Query 038517
Match_columns 112
No_of_seqs 126 out of 1365
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 11:53:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038517.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038517hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 7.3E-21 1.6E-25 135.0 3.7 74 36-110 202-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.8 2.6E-19 5.6E-24 93.0 2.1 44 60-104 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.6 1.6E-15 3.4E-20 86.7 3.9 47 58-104 18-73 (73)
4 PHA02929 N1R/p28-like protein; 99.6 2.3E-15 4.9E-20 102.9 4.1 66 43-108 152-227 (238)
5 COG5540 RING-finger-containing 99.5 1E-14 2.2E-19 101.5 3.4 51 58-109 322-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.5 2.2E-14 4.7E-19 102.3 3.3 51 58-109 286-346 (491)
7 KOG0317 Predicted E3 ubiquitin 99.5 4.5E-14 9.7E-19 97.6 4.6 51 58-112 238-288 (293)
8 PF12861 zf-Apc11: Anaphase-pr 99.4 7.7E-14 1.7E-18 80.9 3.2 53 58-110 20-84 (85)
9 PF13920 zf-C3HC4_3: Zinc fing 99.4 2.1E-13 4.6E-18 72.4 3.5 46 59-108 2-48 (50)
10 PLN03208 E3 ubiquitin-protein 99.4 4E-13 8.6E-18 88.9 4.2 50 58-111 17-82 (193)
11 KOG0823 Predicted E3 ubiquitin 99.3 6.2E-13 1.4E-17 89.5 2.9 52 57-112 45-99 (230)
12 cd00162 RING RING-finger (Real 99.3 1.5E-12 3.3E-17 66.8 3.5 44 61-107 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 99.3 1.2E-12 2.6E-17 66.0 3.0 39 62-103 1-39 (39)
14 PHA02926 zinc finger-like prot 99.3 2.7E-12 5.9E-17 86.2 3.3 51 58-108 169-230 (242)
15 KOG0320 Predicted E3 ubiquitin 99.3 1.9E-12 4E-17 84.1 2.4 51 58-110 130-180 (187)
16 KOG0802 E3 ubiquitin ligase [P 99.3 1.5E-12 3.2E-17 98.7 2.1 49 58-107 290-340 (543)
17 PF14634 zf-RING_5: zinc-RING 99.3 5.1E-12 1.1E-16 65.4 3.3 44 61-105 1-44 (44)
18 PF15227 zf-C3HC4_4: zinc fing 99.2 1.2E-11 2.7E-16 63.3 3.3 38 62-103 1-42 (42)
19 COG5194 APC11 Component of SCF 99.2 6.7E-12 1.4E-16 71.3 2.2 51 60-110 21-83 (88)
20 smart00504 Ubox Modified RING 99.2 2.6E-11 5.6E-16 67.1 3.9 48 60-111 2-49 (63)
21 KOG1493 Anaphase-promoting com 99.2 3.5E-12 7.6E-17 71.9 0.0 53 58-110 19-83 (84)
22 PF00097 zf-C3HC4: Zinc finger 99.2 2.3E-11 5E-16 61.8 2.4 39 62-103 1-41 (41)
23 smart00184 RING Ring finger. E 99.1 1E-10 2.2E-15 58.0 3.2 38 62-103 1-39 (39)
24 TIGR00599 rad18 DNA repair pro 99.1 1.1E-10 2.4E-15 85.1 3.7 50 58-111 25-74 (397)
25 KOG1734 Predicted RING-contain 99.0 2E-10 4.3E-15 79.2 2.2 52 58-110 223-283 (328)
26 COG5574 PEX10 RING-finger-cont 98.9 7.1E-10 1.5E-14 76.2 2.2 51 58-112 214-266 (271)
27 PF13445 zf-RING_UBOX: RING-ty 98.9 1.3E-09 2.8E-14 55.9 2.6 38 62-101 1-43 (43)
28 smart00744 RINGv The RING-vari 98.9 2.1E-09 4.6E-14 56.7 3.0 42 61-104 1-49 (49)
29 KOG0828 Predicted E3 ubiquitin 98.9 9.5E-10 2.1E-14 81.2 2.0 51 58-109 570-635 (636)
30 KOG2164 Predicted E3 ubiquitin 98.8 1.3E-09 2.8E-14 80.7 2.3 49 59-111 186-239 (513)
31 PF04564 U-box: U-box domain; 98.8 6.7E-09 1.5E-13 59.2 3.2 49 59-111 4-53 (73)
32 KOG2930 SCF ubiquitin ligase, 98.8 4E-09 8.7E-14 62.9 2.0 54 58-111 45-111 (114)
33 COG5219 Uncharacterized conser 98.8 1.9E-09 4.2E-14 84.7 0.6 52 58-109 1468-1524(1525)
34 PF11793 FANCL_C: FANCL C-term 98.7 1E-09 2.2E-14 62.1 -1.1 51 59-109 2-67 (70)
35 TIGR00570 cdk7 CDK-activating 98.7 1.6E-08 3.5E-13 71.5 3.8 51 59-110 3-56 (309)
36 KOG0287 Postreplication repair 98.7 6.4E-09 1.4E-13 73.9 1.4 48 59-110 23-70 (442)
37 COG5432 RAD18 RING-finger-cont 98.6 2.8E-08 6.1E-13 69.4 2.5 46 59-108 25-70 (391)
38 PF14835 zf-RING_6: zf-RING of 98.6 1.3E-08 2.8E-13 56.0 0.3 47 60-111 8-54 (65)
