=0.234 Sum_probs=37.0
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
....|+|=--+|........| +|||+|-..-+.+- ...+|++|.......
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 346799988888766666667 99999987655542 257899999877544
No 128
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=70.39 E-value=0.95 Score=34.96 Aligned_cols=68 Identities=10% Similarity=-0.003 Sum_probs=41.8
Q ss_pred CCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHH----HH-HHhhhhccCcChHHHHHHH
Q 041711 28 LSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLE----DL-RANLLSTQGLGECAQEILM 102 (210)
Q Consensus 28 ~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~----~l-~~~ll~~~~l~~~~~e~l~ 102 (210)
.-.++|.+|+|..|+|.. | ..|++++|..+ -|++++.+....+. .. ....++.+.+...+.+.|.
T Consensus 57 ~~~g~IvLV~RG~C~F~~----K---~~nA~~aGA~a---vIv~n~~~~~~~~~~~~~~~~~~~~IP~v~Is~~~G~~L~ 126 (139)
T cd02132 57 KLSGSIALVERGECAFTE----K---AKIAEAGGASA---LLIINDQEELYKMVCEDNDTSLNISIPVVMIPQSAGDALN 126 (139)
T ss_pred ccCCeEEEEECCCCCHHH----H---HHHHHHcCCcE---EEEEECCCcccccccCCCCCCCCCcEeEEEecHHHHHHHH
Confidence 457999999999999943 3 45999999988 45554432211110 00 0123466677777777775
Q ss_pred HHH
Q 041711 103 KTI 105 (210)
Q Consensus 103 ~~v 105 (210)
..+
T Consensus 127 ~~l 129 (139)
T cd02132 127 KSL 129 (139)
T ss_pred HHH
Confidence 554
No 129
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=70.36 E-value=3.9 Score=36.20 Aligned_cols=52 Identities=23% Similarity=0.445 Sum_probs=37.2
Q ss_pred ccccccccccccCCCee-EEeCCCCcccHHhHHHHHhcCCCCCccCcCCCCCC
Q 041711 155 QERCVICLEEFSEGDEV-ISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPCTT 206 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~-~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~~ 206 (210)
...|+||.+.....+.. .-.||++.-|..|...-...+..||.||.+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccCc
Confidence 36799999987544422 22367888777787777777889999998775443
No 130
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.61 E-value=3.4 Score=35.96 Aligned_cols=35 Identities=23% Similarity=0.443 Sum_probs=27.3
Q ss_pred ccccccccccccCCCeeEEeCC----CCcccHHhHHHHHhcC
Q 041711 155 QERCVICLEEFSEGDEVISLQC----SHVHHRHCILKWLVTG 192 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC----~H~Fh~~CI~~Wl~~~ 192 (210)
.-.|.+|.|.+++.. ...| .|.||..|-.+-++..
T Consensus 268 pLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhh
Confidence 357999999998643 2345 7999999999988763
No 131
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=65.05 E-value=2.4 Score=40.44 Aligned_cols=42 Identities=24% Similarity=0.580 Sum_probs=25.8
Q ss_pred Ccccccccccc-----ccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCcc
Q 041711 154 GQERCVICLEE-----FSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTC 198 (210)
Q Consensus 154 ~~~~C~ICle~-----~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlC 198 (210)
....|.||... |......+...|+++||..| |-..+.-||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C---~~r~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKC---LRRKSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHH---HhccCCCCCch
Confidence 34568888321 11111234447999999999 43445569999
No 132
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=64.16 E-value=1.6 Score=34.01 Aligned_cols=67 Identities=10% Similarity=0.086 Sum_probs=43.1
Q ss_pred CCceeeeEEeeccC-----CCCCcceeeecccccchhhhhhhhhhhcccCCC-chhHHHHHH----HhhhhccCcChHHH
Q 041711 29 SPGFYFIIQIFNTD-----ELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSD-QDSFLEDLR----ANLLSTQGLGECAQ 98 (210)
Q Consensus 29 ~~~fi~~i~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~-~~~~~~~l~----~~ll~~~~l~~~~~ 98 (210)
-.|-|.||+|..|+ |.. | .++++++|..+ .|++++.+ ...+.-.+. ...++++++...+.
T Consensus 55 ~~GkIaLI~RG~c~~~~~~f~~----K---v~~A~~aGA~a---vIIyNn~~~~g~~~~~lg~~~~~~~IP~v~is~~dG 124 (139)
T cd04817 55 MAGKICLIERGGNSKSVYPEID----K---VKACQNAGAIA---AIVYSNAALAGLQNPFLVDTNNDTTIPSVSVDRADG 124 (139)
T ss_pred cCccEEEEECCCCCCCcccHHH----H---HHHHHHCCCeE---EEEEeCCCCCCcccccccCCCCCceEeEEEeeHHHH
Confidence 46999999999998 632 3 45899999988 55554441 111111111 23567888888888
Q ss_pred HHHHHHH
Q 041711 99 EILMKTI 105 (210)
Q Consensus 99 e~l~~~v 105 (210)
+.|...+
T Consensus 125 ~~L~~~l 131 (139)
T cd04817 125 QALLAAL 131 (139)
T ss_pred HHHHHHh
Confidence 8775443
No 133
>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=63.89 E-value=6.7 Score=25.21 Aligned_cols=42 Identities=26% Similarity=0.572 Sum_probs=20.2
Q ss_pred cccccccccCCC------eeEEe-CCCCcccHHhHHHHHhcCCCCCccC
Q 041711 158 CVICLEEFSEGD------EVISL-QCSHVHHRHCILKWLVTGNNCPTCR 199 (210)
Q Consensus 158 C~ICle~~~~~~------~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR 199 (210)
|.-|+..|..+. ....- .|++.||.+|=.--=..=..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 566777776542 22233 6999999999433212235799884
No 134
>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=63.17 E-value=3.7 Score=27.34 Aligned_cols=36 Identities=22% Similarity=0.415 Sum_probs=19.0
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHH
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWL 189 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl 189 (210)
+...|.+|...|..-..-..- .||++||..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 446799999999765443334 799999999986544
No 135
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=63.16 E-value=21 Score=31.67 Aligned_cols=51 Identities=22% Similarity=0.495 Sum_probs=34.1
Q ss_pred Ccccccccccccc---------------CCCeeEEe-CCCCcccHHhHHHHHhc---------CCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFS---------------EGDEVISL-QCSHVHHRHCILKWLVT---------GNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~---------------~~~~~~~L-pC~H~Fh~~CI~~Wl~~---------~~~CPlCR~~i~~ 204 (210)
.+.+|++|+..=. .|-..... ||+|+--..-+.-|-+. +..||.|-+.+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 4578999987521 11111223 89999888888888765 2469999887744
No 136
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.15 E-value=6.9 Score=34.71 Aligned_cols=48 Identities=23% Similarity=0.474 Sum_probs=33.1
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFT 201 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~ 201 (210)
+...|-.|.++...+...+.=.|+++||.+|=.---..=..||-|...