39 KOG0827 Predicted E3 ubiquitin 98.6 3.2E-08 6.9E-13 71.4 2.1 48 59-106 4-54 (465)
40 KOG0804 Cytoplasmic Zn-finger 98.5 4.2E-08 9.1E-13 71.9 1.6 48 58-108 174-222 (493)
41 KOG2177 Predicted E3 ubiquitin 98.5 7E-08 1.5E-12 67.0 1.8 43 58-104 12-54 (386)
42 KOG1039 Predicted E3 ubiquitin 98.3 3.5E-07 7.5E-12 65.9 2.4 50 58-107 160-220 (344)
43 KOG0824 Predicted E3 ubiquitin 98.3 3.9E-07 8.4E-12 63.9 2.0 48 59-110 7-55 (324)
44 KOG4265 Predicted E3 ubiquitin 98.3 6.3E-07 1.4E-11 64.1 2.8 47 58-108 289-336 (349)
45 KOG0311 Predicted E3 ubiquitin 98.2 1.3E-07 2.8E-12 67.6 -1.4 49 58-109 42-91 (381)
46 KOG4172 Predicted E3 ubiquitin 98.2 2.8E-07 6E-12 49.0 -0.0 46 59-108 7-54 (62)
47 KOG0978 E3 ubiquitin ligase in 98.1 8.4E-07 1.8E-11 68.7 1.3 49 59-111 643-692 (698)
48 KOG0825 PHD Zn-finger protein 98.1 5.8E-07 1.3E-11 70.0 -0.0 50 58-108 122-171 (1134)
49 KOG1645 RING-finger-containing 98.0 4.1E-06 8.9E-11 61.1 2.9 48 59-107 4-55 (463)
50 KOG1785 Tyrosine kinase negati 98.0 1.9E-06 4E-11 62.9 0.9 45 60-108 370-416 (563)
51 KOG1002 Nucleotide excision re 97.9 1.1E-06 2.3E-11 66.1 -1.3 49 58-110 535-588 (791)
52 PF11789 zf-Nse: Zinc-finger o 97.9 1.3E-05 2.8E-10 43.5 2.4 42 58-102 10-53 (57)
53 PF12906 RINGv: RING-variant d 97.8 2E-05 4.4E-10 41.0 2.0 40 62-103 1-47 (47)
54 PHA02862 5L protein; Provision 97.8 1.8E-05 4E-10 50.2 2.2 47 59-110 2-55 (156)
55 KOG4445 Uncharacterized conser 97.7 9.3E-06 2E-10 57.2 0.7 52 58-110 114-188 (368)
56 KOG3970 Predicted E3 ubiquitin 97.7 3.6E-05 7.7E-10 52.4 3.5 53 56-110 47-107 (299)
57 KOG4159 Predicted E3 ubiquitin 97.7 2.3E-05 5E-10 57.7 2.5 48 58-109 83-130 (398)
58 KOG0297 TNF receptor-associate 97.7 2E-05 4.4E-10 58.0 1.9 49 58-109 20-68 (391)
59 COG5152 Uncharacterized conser 97.6 3.3E-05 7.1E-10 51.6 2.3 46 58-107 195-240 (259)
60 KOG1941 Acetylcholine receptor 97.6 1.6E-05 3.5E-10 57.9 0.9 47 58-105 364-413 (518)
61 PF14570 zf-RING_4: RING/Ubox 97.6 6.7E-05 1.5E-09 39.1 2.7 45 62-107 1-47 (48)
62 KOG2660 Locus-specific chromos 97.6 1.2E-05 2.7E-10 57.1 -0.2 48 58-108 14-61 (331)
63 KOG0801 Predicted E3 ubiquitin 97.4 4.6E-05 1E-09 49.4 0.7 29 58-87 176-204 (205)
64 PF05883 Baculo_RING: Baculovi 97.4 0.0001 2.2E-09 46.4 2.0 36 59-95 26-67 (134)
65 KOG2879 Predicted E3 ubiquitin 97.3 0.00026 5.5E-09 49.5 3.6 48 58-108 238-287 (298)
66 PHA02825 LAP/PHD finger-like p 97.3 0.00021 4.6E-09 46.2 3.0 47 58-109 7-60 (162)
67 KOG1428 Inhibitor of type V ad 97.3 0.00017 3.8E-09 60.1 3.1 50 58-108 3485-3544(3738)
68 KOG1814 Predicted E3 ubiquitin 97.3 0.00016 3.5E-09 53.0 2.4 47 58-105 183-237 (445)
69 PF10367 Vps39_2: Vacuolar sor 97.3 0.00013 2.7E-09 44.0 1.3 32 58-91 77-108 (109)
70 KOG3039 Uncharacterized conser 97.2 0.00049 1.1E-08 47.5 3.5 55 58-112 220-274 (303)
71 KOG1813 Predicted E3 ubiquitin 97.2 0.00015 3.2E-09 51.1 1.0 46 58-107 240-285 (313)
72 KOG1952 Transcription factor N 97.1 0.00031 6.6E-09 55.6 2.3 49 58-106 190-245 (950)
73 PHA03096 p28-like protein; Pro 97.1 0.00029 6.2E-09 49.9 1.9 46 60-105 179-231 (284)
74 PF14447 Prok-RING_4: Prokaryo 97.0 0.00038 8.2E-09 37.2 1.5 36 73-111 18-53 (55)
75 PF04641 Rtf2: Rtf2 RING-finge 97.0 0.00096 2.1E-08 46.7 3.7 53 58-111 112-164 (260)
76 COG5175 MOT2 Transcriptional r 96.9 0.00074 1.6E-08 48.7 2.8 56 56-111 11-67 (480)
77 KOG4739 Uncharacterized protei 96.9 0.00036 7.7E-09 47.9 0.8 45 61-109 5-49 (233)
78 KOG4185 Predicted E3 ubiquitin 96.8 0.00093 2E-08 47.3 2.6 47 60-107 4-54 (296)