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 344588887776655544444899999999965433344689999754
No 137
>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=62.50 E-value=4.8 Score=27.25 Aligned_cols=13 Identities=31% Similarity=0.736 Sum_probs=9.3
Q ss_pred cccHHhHHHHHhc
Q 041711 179 VHHRHCILKWLVT 191 (210)
Q Consensus 179 ~Fh~~CI~~Wl~~ 191 (210)
-||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999864
No 138
>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=61.53 E-value=4.4 Score=25.20 Aligned_cols=43 Identities=26% Similarity=0.568 Sum_probs=27.5
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhc------CCCCCccC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT------GNNCPTCR 199 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~------~~~CPlCR 199 (210)
.|.||...-..++.+.--.|+..||..|+..=... .-.||.|+
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 38899884333332222289999999998765442 22587775
No 139
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=57.92 E-value=3.5 Score=31.24 Aligned_cols=67 Identities=12% Similarity=-0.026 Sum_probs=41.7
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchh----HHHHH-------HHhhhhccCcChHH
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDS----FLEDL-------RANLLSTQGLGECA 97 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~----~~~~l-------~~~ll~~~~l~~~~ 97 (210)
..+.|.+++|..|+|..+ .+++|++|..+ -|+.++.+... ....+ ...-+++++++..+
T Consensus 39 ~~gkIaLv~RG~C~f~~K-------~~~Aq~aGA~a---vII~n~~~~~~~~~~~~~~m~~~~~~~~~~~IP~v~I~~~d 108 (126)
T cd02126 39 VKGKIAIMERGDCMFVEK-------ARRVQKAGAIG---GIVIDNNEGSSSDTAPMFAMSGDGDSTDDVTIPVVFLFSKE 108 (126)
T ss_pred cCceEEEEECCCCcHHHH-------HHHHHHCCCcE---EEEEECCCCccccccceeEeecCCCCCCCCeEEEEEEEHHH
Confidence 468999999999999433 45899999988 55554332110 00000 01235677778778
Q ss_pred HHHHHHHH
Q 041711 98 QEILMKTI 105 (210)
Q Consensus 98 ~e~l~~~v 105 (210)
.+.|...+
T Consensus 109 G~~L~~~l 116 (126)
T cd02126 109 GSKLLAAI 116 (126)
T ss_pred HHHHHHHH
Confidence 88775544
No 140
>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=57.27 E-value=14 Score=20.87 Aligned_cols=36 Identities=28% Similarity=0.598 Sum_probs=22.8
Q ss_pred cccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
|+.|-+.+..++.. +..=+..||..|. .|..|+.+|
T Consensus 2 C~~C~~~i~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELV-LRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEE-EEeCCccccccCC--------CCcccCCcC
Confidence 77888887665222 2233678887763 577777665
No 141
>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=56.74 E-value=7.6 Score=24.65 Aligned_cols=35 Identities=14% Similarity=0.366 Sum_probs=25.7
Q ss_pred cccccccccccCCCeeEEe-CCCCcccHHhHHHHHh
Q 041711 156 ERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLV 190 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~ 190 (210)
..|.+|-..|.....-... .||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 4699999888764433333 7999999999876654
No 142
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.65 E-value=2.1 Score=36.93 Aligned_cols=47 Identities=28% Similarity=0.588 Sum_probs=37.7
Q ss_pred ccccccccccccCC---CeeEEeC--------CCCcccHHhHHHHHhcC-CCCCccCcC
Q 041711 155 QERCVICLEEFSEG---DEVISLQ--------CSHVHHRHCILKWLVTG-NNCPTCRFT 201 (210)
Q Consensus 155 ~~~C~ICle~~~~~---~~~~~Lp--------C~H~Fh~~CI~~Wl~~~-~~CPlCR~~ 201 (210)
...|.||...|+.. ..++++. |+|..|..|+..-+... ..||.||..
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 46799999999842 2456666 99999999999998765 589999863
No 143
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.54 E-value=10 Score=32.49 Aligned_cols=35 Identities=14% Similarity=0.337 Sum_probs=28.9
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhc
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT 191 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~ 191 (210)
.-+.|+.||..+.+ +++.|=||.|+++||.+++..
T Consensus 42 ~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRD---PVITPDGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccC---CccCCCCeeeeHHHHHHHHHH
Confidence 45679999999865 667788999999999998754
No 144
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=52.31 E-value=1.2 Score=31.46 Aligned_cols=70 Identities=14% Similarity=-0.006 Sum_probs=41.4
Q ss_pred CCCCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCC--CchhH-HHHHHHhhhhccCcChHHHHHHH
Q 041711 26 RNLSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDS--DQDSF-LEDLRANLLSTQGLGECAQEILM 102 (210)
Q Consensus 26 ~~~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~--~~~~~-~~~l~~~ll~~~~l~~~~~e~l~ 102 (210)
...-.|.|.++.+..|+|.. + ..+++++|..+ -|+.+.. ..... ........++.+.+...+.+.|+
T Consensus 29 ~~~~~gkIvlv~rg~~~~~~----k---~~~a~~~GA~g---vIi~~~~~~~~~~~~~~~~~~~~iP~v~I~~~~g~~L~ 98 (101)
T PF02225_consen 29 GSDVKGKIVLVERGSCSFDD----K---VRNAQKAGAKG---VIIYNPPPNNGSMIDSEDPDPIDIPVVFISYEDGEALL 98 (101)
T ss_dssp TSTCTTSEEEEESTSSCHHH----H---HHHHHHTTESE---EEEE-TSCSCTTTTCEBTTTSTBSEEEEE-HHHHHHHH
T ss_pred CccccceEEEEecCCCCHHH----H---HHHHHHcCCEE---EEEEeCCccccCcccccCCCCcEEEEEEeCHHHHhhhh
Confidence 34456899999999998832 2 34889999888 4444411 11111 11111334677778888888777
Q ss_pred HHH
Q 041711 103 KTI 105 (210)
Q Consensus 103 ~~v 105 (210)
.++
T Consensus 99 ~~i 101 (101)
T PF02225_consen 99 AYI 101 (101)
T ss_dssp HHH
T ss_pred ccC
Confidence 653
No 145
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=52.22 E-value=8.2 Score=21.17 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=10.5
Q ss_pred HhhcceeeccCCCC
Q 041711 8 NAHLKVVHLSNDYI 21 (210)
Q Consensus 8 ~~~~~~~~~~~~~~ 21 (210)
|..|+.+|||+..|
T Consensus 1 n~~L~~LdL~~N~i 14 (28)
T smart00368 1 NPSLRELDLSNNKL 14 (28)
T ss_pred CCccCEEECCCCCC
Confidence 46899999995444
No 146
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=52.21 E-value=18 Score=25.36 Aligned_cols=49 Identities=20% Similarity=0.499 Sum_probs=20.6
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHHhc-CCCCCccCcCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWLVT-GNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i 202 (210)
....|.||-+++.. |+..+.. -|+---|+.|..-=.+. ++.||-|+++.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 45689999998853 3322222 67777888897655544 57899999876
No 147
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=51.74 E-value=13 Score=36.54 Aligned_cols=41 Identities=20% Similarity=0.533 Sum_probs=29.7
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCc
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPT 197 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPl 197 (210)
..|++|-..+.. ..+-.--|+|.=|..|+.+|+.....||.
T Consensus 780 ~~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 358888665532 22222259999999999999999887766
No 148
>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=51.28 E-value=25 Score=23.08 Aligned_cols=44 Identities=20% Similarity=0.437 Sum_probs=31.1
Q ss_pred ccccccccccCCC-eeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 157 RCVICLEEFSEGD-EVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 157 ~C~ICle~~~~~~-~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
.|-.|-.++..+. ..++-+=...||..|.+.-| +..||-|-..+
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGel 51 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGEL 51 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcc
Confidence 4777777776544 33333334689999999876 78999997766
No 149
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=50.60 E-value=5.1 Score=29.88 Aligned_cols=67 Identities=10% Similarity=0.069 Sum_probs=41.3
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHH---HHHHHhhhhccCcChHHHHHHHHHH
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFL---EDLRANLLSTQGLGECAQEILMKTI 105 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~---~~l~~~ll~~~~l~~~~~e~l~~~v 105 (210)
..|.|.++++..|.|. -| ..+++++|..+ -|+.++....... -......++.+++...+.+.|.+.+
T Consensus 43 ~~gkIvlv~rg~c~f~----~K---~~~A~~aGA~~---vIv~n~~~~~~~~~~~~~~~~~~Ip~v~Is~~~G~~L~~~l 112 (122)
T cd02130 43 VAGNIALIERGECPFG----DK---SALAGAAGAAA---AIIYNNVPAGGLSGTLGEPSGPYVPTVGISQEDGKALVAAL 112 (122)
T ss_pred CCCEEEEEECCCCCHH----HH---HHHHHHCCCcE---EEEEECCCCcccccccCCCCCCEeeEEEecHHHHHHHHHHH
Confidence 6899999999999883 23 34889999888 4444433111110 0011234567778887888775543
No 150
>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D ....
Probab=49.59 E-value=10 Score=18.34 Aligned_cols=11 Identities=36% Similarity=0.685 Sum_probs=7.7
Q ss_pred hhcceeeccCC
Q 041711 9 AHLKVVHLSND 19 (210)
Q Consensus 9 ~~~~~~~~~~~ 19 (210)
++||.+|||+.
T Consensus 1 ~~L~~L~l~~n 11 (17)
T PF13504_consen 1 PNLRTLDLSNN 11 (17)
T ss_dssp TT-SEEEETSS
T ss_pred CccCEEECCCC
Confidence 47899999943
No 151
>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=47.63 E-value=6 Score=25.28 Aligned_cols=11 Identities=36% Similarity=0.718 Sum_probs=5.5
Q ss_pred CCCccCcCCCC
Q 041711 194 NCPTCRFTLPC 204 (210)
Q Consensus 194 ~CPlCR~~i~~ 204 (210)
.||+|.+++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999888753
No 152
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.26 E-value=22 Score=26.63 Aligned_cols=44 Identities=20% Similarity=0.387 Sum_probs=33.0
Q ss_pred cccccccccccCCC----------eeE-EeCCCCcccHHhHHHHHhcCCCCCccC
Q 041711 156 ERCVICLEEFSEGD----------EVI-SLQCSHVHHRHCILKWLVTGNNCPTCR 199 (210)
Q Consensus 156 ~~C~ICle~~~~~~----------~~~-~LpC~H~Fh~~CI~~Wl~~~~~CPlCR 199 (210)
..|.-|+..|..+. ... .-.|++.||.+|=.-+-..=..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 46999999886431 112 237999999999888777777899995
No 153
>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 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=44.68 E-value=12 Score=20.54 Aligned_cols=12 Identities=33% Similarity=0.985 Sum_probs=8.1
Q ss_pred CCCccCcCCCCC
Q 041711 194 NCPTCRFTLPCT 205 (210)
Q Consensus 194 ~CPlCR~~i~~~ 205 (210)
+||-|+..|+..
T Consensus 2 ~CP~C~~~V~~~ 13 (26)
T PF10571_consen 2 TCPECGAEVPES 13 (26)
T ss_pred cCCCCcCCchhh
Confidence 577777777543
No 155
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=43.10 E-value=49 Score=27.30 Aligned_cols=31 Identities=23% Similarity=0.267 Sum_probs=22.3
Q ss_pred hHHHHHHHhhhhccCcChHHHHHHHHHHHHH
Q 041711 78 SFLEDLRANLLSTQGLGECAQEILMKTILDE 108 (210)
Q Consensus 78 ~~~~~l~~~ll~~~~l~~~~~e~l~~~v~~~ 108 (210)
..+.+|+..+-.+.|+|.-.++++.-.++..
T Consensus 5 ~~i~~LI~~l~kLPGvG~KsA~R~AfhLL~~ 35 (198)
T COG0353 5 PPIEKLIDALKKLPGVGPKSAQRLAFHLLQR 35 (198)
T ss_pred HHHHHHHHHHhhCCCCChhHHHHHHHHHHcc
Confidence 3567788888888899987787775555543
No 156
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.81 E-value=21 Score=31.60 Aligned_cols=45 Identities=22% Similarity=0.459 Sum_probs=33.6
Q ss_pred ccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC---CCCCccC
Q 041711 155 QERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG---NNCPTCR 199 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~---~~CPlCR 199 (210)
-..|++=-+.-.+...++.|.|||+.-.+-++..-+.. ..||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 35688876666666677888999999998888855543 3699993
No 157
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.49 E-value=13 Score=21.92 Aligned_cols=25 Identities=28% Similarity=0.640 Sum_probs=15.4
Q ss_pred ccccccccccCCC--------eeEEeCCCCccc
Q 041711 157 RCVICLEEFSEGD--------EVISLQCSHVHH 181 (210)
Q Consensus 157 ~C~ICle~~~~~~--------~~~~LpC~H~Fh 181 (210)
+|+=|...|...+ .++.-.|+|.|+
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 5777777776433 233336788774
No 158
>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=41.87 E-value=2.5 Score=28.97 Aligned_cols=38 Identities=26% Similarity=0.549 Sum_probs=17.0
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
.|+.|..++.... +|.+|..|-.. +.....||-|..++
T Consensus 3 ~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 3 TCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred cCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 5777777654322 45555555443 23345677777665
No 159
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=41.62 E-value=4.8 Score=35.14 Aligned_cols=38 Identities=34% Similarity=0.656 Sum_probs=30.9
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN 193 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~ 193 (210)
..|.+|+++|..+......-|.-.||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 38999999998766566666666999999999998753
No 160
>PRK13844 recombination protein RecR; Provisional
Probab=40.71 E-value=58 Score=26.95 Aligned_cols=30 Identities=17% Similarity=0.217 Sum_probs=23.7
Q ss_pred HHHHHHHhhhhccCcChHHHHHHHHHHHHH
Q 041711 79 FLEDLRANLLSTQGLGECAQEILMKTILDE 108 (210)
Q Consensus 79 ~~~~l~~~ll~~~~l~~~~~e~l~~~v~~~ 108 (210)
..+.|++.+-.+.|+|.-.++++.-+++..