79 KOG0826 Predicted E3 ubiquitin 96.8 0.00065 1.4E-08 48.6 1.5 48 58-108 299-346 (357)
80 PF08746 zf-RING-like: RING-li 96.8 0.001 2.2E-08 34.0 1.7 41 62-103 1-43 (43)
81 KOG3268 Predicted E3 ubiquitin 96.7 0.001 2.2E-08 43.9 2.1 30 81-110 190-230 (234)
82 KOG4692 Predicted E3 ubiquitin 96.7 0.001 2.2E-08 48.3 2.2 47 58-108 421-467 (489)
83 KOG0827 Predicted E3 ubiquitin 96.7 5.5E-05 1.2E-09 55.1 -4.3 51 58-109 195-246 (465)
84 KOG2817 Predicted E3 ubiquitin 96.6 0.0019 4.2E-08 47.3 2.9 49 58-107 333-384 (394)
85 COG5236 Uncharacterized conser 96.5 0.0028 6.1E-08 45.9 3.2 47 58-108 60-108 (493)
86 PF10272 Tmpp129: Putative tra 96.4 0.0021 4.5E-08 46.9 2.3 31 81-111 311-354 (358)
87 KOG1940 Zn-finger protein [Gen 96.4 0.0025 5.3E-08 44.9 2.1 47 58-105 157-204 (276)
88 KOG4275 Predicted E3 ubiquitin 96.2 0.00093 2E-08 47.2 -0.5 41 59-107 300-341 (350)
89 KOG0309 Conserved WD40 repeat- 95.8 0.0052 1.1E-07 48.6 1.9 40 61-102 1030-1069(1081)
90 COG5222 Uncharacterized conser 95.8 0.0063 1.4E-07 43.4 1.9 44 59-105 274-318 (427)
91 KOG1571 Predicted E3 ubiquitin 95.7 0.0055 1.2E-07 44.4 1.6 43 58-107 304-346 (355)
92 COG5183 SSM4 Protein involved 95.7 0.0066 1.4E-07 48.4 2.1 53 58-112 11-70 (1175)
93 PF03854 zf-P11: P-11 zinc fin 95.6 0.0042 9.2E-08 32.1 0.4 29 81-109 18-47 (50)
94 KOG2034 Vacuolar sorting prote 95.5 0.0063 1.4E-07 48.7 1.4 35 58-94 816-850 (911)
95 PF14446 Prok-RING_1: Prokaryo 95.5 0.021 4.5E-07 30.5 2.9 44 59-106 5-50 (54)
96 KOG3053 Uncharacterized conser 95.4 0.0063 1.4E-07 42.3 0.8 49 58-107 19-81 (293)
97 PF07800 DUF1644: Protein of u 95.0 0.029 6.3E-07 36.4 3.0 35 58-95 1-47 (162)
98 KOG1001 Helicase-like transcri 95.0 0.0056 1.2E-07 48.2 -0.4 45 60-109 455-501 (674)
99 KOG3899 Uncharacterized conser 94.9 0.01 2.2E-07 42.2 0.8 30 81-110 325-367 (381)
100 KOG0298 DEAD box-containing he 94.6 0.036 7.7E-07 46.3 3.3 45 58-105 1152-1196(1394)
101 KOG2114 Vacuolar assembly/sort 94.6 0.018 4E-07 46.0 1.5 43 58-106 839-881 (933)
102 PF05290 Baculo_IE-1: Baculovi 94.6 0.036 7.8E-07 34.9 2.5 53 58-110 79-134 (140)
103 KOG3800 Predicted E3 ubiquitin 94.4 0.043 9.3E-07 38.9 2.8 47 61-107 2-50 (300)
104 KOG3002 Zn finger protein [Gen 94.1 0.042 9.1E-07 39.4 2.4 45 58-108 47-91 (299)
105 KOG1609 Protein involved in mR 94.1 0.026 5.5E-07 40.1 1.3 50 58-108 77-134 (323)
106 KOG2932 E3 ubiquitin ligase in 93.8 0.024 5.3E-07 40.6 0.7 43 60-107 91-133 (389)
107 KOG1100 Predicted E3 ubiquitin 93.3 0.052 1.1E-06 36.9 1.6 38 62-107 161-199 (207)
108 KOG1812 Predicted E3 ubiquitin 92.4 0.055 1.2E-06 40.0 0.8 37 58-95 145-182 (384)
109 COG5109 Uncharacterized conser 89.8 0.26 5.6E-06 35.6 2.1 47 58-105 335-384 (396)
110 KOG3113 Uncharacterized conser 89.7 0.36 7.8E-06 33.8 2.7 52 58-111 110-161 (293)
111 PF06906 DUF1272: Protein of u 89.3 1.1 2.5E-05 24.0 3.8 48 61-112 7-56 (57)
112 KOG4362 Transcriptional regula 89.2 0.098 2.1E-06 41.2 -0.4 47 59-109 21-70 (684)
113 PF11023 DUF2614: Protein of u 89.2 0.43 9.3E-06 29.3 2.5 30 76-111 70-99 (114)
114 PF13901 DUF4206: Domain of un 89.1 0.32 6.9E-06 32.9 2.1 42 58-105 151-197 (202)
115 KOG1815 Predicted E3 ubiquitin 89.0 0.25 5.4E-06 37.2 1.7 37 57-96 68-104 (444)
116 PF02891 zf-MIZ: MIZ/SP-RING z 88.9 0.41 8.8E-06 25.0 2.0 43 60-106 3-50 (50)
117 COG5220 TFB3 Cdk activating ki 88.4 0.25 5.3E-06 34.4 1.2 48 58-105 9-61 (314)
118 KOG4367 Predicted Zn-finger pr 88.4 0.22 4.9E-06 37.5 1.1 34 58-95 3-36 (699)
119 KOG0802 E3 ubiquitin ligase [P 88.3 0.3 6.5E-06 37.7 1.8 45 58-110 478-522 (543)