T Consensus 9 ~~~~LI~~l~~LPGIG~KsA~Rla~~lL~~ 38 (200)
T PRK13844 9 KISAVIESLRKLPTIGKKSSQRLALYLLDK 38 (200)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHcC
Confidence 467788888889999998888886666643
No 161
>PLN02189 cellulose synthase
Probab=40.64 E-value=29 Score=35.43 Aligned_cols=50 Identities=26% Similarity=0.519 Sum_probs=34.5
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHHh-cCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWLV-TGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i~ 203 (210)
....|.||-+++.. |+.-+.. -|+---|..|.+-=.+ .++.||-|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 44689999999863 4433333 4877789999843222 2568999998764
No 162
>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=40.04 E-value=23 Score=19.62 Aligned_cols=29 Identities=24% Similarity=0.453 Sum_probs=10.0
Q ss_pred ccccccccccCCCeeEEeCCCCcccHHhH
Q 041711 157 RCVICLEEFSEGDEVISLQCSHVHHRHCI 185 (210)
Q Consensus 157 ~C~ICle~~~~~~~~~~LpC~H~Fh~~CI 185 (210)
.|.+|-.....+-.-.-..|.-.+|..|+
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 48888887665222233378888999885
No 163
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=39.28 E-value=18 Score=26.96 Aligned_cols=45 Identities=20% Similarity=0.525 Sum_probs=27.4
Q ss_pred CccccccccccccC--CCeeEEeCCCCcccHHhHHHHHhcCC--CCCccC
Q 041711 154 GQERCVICLEEFSE--GDEVISLQCSHVHHRHCILKWLVTGN--NCPTCR 199 (210)
Q Consensus 154 ~~~~C~ICle~~~~--~~~~~~LpC~H~Fh~~CI~~Wl~~~~--~CPlCR 199 (210)
+...|++|...|.- +.......|+|.+|..|-.. ..... .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 45689999988743 33444458999999998655 11112 377774
No 164
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.75 E-value=8.9 Score=35.35 Aligned_cols=39 Identities=15% Similarity=0.348 Sum_probs=28.6
Q ss_pred CccccccccccccCCCee---EEe--CCCCcccHHhHHHHHhcC
Q 041711 154 GQERCVICLEEFSEGDEV---ISL--QCSHVHHRHCILKWLVTG 192 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~---~~L--pC~H~Fh~~CI~~Wl~~~ 192 (210)
....|+.|...++.++.. ... +|+|.||+.|+..|-...
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 345699999998765522 122 499999999999887664
No 165
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=38.42 E-value=8 Score=28.82 Aligned_cols=68 Identities=12% Similarity=-0.020 Sum_probs=41.3
Q ss_pred CCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHHHH----HHhhhhccCcChHHHHHHHH
Q 041711 28 LSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLEDL----RANLLSTQGLGECAQEILMK 103 (210)
Q Consensus 28 ~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~~l----~~~ll~~~~l~~~~~e~l~~ 103 (210)
.-.|-|.+++|..|.|.. | ..+++++|..+ -|+.++.+.....-.+ ....++...+...+.+.|.+
T Consensus 41 ~~~GkIvLv~rg~c~f~~----K---~~~A~~aGA~a---vIi~n~~~~~~~~~~~~~~~~~~~iP~~~Is~~~G~~l~~ 110 (122)
T cd04816 41 DVKGAIVLVDRGGCPFAD----K---QKVAAARGAVA---VIVVNNSDGGGTAGTLGAPNIDLKVPVGVITKAAGAALRR 110 (122)
T ss_pred CcCCeEEEEECCCCCHHH----H---HHHHHHCCCcE---EEEEeCCCCccccccccCCCCCCeeeEEEEcHHHHHHHHH
Confidence 357889999999997732 2 34889899888 5555444321110001 11235667777777777755
Q ss_pred HH
Q 041711 104 TI 105 (210)
Q Consensus 104 ~v 105 (210)
.+
T Consensus 111 ~l 112 (122)
T cd04816 111 RL 112 (122)
T ss_pred HH
Confidence 54
No 166
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=37.82 E-value=27 Score=25.28 Aligned_cols=32 Identities=28% Similarity=0.557 Sum_probs=21.9
Q ss_pred ccccccccccccCCCeeEEeC--CCCcccHHhHHHH
Q 041711 155 QERCVICLEEFSEGDEVISLQ--CSHVHHRHCILKW 188 (210)
Q Consensus 155 ~~~C~ICle~~~~~~~~~~Lp--C~H~Fh~~CI~~W 188 (210)
...|.||... .|-.+.--. |...||..|...+
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 4579999887 233333333 8889999998653
No 167
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=37.41 E-value=37 Score=34.86 Aligned_cols=50 Identities=22% Similarity=0.539 Sum_probs=33.7
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHH-hcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWL-VTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl-~~~~~CPlCR~~i~ 203 (210)
....|.||-+++.. |+--+.. -|+---|+.|-.-=. ..++.||-|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34589999999853 4433333 577778999983222 23578999998763
No 168
>PLN02436 cellulose synthase A
Probab=37.08 E-value=36 Score=34.97 Aligned_cols=50 Identities=22% Similarity=0.567 Sum_probs=34.5
Q ss_pred Ccccccccccccc---CCCeeEEe-CCCCcccHHhHHHHHhc-CCCCCccCcCCC
Q 041711 154 GQERCVICLEEFS---EGDEVISL-QCSHVHHRHCILKWLVT-GNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~---~~~~~~~L-pC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i~ 203 (210)
....|.||-+++. +|+.-+.. -|+---|..|.+-=.+. ++.||-|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3458999999974 34433333 47777899998432222 568999998763
No 169
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=36.68 E-value=14 Score=23.53 Aligned_cols=37 Identities=30% Similarity=0.568 Sum_probs=19.7
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhc--CCCCCccCcCC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVT--GNNCPTCRFTL 202 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~--~~~CPlCR~~i 202 (210)
..|+.|-+.+.... | + ..|.+.-... .-.||+|...+
T Consensus 3 f~CP~C~~~~~~~~----L-~-----~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 3 FTCPYCGKGFSESS----L-V-----EHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred cCCCCCCCccCHHH----H-H-----HHHHhHCcCCCCCccCCCchhhh
Confidence 56999988654321 2 1 2223322222 24699997654
No 170
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=36.65 E-value=17 Score=24.09 Aligned_cols=13 Identities=23% Similarity=0.680 Sum_probs=9.9
Q ss_pred CCCCCccCcCCCC
Q 041711 192 GNNCPTCRFTLPC 204 (210)
Q Consensus 192 ~~~CPlCR~~i~~ 204 (210)
.++||+|..+...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 3689999987743
No 171
>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=36.57 E-value=36 Score=21.27 Aligned_cols=26 Identities=19% Similarity=0.385 Sum_probs=10.8
Q ss_pred cccccccccCCCeeEEeCCCCcccHHh
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRHC 184 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~C 184 (210)
|+-|-..+..++.. +..-+..||..|
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~C 26 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPEC 26 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTT
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEccc
Confidence 44455555433321 113445555444
No 172
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=36.33 E-value=20 Score=29.08 Aligned_cols=18 Identities=33% Similarity=0.851 Sum_probs=15.1
Q ss_pred CCCCCccCcCCCCCCCCC
Q 041711 192 GNNCPTCRFTLPCTTTGS 209 (210)
Q Consensus 192 ~~~CPlCR~~i~~~~~~s 209 (210)
...||+|++.+|-+++++
T Consensus 169 ~~~c~~~~~~~~~~~~~~ 186 (187)
T TIGR01367 169 SHECPLCLAGIPAEKPGS 186 (187)
T ss_pred cccCChhhcCCCCcCCCC
Confidence 356999999999888876
No 173
>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=35.61 E-value=21 Score=20.44 Aligned_cols=9 Identities=33% Similarity=0.800 Sum_probs=6.6
Q ss_pred CCCCccCcC
Q 041711 193 NNCPTCRFT 201 (210)
Q Consensus 193 ~~CPlCR~~ 201 (210)
..||+|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 489999653
No 174
>PLN02195 cellulose synthase A
Probab=33.82 E-value=64 Score=32.92 Aligned_cols=51 Identities=22% Similarity=0.442 Sum_probs=34.8
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHHhc-CCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWLVT-GNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl~~-~~~CPlCR~~i~~ 204 (210)
....|.||-+++.. |+.-+.. -|+---|+.|-+-=.+. ++.||-|++...+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 34589999998754 3433333 68888999998332222 4689999998763
No 175
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=33.80 E-value=15 Score=27.99 Aligned_cols=29 Identities=10% Similarity=0.083 Sum_probs=23.4
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhh
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHL 64 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (210)
-.+.|.+|+|..|+|..+ ..+++++|..+
T Consensus 54 ~~g~IaLv~rg~c~f~~K-------~~nA~~aGA~a 82 (129)
T cd02124 54 LSGYIVLVRRGTCTFATK-------AANAAAKGAKY 82 (129)
T ss_pred ccCeEEEEECCCCCHHHH-------HHHHHHcCCcE
Confidence 468999999999988433 45889998877
No 176
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.43 E-value=22 Score=25.66 Aligned_cols=13 Identities=23% Similarity=0.675 Sum_probs=11.2
Q ss_pred cccHHhHHHHHhc
Q 041711 179 VHHRHCILKWLVT 191 (210)
Q Consensus 179 ~Fh~~CI~~Wl~~ 191 (210)
-||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999875
No 177
>PRK00076 recR recombination protein RecR; Reviewed
Probab=33.32 E-value=92 Score=25.64 Aligned_cols=30 Identities=23% Similarity=0.285 Sum_probs=23.1
Q ss_pred HHHHHHHhhhhccCcChHHHHHHHHHHHHH
Q 041711 79 FLEDLRANLLSTQGLGECAQEILMKTILDE 108 (210)
Q Consensus 79 ~~~~l~~~ll~~~~l~~~~~e~l~~~v~~~ 108 (210)
..+.|++.+-.+.|+|.-.++++.-+++..
T Consensus 5 ~~~~Li~~l~~LPGIG~KsA~Rla~~ll~~ 34 (196)
T PRK00076 5 PIEKLIEALRKLPGIGPKSAQRLAFHLLQR 34 (196)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHcC
Confidence 467788888888999988888876666643
No 178
>COG5276 Uncharacterized conserved protein [Function unknown]
Probab=33.23 E-value=20 Score=31.77 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=19.9
Q ss_pred hHHHhhcceeeccCCCCCCCCCCCCCceeeeE
Q 041711 5 QWYNAHLKVVHLSNDYIPDQDRNLSPGFYFII 36 (210)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~fi~~i 36 (210)
.|++.||+.||+| +..+|.|++-.
T Consensus 187 A~~d~GL~ivDVS--------np~sPvli~~~ 210 (370)
T COG5276 187 AWRDGGLTIVDVS--------NPHSPVLIGSY 210 (370)
T ss_pred EEeCCCeEEEEcc--------CCCCCeEEEEE
Confidence 4899999999999 77788777654
No 179
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.97 E-value=13 Score=32.62 Aligned_cols=46 Identities=26% Similarity=0.634 Sum_probs=37.0
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i 202 (210)
....|-||...+.... .. .|.|.|+..|-..|....+.||.||..+
T Consensus 104 ~~~~~~~~~g~l~vpt---~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPT---RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CccceeeeeeeEEecc---cccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4567999988775432 22 4999999999999999999999998755
No 180
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=32.17 E-value=8.1 Score=24.84 Aligned_cols=14 Identities=21% Similarity=0.788 Sum_probs=12.5
Q ss_pred CCCCcccHHhHHHH
Q 041711 175 QCSHVHHRHCILKW 188 (210)
Q Consensus 175 pC~H~Fh~~CI~~W 188 (210)
.|+|.||..|-..|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 68999999998887
No 181
>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=32.16 E-value=5.8 Score=34.33 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=20.3
Q ss_pred CccccccccccccCCCeeEEeC---CCCcccHHhHHHHHhcCCCCCccCcC
Q 041711 154 GQERCVICLEEFSEGDEVISLQ---CSHVHHRHCILKWLVTGNNCPTCRFT 201 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~Lp---C~H~Fh~~CI~~Wl~~~~~CPlCR~~ 201 (210)
....|+||=..-..+. ++.-. =.|.+|.-|-..|-..+..||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 4468999976532110 00000 14667778888898888899999543
No 182
>PLN02400 cellulose synthase
Probab=31.61 E-value=35 Score=35.05 Aligned_cols=50 Identities=22% Similarity=0.480 Sum_probs=33.3
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHH-hcCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWL-VTGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl-~~~~~CPlCR~~i~ 203 (210)
....|.||-+++.. |+--+.. -|+---|+.|-.-=. ..++.||-|++...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 34589999999853 4432222 677778999973211 12468999998763
No 183
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.42 E-value=60 Score=23.65 Aligned_cols=36 Identities=17% Similarity=0.304 Sum_probs=29.5
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcC
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTG 192 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~ 192 (210)
..|.||-..+..|+....++ +-.-|.+|...=...+
T Consensus 7 wkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~k 42 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRKK 42 (103)
T ss_pred eeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhcC
Confidence 46999999999999887778 7778999987755443
No 184
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.23 E-value=24 Score=34.32 Aligned_cols=41 Identities=20% Similarity=0.271 Sum_probs=29.0
Q ss_pred cccccccccccc-CCCeeEEeCCCCcccHHhHHHHHhcCCCCCcc
Q 041711 155 QERCVICLEEFS-EGDEVISLQCSHVHHRHCILKWLVTGNNCPTC 198 (210)
Q Consensus 155 ~~~C~ICle~~~-~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlC 198 (210)
...|-+|...=. +.+-.+.+.|+-.||..| |+-..+.||+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC 695 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVC 695 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCccc
Confidence 356888876533 223345568999888887 77778889999
No 185
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=31.23 E-value=17 Score=38.53 Aligned_cols=49 Identities=20% Similarity=0.448 Sum_probs=37.5
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC----CCCccCcCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN----NCPTCRFTL 202 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~----~CPlCR~~i 202 (210)
....|-+|.........+...-|.-.||..|+.+-+...+ .||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3467999999876644444447899999999999998753 699998643
No 186
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=31.11 E-value=14 Score=26.95 Aligned_cols=71 Identities=14% Similarity=0.122 Sum_probs=42.7
Q ss_pred CCCCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCch-hHHHHH----HHhhhhccCcChHHHHH
Q 041711 26 RNLSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQD-SFLEDL----RANLLSTQGLGECAQEI 100 (210)
Q Consensus 26 ~~~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~-~~~~~l----~~~ll~~~~l~~~~~e~ 100 (210)
...-.|.|.++++..|+|.. + ..+++++|..+ -|+.++.... .....+ ....++.+.+...+.+.