120 KOG0269 WD40 repeat-containing 87.9 0.45 9.7E-06 38.1 2.5 43 58-102 778-820 (839)
121 PF00412 LIM: LIM domain; Int 86.4 0.31 6.7E-06 25.6 0.6 39 62-110 1-39 (58)
122 PF06844 DUF1244: Protein of u 86.3 0.46 1E-05 26.3 1.3 12 84-95 11-22 (68)
123 KOG1829 Uncharacterized conser 85.9 0.28 6.1E-06 38.2 0.4 44 58-105 510-558 (580)
124 PF07975 C1_4: TFIIH C1-like d 85.3 0.84 1.8E-05 24.1 1.9 43 62-104 2-50 (51)
125 smart00132 LIM Zinc-binding do 85.3 0.6 1.3E-05 22.1 1.3 37 62-108 2-38 (39)
126 KOG4718 Non-SMC (structural ma 84.9 0.75 1.6E-05 31.4 2.0 47 58-107 180-226 (235)
127 KOG3161 Predicted E3 ubiquitin 84.4 0.37 8.1E-06 38.0 0.5 40 59-101 11-51 (861)
128 PF00628 PHD: PHD-finger; Int 83.0 0.87 1.9E-05 23.4 1.4 43 61-104 1-49 (51)
129 smart00249 PHD PHD zinc finger 82.8 0.86 1.9E-05 22.4 1.3 30 62-92 2-31 (47)
130 KOG2068 MOT2 transcription fac 81.8 1.4 3.1E-05 31.9 2.6 51 58-108 248-298 (327)
131 PF10571 UPF0547: Uncharacteri 79.9 1 2.2E-05 20.3 0.9 22 62-85 3-24 (26)
132 KOG0825 PHD Zn-finger protein 79.5 1.4 3E-05 35.8 2.0 48 58-105 95-151 (1134)
133 PF13717 zinc_ribbon_4: zinc-r 78.9 1.6 3.5E-05 21.1 1.5 26 61-86 4-36 (36)
134 KOG1812 Predicted E3 ubiquitin 78.6 1.3 2.7E-05 33.0 1.5 44 59-103 306-351 (384)
135 PF14311 DUF4379: Domain of un 78.5 1.4 3.1E-05 23.2 1.3 24 79-103 32-55 (55)
136 PF13719 zinc_ribbon_5: zinc-r 78.4 1.4 3E-05 21.4 1.2 26 61-86 4-36 (37)
137 COG3813 Uncharacterized protei 78.4 3.7 7.9E-05 23.3 2.9 48 62-111 8-55 (84)
138 PF01363 FYVE: FYVE zinc finge 77.9 1.2 2.5E-05 24.5 0.9 37 58-94 8-44 (69)
139 PLN02189 cellulose synthase 77.8 2.5 5.3E-05 35.3 3.0 50 58-108 33-87 (1040)
140 KOG2066 Vacuolar assembly/sort 77.6 0.91 2E-05 36.6 0.5 40 58-98 783-826 (846)
141 KOG3842 Adaptor protein Pellin 77.5 3 6.4E-05 30.4 3.0 52 58-110 340-416 (429)
142 PF14569 zf-UDP: Zinc-binding 76.3 5.2 0.00011 23.0 3.2 51 58-108 8-62 (80)
143 cd00065 FYVE FYVE domain; Zinc 74.6 3 6.5E-05 21.8 1.9 37 59-95 2-38 (57)
144 PF04710 Pellino: Pellino; In 74.5 0.99 2.1E-05 33.6 0.0 51 59-110 328-403 (416)
145 TIGR00622 ssl1 transcription f 74.3 3.8 8.2E-05 25.2 2.5 46 59-104 55-110 (112)
146 KOG2807 RNA polymerase II tran 73.2 3.3 7.1E-05 30.3 2.3 46 59-105 330-375 (378)
147 PF04710 Pellino: Pellino; In 73.1 1.1 2.4E-05 33.3 0.0 27 80-109 308-340 (416)
148 KOG3579 Predicted E3 ubiquitin 73.0 2.5 5.4E-05 30.3 1.7 40 58-97 267-306 (352)
149 PF04423 Rad50_zn_hook: Rad50 72.4 1 2.2E-05 23.7 -0.3 12 98-109 21-32 (54)
150 KOG1729 FYVE finger containing 71.9 0.64 1.4E-05 33.2 -1.4 35 61-96 216-250 (288)
151 PLN02436 cellulose synthase A 71.1 4.6 9.9E-05 33.9 3.0 50 58-108 35-89 (1094)
152 PF13240 zinc_ribbon_2: zinc-r 69.4 0.7 1.5E-05 20.1 -1.1 10 97-106 13-22 (23)
153 PF10497 zf-4CXXC_R1: Zinc-fin 68.0 7.1 0.00015 23.6 2.7 24 82-105 37-69 (105)
154 smart00064 FYVE Protein presen 67.7 4.9 0.00011 21.8 1.9 37 59-95 10-46 (68)
155 PRK02935 hypothetical protein; 67.5 6.7 0.00015 23.9 2.5 20 92-111 81-100 (110)
156 smart00647 IBR In Between Ring 67.2 1.5 3.3E-05 23.3 -0.3 21 73-93 38-58 (64)
157 PLN02638 cellulose synthase A 66.7 6.6 0.00014 33.1 3.0 50 58-108 16-70 (1079)
158 cd00350 rubredoxin_like Rubred 66.4 3.2 7E-05 19.5 0.8 19 81-105 7-25 (33)
159 KOG3039 Uncharacterized conser 66.4 3.7 8E-05 28.9 1.4 33 59-95 43-75 (303)
160 KOG3005 GIY-YIG type nuclease 65.9 4.1 8.9E-05 28.9 1.6 47 60-106 183-241 (276)
161 KOG2231 Predicted E3 ubiquitin 65.3 5.2 0.00011 31.9 2.2 45 61-109 2-53 (669)
162 COG3492 Uncharacterized protei 64.7 3.7 8E-05 24.3 1.0 12 84-95 42-53 (104)
163 PF07649 C1_3: C1-like domain; 64.3 7.4 0.00016 17.7 1.8 29 61-90 2-30 (30)
164 PF06750 DiS_P_DiS: Bacterial 61.4 11 0.00023 22.3 2.6 38 59-109 33-70 (92)
165 PRK05978 hypothetical protein; 60.3 6.4 0.00014 25.4 1.6 26 80-110 38-65 (148)
166 PLN02400 cellulose synthase 60.1 8.1 0.00018 32.6 2.5 50 58-108 35-89 (1085)
167 PLN02915 cellulose synthase A 58.7 11 0.00023 31.8 2.9 50 58-108 14-68 (1044)
168 PF07191 zinc-ribbons_6: zinc- 58.6 2.2 4.7E-05 24.0 -0.7 40 60-108 2-41 (70)
169 PLN02195 cellulose synthase A 57.9 14 0.00029 31.0 3.3 49 59-108 6-59 (977)
170 KOG3799 Rab3 effector RIM1 and 57.0 2.6 5.6E-05 26.9 -0.6 47 58-105 64-115 (169)
171 KOG2041 WD40 repeat protein [G 56.4 12 0.00027 30.5 2.8 48 58-109 1130-1186(1189)
172 KOG2071 mRNA cleavage and poly 54.5 8.2 0.00018 30.3 1.6 37 57-94 511-557 (579)
173 smart00734 ZnF_Rad18 Rad18-lik 53.9 3.4 7.5E-05 18.4 -0.3 9 99-107 3-11 (26)
174 PF04216 FdhE: Protein involve 53.7 1.3 2.8E-05 31.5 -2.6 47 58-105 171-219 (290)
175 PF02318 FYVE_2: FYVE-type zin 52.9 10 0.00022 23.3 1.6 46 58-105 53-102 (118)
176 PF14169 YdjO: Cold-inducible 52.5 8.7 0.00019 20.8 1.1 13 97-109 39-51 (59)
177 PRK01343 zinc-binding protein; 51.9 11 0.00023 20.4 1.3 12 97-108 9-20 (57)
178 PF09723 Zn-ribbon_8: Zinc rib 51.4 3 6.4E-05 20.8 -0.8 24 81-105 11-34 (42)
179 COG4847 Uncharacterized protei 50.7 15 0.00032 22.0 1.9 34 59-94 6-39 (103)
180 KOG4218 Nuclear hormone recept 49.6 18 0.00039 26.8 2.6 15 56-70 12-26 (475)
181 COG3357 Predicted transcriptio 48.8 8.8 0.00019 22.7 0.8 27 81-111 64-90 (97)
182 PLN02248 cellulose synthase-li 48.2 20 0.00043 30.5 2.9 29 81-109 150-178 (1135)
183 PRK11088 rrmA 23S rRNA methylt 47.3 14 0.00031 25.7 1.8 26 60-86 3-28 (272)
184 PF07282 OrfB_Zn_ribbon: Putat 47.2 19 0.0004 19.6 1.9 32 58-89 27-60 (69)
185 PRK00418 DNA gyrase inhibitor; 45.8 11 0.00024 20.7 0.8 12 97-108 6-17 (62)
186 KOG2979 Protein involved in DN 45.1 13 0.00028 26.3 1.2 45 58-105 175-221 (262)
187 PF06937 EURL: EURL protein; 44.3 22 0.00047 25.3 2.3 43 60-102 31-75 (285)
188 PRK11827 hypothetical protein; 43.9 7.6 0.00017 21.1 0.0 16 93-108 4-19 (60)
189 KOG2789 Putative Zn-finger pro 41.9 12 0.00025 28.2 0.7 33 59-93 74-106 (482)
190 TIGR00627 tfb4 transcription f 41.2 21 0.00046 25.5 1.9 9 98-106 270-278 (279)
191 PF13832 zf-HC5HC2H_2: PHD-zin 41.1 22 0.00048 21.2 1.7 33 58-92 54-87 (110)
192 COG4068 Uncharacterized protei 40.6 19 0.00042 19.5 1.2 14 97-110 8-21 (64)
193 smart00531 TFIIE Transcription 40.3 26 0.00057 22.3 2.1 12 98-109 124-135 (147)
194 PF06677 Auto_anti-p27: Sjogre 39.0 21 0.00045 17.8 1.2 20 90-109 10-29 (41)
195 PF03119 DNA_ligase_ZBD: NAD-d 37.6 10 0.00023 17.1 -0.1 10 99-108 1-10 (28)
196 PF15446 zf-PHD-like: PHD/FYVE 36.7 19 0.00042 23.8 1.0 30 62-92 2-34 (175)
197 KOG1512 PHD Zn-finger protein 35.2 17 0.00037 26.2 0.6 47 44-91 299-345 (381)
198 PRK00241 nudC NADH pyrophospha 35.2 31 0.00067 24.2 1.9 23 86-108 88-110 (256)
199 KOG0824 Predicted E3 ubiquitin 35.0 11 0.00024 27.2 -0.3 46 58-106 104-149 (324)
200 PF13248 zf-ribbon_3: zinc-rib 34.9 6.7 0.00015 17.3 -1.0 10 97-106 16-25 (26)
201 TIGR00686 phnA alkylphosphonat 34.4 28 0.00061 21.3 1.4 25 61-85 4-29 (109)
202 COG1545 Predicted nucleic-acid 34.4 17 0.00037 23.1 0.5 21 79-107 33-53 (140)
203 PF10013 DUF2256: Uncharacteri 34.0 24 0.00053 17.7 0.9 12 97-108 8-19 (42)
204 PF09237 GAGA: GAGA factor; I 33.7 10 0.00022 20.1 -0.5 9 99-107 26-34 (54)
205 PRK03564 formate dehydrogenase 33.6 25 0.00053 25.6 1.3 46 58-105 186-234 (309)