T Consensus 42 ~~~~~GkIvl~~~g~~~~~~----k---~~~a~~~GA~g---vii~~~~~~~~~~~~~~~~~~~~~~iP~~~is~~~g~~ 111 (126)
T cd00538 42 GADVKGKIVLVRRGGCSFSE----K---VKNAQKAGAKA---VIIYNNGDDPGPQMGSVGLESTDPSIPTVGISYADGEA 111 (126)
T ss_pred CCCccceEEEEECCCcCHHH----H---HHHHHHCCCEE---EEEEECCCCcccccccccCCCCCCcEeEEEeCHHHHHH
Confidence 34456999999998886632 2 34778888877 4554444321 111111 12235777788888888
Q ss_pred HHHHHH
Q 041711 101 LMKTIL 106 (210)
Q Consensus 101 l~~~v~ 106 (210)
|.+++.
T Consensus 112 l~~~~~ 117 (126)
T cd00538 112 LLSLLE 117 (126)
T ss_pred HHHHHh
Confidence 876664
No 187
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.87 E-value=52 Score=28.37 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=27.7
Q ss_pred Cccccccccc-cccCCCeeEEe-CCCCcccHHhHHHHHh
Q 041711 154 GQERCVICLE-EFSEGDEVISL-QCSHVHHRHCILKWLV 190 (210)
Q Consensus 154 ~~~~C~ICle-~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~ 190 (210)
....|++|.. ++-...+.-++ +|+|.|+..|..-|+.
T Consensus 94 ~~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 94 REETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred cccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 4567899887 44433333344 8999999999999988
No 188
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=30.19 E-value=36 Score=19.98 Aligned_cols=25 Identities=32% Similarity=0.643 Sum_probs=15.2
Q ss_pred ccccccccccCCC--------eeEEeCCCCccc
Q 041711 157 RCVICLEEFSEGD--------EVISLQCSHVHH 181 (210)
Q Consensus 157 ~C~ICle~~~~~~--------~~~~LpC~H~Fh 181 (210)
.|+=|...|...+ .++.-.|+|.|.
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 5777777775433 333336778774
No 189
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=29.54 E-value=69 Score=32.93 Aligned_cols=50 Identities=18% Similarity=0.445 Sum_probs=34.7
Q ss_pred CccccccccccccC---CCeeEEe-CCCCcccHHhHHHHHh-cCCCCCccCcCCC
Q 041711 154 GQERCVICLEEFSE---GDEVISL-QCSHVHHRHCILKWLV-TGNNCPTCRFTLP 203 (210)
Q Consensus 154 ~~~~C~ICle~~~~---~~~~~~L-pC~H~Fh~~CI~~Wl~-~~~~CPlCR~~i~ 203 (210)
....|.||-+++.. |+.-+.. -|+---|..|.+-=.+ .++.||-|+++..
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 55789999999853 4433333 5777799999843222 2568999998764
No 190
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.23 E-value=1.1e+02 Score=25.09 Aligned_cols=30 Identities=20% Similarity=0.257 Sum_probs=23.0
Q ss_pred HHHHHHHhhhhccCcChHHHHHHHHHHHHH
Q 041711 79 FLEDLRANLLSTQGLGECAQEILMKTILDE 108 (210)
Q Consensus 79 ~~~~l~~~ll~~~~l~~~~~e~l~~~v~~~ 108 (210)
..+.|++.+-.+.|+|.-.++++.-+++..
T Consensus 5 ~~~~Li~~l~~LPGIG~KsA~RlA~~ll~~ 34 (195)
T TIGR00615 5 PISKLIESLKKLPGIGPKSAQRLAFHLLKR 34 (195)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHcC
Confidence 467788888888999988888776665543
No 191
>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=28.67 E-value=28 Score=18.88 Aligned_cols=10 Identities=40% Similarity=1.138 Sum_probs=7.5
Q ss_pred CCCccCcCCC
Q 041711 194 NCPTCRFTLP 203 (210)
Q Consensus 194 ~CPlCR~~i~ 203 (210)
.||+|.+.++
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5899977763
No 192
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.38 E-value=37 Score=21.57 Aligned_cols=23 Identities=26% Similarity=0.703 Sum_probs=12.4
Q ss_pred CCCCcccHHhHHHHHhcCCCCCcc
Q 041711 175 QCSHVHHRHCILKWLVTGNNCPTC 198 (210)
Q Consensus 175 pC~H~Fh~~CI~~Wl~~~~~CPlC 198 (210)
.|+|.|-.. |..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 356665432 22222445679988
No 193
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=28.06 E-value=35 Score=23.62 Aligned_cols=30 Identities=30% Similarity=0.531 Sum_probs=21.0
Q ss_pred cccccccccccCCCeeEEe--CCCCcccHHhHHH
Q 041711 156 ERCVICLEEFSEGDEVISL--QCSHVHHRHCILK 187 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~L--pC~H~Fh~~CI~~ 187 (210)
..|.+|-... |-.+..- .|.-.||..|...
T Consensus 37 ~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 4799998762 3333322 6999999999754
No 194
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=27.75 E-value=30 Score=33.07 Aligned_cols=36 Identities=25% Similarity=0.541 Sum_probs=24.6
Q ss_pred CccccccccccccC------CC----eeEEeCCCCcccHHhHHHHH
Q 041711 154 GQERCVICLEEFSE------GD----EVISLQCSHVHHRHCILKWL 189 (210)
Q Consensus 154 ~~~~C~ICle~~~~------~~----~~~~LpC~H~Fh~~CI~~Wl 189 (210)
....|+||.|.|+. +. ..+.+.=|-+||..|+..-.
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 45689999999974 11 12333358899999986643
No 195
>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=27.63 E-value=46 Score=24.49 Aligned_cols=24 Identities=21% Similarity=0.398 Sum_probs=19.1
Q ss_pred CCcccHHhHHHHHhcC---------CCCCccCc
Q 041711 177 SHVHHRHCILKWLVTG---------NNCPTCRF 200 (210)
Q Consensus 177 ~H~Fh~~CI~~Wl~~~---------~~CPlCR~ 200 (210)
.-.||..|+..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 7789999998887642 25999986
No 196
>PRK11827 hypothetical protein; Provisional
Probab=26.86 E-value=25 Score=23.31 Aligned_cols=18 Identities=28% Similarity=0.397 Sum_probs=11.3
Q ss_pred HHHhcCCCCCccCcCCCC
Q 041711 187 KWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 187 ~Wl~~~~~CPlCR~~i~~ 204 (210)
+||..--.||+|+.++..
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 455555567888777643
No 197
>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....
Probab=26.69 E-value=26 Score=17.83 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=7.5
Q ss_pred hcceeeccCC
Q 041711 10 HLKVVHLSND 19 (210)
Q Consensus 10 ~~~~~~~~~~ 19 (210)
.|+.+|||+.