206 PF13453 zf-TFIIB: Transcripti 33.5 15 0.00032 18.0 0.1 9 100-108 2-10 (41)
207 PF00130 C1_1: Phorbol esters/ 33.0 33 0.00072 17.4 1.4 33 59-92 11-45 (53)
208 PF09943 DUF2175: Uncharacteri 32.6 44 0.00095 20.2 2.0 33 61-95 4-36 (101)
209 COG5242 TFB4 RNA polymerase II 32.5 26 0.00057 24.5 1.2 12 58-69 259-270 (296)
210 PF03107 C1_2: C1 domain; Int 32.4 36 0.00078 15.4 1.3 28 61-89 2-29 (30)
211 KOG4577 Transcription factor L 32.3 11 0.00024 27.1 -0.6 40 58-107 91-130 (383)
212 PF13771 zf-HC5HC2H: PHD-like 32.3 29 0.00063 19.7 1.2 33 58-92 35-68 (90)
213 PF10083 DUF2321: Uncharacteri 32.3 21 0.00045 23.3 0.6 26 81-109 26-51 (158)
214 PRK10220 hypothetical protein; 31.9 41 0.00088 20.6 1.8 25 61-85 5-30 (111)
215 PF11120 DUF2636: Protein of u 30.4 40 0.00087 18.5 1.5 14 1-14 1-14 (62)
216 PRK00398 rpoP DNA-directed RNA 30.1 15 0.00033 18.4 -0.2 13 97-109 21-33 (46)
217 KOG4443 Putative transcription 29.9 31 0.00067 27.7 1.3 25 81-105 41-70 (694)
218 COG5627 MMS21 DNA repair prote 29.4 29 0.00062 24.4 1.0 48 58-108 188-239 (275)
219 PF01485 IBR: IBR domain; Int 28.3 5.1 0.00011 21.1 -2.4 18 76-93 41-58 (64)
220 PF12773 DZR: Double zinc ribb 28.0 64 0.0014 16.1 2.0 13 97-109 29-41 (50)
221 PF05502 Dynactin_p62: Dynacti 27.6 32 0.0007 26.5 1.1 14 58-71 25-38 (483)
222 PF15353 HECA: Headcase protei 27.4 44 0.00094 20.4 1.4 15 81-95 40-54 (107)
223 PRK00420 hypothetical protein; 27.1 52 0.0011 20.3 1.7 12 97-108 40-51 (112)
224 COG2835 Uncharacterized conser 27.1 26 0.00057 19.1 0.4 10 99-108 10-19 (60)
225 PF13913 zf-C2HC_2: zinc-finge 27.1 9.7 0.00021 16.7 -1.1 7 100-106 5-11 (25)
226 KOG1245 Chromatin remodeling c 27.0 23 0.00051 31.0 0.3 49 58-107 1107-1159(1404)
227 PF12088 DUF3565: Protein of u 26.6 46 0.001 18.1 1.3 16 71-87 8-23 (61)
228 KOG4323 Polycomb-like PHD Zn-f 26.2 43 0.00093 25.8 1.5 49 58-106 167-224 (464)
229 PF08274 PhnA_Zn_Ribbon: PhnA 25.5 34 0.00075 15.8 0.6 8 62-69 5-12 (30)
230 PRK11595 DNA utilization prote 24.8 85 0.0018 21.4 2.7 22 85-106 22-43 (227)
231 COG4357 Zinc finger domain con 24.8 72 0.0016 19.2 2.0 28 81-109 65-92 (105)
232 PF05353 Atracotoxin: Delta At 24.1 3.7 7.9E-05 20.4 -3.0 15 87-101 18-32 (42)
233 TIGR01367 pyrE_Therm orotate p 23.9 38 0.00083 22.5 0.8 15 97-111 169-183 (187)
234 PF11290 DUF3090: Protein of u 22.9 59 0.0013 21.6 1.5 15 96-110 153-167 (171)
235 PRK06266 transcription initiat 22.8 1.6E+02 0.0034 19.5 3.5 16 94-109 133-148 (178)
236 TIGR02098 MJ0042_CXXC MJ0042 f 22.3 90 0.0019 14.6 1.8 9 61-69 4-12 (38)
237 cd00730 rubredoxin Rubredoxin; 22.0 46 0.001 17.3 0.7 10 97-106 34-43 (50)
238 smart00109 C1 Protein kinase C 22.0 70 0.0015 15.4 1.4 33 59-92 11-44 (49)
239 KOG0289 mRNA splicing factor [ 21.8 76 0.0017 24.4 2.1 47 62-111 3-49 (506)
240 COG0675 Transposase and inacti 21.7 67 0.0015 22.5 1.8 28 58-88 308-335 (364)
241 COG2093 DNA-directed RNA polym 21.7 30 0.00065 19.0 -0.0 10 97-106 18-27 (64)
242 PF10170 C6_DPF: Cysteine-rich 21.6 97 0.0021 18.6 2.1 32 58-95 48-83 (97)
243 PF05191 ADK_lid: Adenylate ki 21.4 45 0.00097 16.0 0.6 27 79-107 5-31 (36)
244 PF10146 zf-C4H2: Zinc finger- 21.2 74 0.0016 22.1 1.8 22 85-106 196-217 (230)
245 PF10235 Cript: Microtubule-as 21.1 61 0.0013 19.1 1.2 37 59-108 44-80 (90)
246 PF09538 FYDLN_acid: Protein o 21.1 41 0.0009 20.5 0.5 12 99-110 28-39 (108)
247 cd00029 C1 Protein kinase C co 21.1 61 0.0013 15.8 1.1 33 59-92 11-45 (50)
248 TIGR03493 cellullose_BcsF cell 21.0 78 0.0017 17.3 1.5 15 1-15 1-15 (62)