T Consensus 1 ~L~~Ldls~n 10 (22)
T PF00560_consen 1 NLEYLDLSGN 10 (22)
T ss_dssp TESEEEETSS
T ss_pred CccEEECCCC
Confidence 4788999943
No 198
>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A ....
Probab=26.55 E-value=32 Score=17.66 Aligned_cols=11 Identities=45% Similarity=0.688 Sum_probs=6.2
Q ss_pred HhhcceeeccC
Q 041711 8 NAHLKVVHLSN 18 (210)
Q Consensus 8 ~~~~~~~~~~~ 18 (210)
+..|+.||||+
T Consensus 1 ~~~L~~L~l~~ 11 (24)
T PF13516_consen 1 NPNLETLDLSN 11 (24)
T ss_dssp -TT-SEEE-TS
T ss_pred CCCCCEEEccC
Confidence 45788899983
No 199
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=25.73 E-value=25 Score=31.63 Aligned_cols=47 Identities=28% Similarity=0.552 Sum_probs=26.8
Q ss_pred CccccccccccccCCCeeEEe---CCCCccc--------HHhHHHHH-----hcCCCCCccCcC
Q 041711 154 GQERCVICLEEFSEGDEVISL---QCSHVHH--------RHCILKWL-----VTGNNCPTCRFT 201 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L---pC~H~Fh--------~~CI~~Wl-----~~~~~CPlCR~~ 201 (210)
.++.|++|-+..+ |-.-..| +|+-.|- ..|+..-- ..++.||.||..
T Consensus 14 l~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 14 LGELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 5678999988765 3333444 4555543 23443321 123569999863
No 200
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=24.88 E-value=61 Score=23.18 Aligned_cols=39 Identities=26% Similarity=0.488 Sum_probs=30.6
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
....|.-|...+.--+ .+| |-.|+..+..|..|+++|+.
T Consensus 32 ~rS~C~~C~~~L~~~~---lIP---------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWD---LIP---------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccc---cch---------HHHHHHhCCCCcccCCCCCh
Confidence 3467999988887654 224 67899999999999999864
No 201
>PF08309 LVIVD: LVIVD repeat; InterPro: IPR013211 This repeat is found in bacterial and archaeal cell surface proteins, many of which are hypothetical. The secondary structure corresponding to this repeat is predicted to comprise 4 beta-strands, which may associate to form a beta-propeller. The repeat copy number varies from 2-14. This repeat is sometimes found with the PKD domain IPR000601 from INTERPRO.
Probab=24.62 E-value=63 Score=19.61 Aligned_cols=11 Identities=36% Similarity=0.374 Sum_probs=9.4
Q ss_pred HHhhcceeecc
Q 041711 7 YNAHLKVVHLS 17 (210)
Q Consensus 7 ~~~~~~~~~~~ 17 (210)
.+.||..||+|
T Consensus 19 ~~~Gl~IvDIS 29 (42)
T PF08309_consen 19 GNNGLVIVDIS 29 (42)
T ss_pred CCCCEEEEECC
Confidence 35799999999
No 202
>PF13983 YsaB: YsaB-like lipoprotein
Probab=24.19 E-value=47 Score=22.77 Aligned_cols=16 Identities=25% Similarity=0.449 Sum_probs=14.5
Q ss_pred chhhHHHhhcceeecc
Q 041711 2 DAAQWYNAHLKVVHLS 17 (210)
Q Consensus 2 ~~~~~~~~~~~~~~~~ 17 (210)
.||.-||++-+.||++
T Consensus 25 ~AA~RYnt~~q~idv~ 40 (77)
T PF13983_consen 25 QAAHRYNTGAQKIDVT 40 (77)
T ss_pred HHHHhhcCCceeEeec
Confidence 3789999999999998
No 203
>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=23.67 E-value=18 Score=21.90 Aligned_cols=25 Identities=20% Similarity=0.369 Sum_probs=13.7
Q ss_pred CCCCcccHHhHHHHHhcCCCCCccCc
Q 041711 175 QCSHVHHRHCILKWLVTGNNCPTCRF 200 (210)
Q Consensus 175 pC~H~Fh~~CI~~Wl~~~~~CPlCR~ 200 (210)
.|+|.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 57777754221000 12347999987
No 204
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=23.66 E-value=20 Score=27.43 Aligned_cols=68 Identities=16% Similarity=0.002 Sum_probs=40.9
Q ss_pred CCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHHHHH-HhhhhccCcChHHHHHHHHHHHH
Q 041711 29 SPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLEDLR-ANLLSTQGLGECAQEILMKTILD 107 (210)
Q Consensus 29 ~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~~l~-~~ll~~~~l~~~~~e~l~~~v~~ 107 (210)
-.|-|.++++..|.|.. + ..+++++|..+ -|+.++....... ... ...++.+.+...+.+.|..++..
T Consensus 46 v~GkIvL~~rg~c~~~~----K---~~~a~~aGA~g---vIi~n~~~~~~~~-~~~~~~~iP~v~Is~~dG~~L~~~l~~ 114 (143)
T cd02133 46 VKGKIALIQRGEITFVE----K---IANAKAAGAVG---VIIYNNVDGLIPG-TLGEAVFIPVVFISKEDGEALKAALES 114 (143)
T ss_pred ccceEEEEECCCCCHHH----H---HHHHHHCCCeE---EEEeecCCCcccc-cCCCCCeEeEEEecHHHHHHHHHHHhC
Confidence 46889999998886632 2 34778888777 4454444221111 000 12357777888888888777654
No 205
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=23.49 E-value=30 Score=32.84 Aligned_cols=52 Identities=12% Similarity=0.179 Sum_probs=44.1
Q ss_pred CccccccccccccCCCeeEEe-CCCCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 154 GQERCVICLEEFSEGDEVISL-QCSHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~L-pC~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
....|.+|+......+....+ .|.|.++..|+..|-.....|+.|++.+...
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~ 311 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTI 311 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccc
Confidence 345799999998877767667 6889999999999998889999999988554
No 206
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.42 E-value=33 Score=30.01 Aligned_cols=33 Identities=27% Similarity=0.528 Sum_probs=24.3
Q ss_pred CccccccccccccCCCeeEEeCCCCcccHHhHH
Q 041711 154 GQERCVICLEEFSEGDEVISLQCSHVHHRHCIL 186 (210)
Q Consensus 154 ~~~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~ 186 (210)
+...|.||+..-.+.+.+-.=-|..-||.-|+.
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred ccHhhhccCCcccchheeccccccCCCCccccc
Confidence 567899999987665544333788889988874
No 207
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=23.28 E-value=53 Score=27.69 Aligned_cols=23 Identities=17% Similarity=0.401 Sum_probs=14.4
Q ss_pred cHHhHHHHHhcCCCCCccCcCCC
Q 041711 181 HRHCILKWLVTGNNCPTCRFTLP 203 (210)
Q Consensus 181 h~~CI~~Wl~~~~~CPlCR~~i~ 203 (210)
|..|-..--.+.+.||+|+..=.
T Consensus 197 C~sC~qqIHRNAPiCPlCK~KsR 219 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKSR 219 (230)
T ss_pred hHhHHHHHhcCCCCCcccccccc
Confidence 34454444445689999987543
No 208
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=23.08 E-value=48 Score=21.91 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=11.1
Q ss_pred CCCCCccCcCCCCC
Q 041711 192 GNNCPTCRFTLPCT 205 (210)
Q Consensus 192 ~~~CPlCR~~i~~~ 205 (210)
++.||+|-.+|+.+
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 56899998888754
No 209
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.02 E-value=40 Score=22.40 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=8.6
Q ss_pred CCCccCcCCCC
Q 041711 194 NCPTCRFTLPC 204 (210)
Q Consensus 194 ~CPlCR~~i~~ 204 (210)
.||+||.++.-
T Consensus 10 aCP~~kg~L~~ 20 (60)
T COG2835 10 ACPVCKGPLVY 20 (60)
T ss_pred eccCcCCcceE
Confidence 59999998743
No 210
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=22.78 E-value=45 Score=28.66 Aligned_cols=41 Identities=32% Similarity=0.506 Sum_probs=30.3
Q ss_pred cccccccccccCCCeeEEeCCCCcccHHhHHHHHhcCC--CCCcc
Q 041711 156 ERCVICLEEFSEGDEVISLQCSHVHHRHCILKWLVTGN--NCPTC 198 (210)
Q Consensus 156 ~~C~ICle~~~~~~~~~~LpC~H~Fh~~CI~~Wl~~~~--~CPlC 198 (210)
..|+|=...|.+ .++.-.|+|+|-++=|...+..+. .||+=
T Consensus 177 ~rdPis~~~I~n--PviSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVN--PVISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhc--hhhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 468887666654 233448999999999999998743 58873
No 211
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=22.59 E-value=29 Score=25.42 Aligned_cols=69 Identities=13% Similarity=0.037 Sum_probs=41.1
Q ss_pred CCCceeeeEEeeccCCCCCcceeeecccccchhhhhhhhhhhcccCCCchhHHH---HHHHhhhhccCcChHHHHHHHHH
Q 041711 28 LSPGFYFIIQIFNTDELIHPQVRVRIPLNAQEHTFHLKLHEIFFEDSDQDSFLE---DLRANLLSTQGLGECAQEILMKT 104 (210)
Q Consensus 28 ~~~~fi~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~dd~~~~~~~~---~l~~~ll~~~~l~~~~~e~l~~~ 104 (210)
...|.|.++++..|+|..+ ..+++++|..+ -|+.++.+...... ......++.+.+...+.+.|..+
T Consensus 38 ~v~GkIvL~~rg~c~f~~k-------~~~a~~aGA~g---vIi~~~~~~~~~~~~~~~~~~~~iP~v~V~~~~g~~l~~~ 107 (118)
T cd04818 38 AFAGKIALIDRGTCNFTVK-------VLNAQNAGAIA---VIVANNVAGGAPITMGGDDPDITIPAVMISQADGDALKAA 107 (118)
T ss_pred CCCCEEEEEECCCCCHHHH-------HHHHHHCCCeE---EEEEECCCCCcceeccCCCCCCEEeEEEecHHHHHHHHHH
Confidence 4679999999999977322 34677777776 45544333211110 00112357777787788877666
Q ss_pred HH
Q 041711 105 IL 106 (210)
Q Consensus 105 v~ 106 (210)
+.
T Consensus 108 l~ 109 (118)
T cd04818 108 LA 109 (118)
T ss_pred Hh
Confidence 54
No 212
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=22.40 E-value=43 Score=27.65 Aligned_cols=20 Identities=45% Similarity=0.786 Sum_probs=13.0
Q ss_pred HHhHHHHHh-cCCCCCccCcC
Q 041711 182 RHCILKWLV-TGNNCPTCRFT 201 (210)
Q Consensus 182 ~~CI~~Wl~-~~~~CPlCR~~ 201 (210)
..||.+--. ..+-||+||..
T Consensus 97 ktCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecCCCCCccccc
Confidence 457766432 35679999974
No 213
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=22.33 E-value=27 Score=22.58 Aligned_cols=8 Identities=38% Similarity=1.132 Sum_probs=2.3
Q ss_pred CCCccCcC
Q 041711 194 NCPTCRFT 201 (210)
Q Consensus 194 ~CPlCR~~ 201 (210)
+||+|...
T Consensus 26 tCP~C~a~ 33 (54)
T PF09237_consen 26 TCPICGAV 33 (54)
T ss_dssp E-TTT--E
T ss_pred CCCcchhh
Confidence 35555443
No 214
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.93 E-value=53 Score=25.37 Aligned_cols=23 Identities=26% Similarity=0.478 Sum_probs=14.6
Q ss_pred cccccccccCCCeeEEeCCCCcccHH
Q 041711 158 CVICLEEFSEGDEVISLQCSHVHHRH 183 (210)
Q Consensus 158 C~ICle~~~~~~~~~~LpC~H~Fh~~ 183 (210)
=-||.+. .+++....|||.|+..
T Consensus 60 lfi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 60 LFICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEEecc---cccEEEEeccccccCh
Confidence 3456554 2346666899999853
No 215
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.89 E-value=68 Score=25.46 Aligned_cols=26 Identities=19% Similarity=0.455 Sum_probs=20.3
Q ss_pred CCcccHHhHHHHHhcCCCCCccCcCCCCC
Q 041711 177 SHVHHRHCILKWLVTGNNCPTCRFTLPCT 205 (210)
Q Consensus 177 ~H~Fh~~CI~~Wl~~~~~CPlCR~~i~~~ 205 (210)
.+.||..|-.+-.. .||.|..+|...
T Consensus 27 ~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 47799999877544 799999998654
No 216
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=21.49 E-value=71 Score=27.12 Aligned_cols=25 Identities=16% Similarity=0.295 Sum_probs=15.8
Q ss_pred ccHHhHHHHHhcCCCCCccCcCCCC
Q 041711 180 HHRHCILKWLVTGNNCPTCRFTLPC 204 (210)
Q Consensus 180 Fh~~CI~~Wl~~~~~CPlCR~~i~~ 204 (210)
-|..|-.+--...+.||+|+..-..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRS 275 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRS 275 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhcccc
Confidence 3445555544566899999875533
No 217
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=21.39 E-value=49 Score=32.15 Aligned_cols=28 Identities=29% Similarity=0.814 Sum_probs=22.5
Q ss_pred CCCCcccHHhHHHHHhcC-----CCCCccCcCC
Q 041711 175 QCSHVHHRHCILKWLVTG-----NNCPTCRFTL 202 (210)
Q Consensus 175 pC~H~Fh~~CI~~Wl~~~-----~~CPlCR~~i 202 (210)
.|+-.||..|+..|++.. -.||-||.-.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 589999999999999863 2588887643
No 218
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=20.91 E-value=61 Score=21.49 Aligned_cols=15 Identities=20% Similarity=0.552 Sum_probs=11.9
Q ss_pred CCCCCccCcCCCCCC
Q 041711 192 GNNCPTCRFTLPCTT 206 (210)
Q Consensus 192 ~~~CPlCR~~i~~~~ 206 (210)
++.||+|-..||.+.
T Consensus 8 H~HC~VCg~aIp~de 22 (64)
T COG4068 8 HRHCVVCGKAIPPDE 22 (64)
T ss_pred CccccccCCcCCCcc
Confidence 567999999997664
Done!