249 KOG1538 Uncharacterized conser 20.8 54 0.0012 26.8 1.2 30 79-108 1048-1077(1081)
250 TIGR03847 conserved hypothetic 20.7 68 0.0015 21.4 1.5 15 96-110 155-169 (177)
251 TIGR00373 conserved hypothetic 20.5 1.4E+02 0.003 19.3 2.9 16 94-109 125-140 (158)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=7.3e-21 Score=135.03 Aligned_cols=74 Identities=27% Similarity=0.666 Sum_probs=64.1
Q ss_pred CCCCCCCHHHHcCCCceecCCCCcc----ccccccccccCCCceeecCCCcCcccHHhHHHHHhCC-CCCccccCCCCCC
Q 038517 36 DGISGFSLEKIRGFPWFDCQRNLAA----ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR-LTCPTCRSPFKME 110 (112)
Q Consensus 36 ~~~~~~~~~~~~~l~~~~~~~~~~~----~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~-~~CP~Cr~~~~~~ 110 (112)
.+..++.++.+.++|...+....++ .|+||+|+|+.|++++.|| |+|.||..||++|+.+. ..||+|++++...
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 4666677799999999999887443 8999999999999999999 99999999999999876 5599999977543
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=99.76 E-value=2.6e-19 Score=93.03 Aligned_cols=44 Identities=43% Similarity=1.089 Sum_probs=40.2
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCcccc
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCR 104 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr 104 (112)
+.|+||++++..++.++.++ |+|.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 36999999999889999999 999999999999999999999997
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.58 E-value=1.6e-15 Score=86.74 Aligned_cols=47 Identities=36% Similarity=0.847 Sum_probs=35.9
Q ss_pred CccccccccccccCC---------CceeecCCCcCcccHHhHHHHHhCCCCCcccc
Q 038517 58 LAAICAVCLDGVHKG---------ERSRNFSICKHVFHARCIDLWLVRRLTCPTCR 104 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~---------~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr 104 (112)
.++.|+||++.+... +....+..|||.||..||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 355699999999422 23334434999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.57 E-value=2.3e-15 Score=102.91 Aligned_cols=66 Identities=33% Similarity=0.704 Sum_probs=49.1
Q ss_pred HHHHcCCCceecCC------CCccccccccccccCCC----ceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 43 LEKIRGFPWFDCQR------NLAAICAVCLDGVHKGE----RSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 43 ~~~~~~l~~~~~~~------~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
...++.+|....+. ..+.+|+||++.+..++ ....++.|+|.||..||.+|++.+.+||+||.++.
T Consensus 152 ~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 152 KKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred HHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 35556666554332 25689999999876543 12345459999999999999999999999999764
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=1e-14 Score=101.47 Aligned_cols=51 Identities=35% Similarity=0.888 Sum_probs=47.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~ 109 (112)
.+-+|+||++.|-.+++++.+| |+|.||..|+..|+.. +..||+||+++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 5678999999999999999999 9999999999999984 7889999999875
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=2.2e-14 Score=102.27 Aligned_cols=51 Identities=33% Similarity=0.933 Sum_probs=44.5
Q ss_pred Ccccccccccc-ccCC---------CceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 58 LAAICAVCLDG-VHKG---------ERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~-~~~~---------~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
++..|.||+++ +..+ ..+..+| |||.||..|++.|++++++||+||.++-.
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 78899999999 5544 2568899 99999999999999999999999999643
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=4.5e-14 Score=97.60 Aligned_cols=51 Identities=29% Similarity=0.733 Sum_probs=44.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEPV 112 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 112 (112)
....|.+|++..+ .+.-+| |||+||..||.+|...+..||+||..+.+.+|
T Consensus 238 a~~kC~LCLe~~~---~pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRS---NPSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCC---CCCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 5678999999764 467777 99999999999999999999999999988764
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.44 E-value=7.7e-14 Score=80.87 Aligned_cols=53 Identities=30% Similarity=0.769 Sum_probs=41.9
Q ss_pred CccccccccccccC---------CCceeecCCCcCcccHHhHHHHHhC---CCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHK---------GERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~---------~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~~~~~~ 110 (112)
.++.|.||...|+. ++.+.....|+|.||..||.+|+.. +..||+||+++..+
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 57889999988861 1334445559999999999999975 57899999988764
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.41 E-value=2.1e-13 Score=72.44 Aligned_cols=46 Identities=28% Similarity=0.801 Sum_probs=39.2
Q ss_pred ccccccccccccCCCceeecCCCcCc-ccHHhHHHHHhCCCCCccccCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHV-FHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
+..|.||++... .+..+| |||. |+..|+.+|++++..||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 568999999864 377788 9999 999999999999999999999875
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.39 E-value=4e-13 Score=88.87 Aligned_cols=50 Identities=30% Similarity=0.624 Sum_probs=41.0
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC----------------CCCCccccCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR----------------RLTCPTCRSPFKMEP 111 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~----------------~~~CP~Cr~~~~~~~ 111 (112)
.+..|+||++.+.. +++++ |||.||..||.+|+.. ...||+||.++...+
T Consensus 17 ~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 17 GDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 57889999998753 56667 9999999999999842 347999999987654
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=6.2e-13 Score=89.53 Aligned_cols=52 Identities=27% Similarity=0.617 Sum_probs=43.3
Q ss_pred CCccccccccccccCCCceeecCCCcCcccHHhHHHHHhC---CCCCccccCCCCCCCC
Q 038517 57 NLAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRSPFKMEPV 112 (112)
Q Consensus 57 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~~~~~~~~ 112 (112)
....+|.|||+.-+ .++++. |||.||..||.+|+.. ++.||+|+..|..++|
T Consensus 45 ~~~FdCNICLd~ak---dPVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 45 GGFFDCNICLDLAK---DPVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCceeeeeeccccC---CCEEee-cccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 36789999999764 366666 9999999999999974 4679999999988764
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=99.33 E-value=1.5e-12 Score=66.82 Aligned_cols=44 Identities=43% Similarity=1.020 Sum_probs=36.0
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCC
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPF 107 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~ 107 (112)
.|+||++.+. +.....+ |+|.||..|+..|++. +..||.||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999882 3344455 9999999999999987 77899999764
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=99.33 E-value=1.2e-12 Score=66.04 Aligned_cols=39 Identities=33% Similarity=0.889 Sum_probs=31.8
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~C 103 (112)
|+||++.+.+ .++.++ |||.|+..|+.+|++++.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 7999998854 335566 99999999999999999999987
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.27 E-value=2.7e-12 Score=86.17 Aligned_cols=51 Identities=29% Similarity=0.761 Sum_probs=39.5
Q ss_pred CccccccccccccCC-----CceeecCCCcCcccHHhHHHHHhCC------CCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKG-----ERSRNFSICKHVFHARCIDLWLVRR------LTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~------~~CP~Cr~~~~ 108 (112)
.+.+|+||+|..-+. .....+++|+|.||..||..|.+.+ .+||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 578999999976321 2345666699999999999999742 45999998654
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=1.9e-12 Score=84.12 Aligned_cols=51 Identities=33% Similarity=0.670 Sum_probs=42.0
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
....|+|||+.+.+ ..+.... |||+||..||+..++....||+||+.+..+
T Consensus 130 ~~~~CPiCl~~~se-k~~vsTk-CGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSE-KVPVSTK-CGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhh-ccccccc-cchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 45789999999864 2223344 999999999999999999999999987655
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=1.5e-12 Score=98.73 Aligned_cols=49 Identities=37% Similarity=1.070 Sum_probs=44.1
Q ss_pred CccccccccccccCCCc--eeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGER--SRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~--~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
.+..|+||+|.+..+.. +.+++ |+|+||..|++.|++++++||+||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 58899999999987655 78888 999999999999999999999999844
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.27 E-value=5.1e-12 Score=65.39 Aligned_cols=44 Identities=30% Similarity=0.812 Sum_probs=37.9
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
.|+||++.|.......+++ |||+|+..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999995555677777 9999999999999867789999985
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.22 E-value=1.2e-11 Score=63.26 Aligned_cols=38 Identities=29% Similarity=0.869 Sum_probs=29.2
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCC----CCCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR----LTCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~----~~CP~C 103 (112)
|+||++.|.. ++.++ |||.|+..||.+|.++. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999964 88898 99999999999999753 369987
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.21 E-value=6.7e-12 Score=71.32 Aligned_cols=51 Identities=31% Similarity=0.799 Sum_probs=38.2
Q ss_pred ccccccccccc-----------CC-CceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 60 AICAVCLDGVH-----------KG-ERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 60 ~~C~IC~~~~~-----------~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
+.|+||...+- .+ +.+..-..|+|.||..||.+||..++.||++|+++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 55777665542 22 34444444999999999999999999999999987543
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.19 E-value=2.6e-11 Score=67.06 Aligned_cols=48 Identities=21% Similarity=0.469 Sum_probs=41.6
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
..|+||.+.+.. ++.++ |||+|++.||.+|++++.+||+|+.++..+.
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 469999999865 56677 9999999999999998899999999886554
No 21
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=3.5e-12 Score=71.88 Aligned_cols=53 Identities=28% Similarity=0.708 Sum_probs=41.7
Q ss_pred Ccccccccccccc---------CCCceeecCCCcCcccHHhHHHHHhC---CCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVH---------KGERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~---------~~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~~~~~~ 110 (112)
.+++|.||.-.|. .++.+.++..|.|.||..||.+|+.. +..||+||+++..+
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 4668999998886 33455555559999999999999964 56799999988654
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.15 E-value=2.3e-11 Score=61.84 Aligned_cols=39 Identities=31% Similarity=0.905 Sum_probs=32.4
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHh--CCCCCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV--RRLTCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~C 103 (112)
|+||++.+.. ....++ |||.|+..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~--~~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 7899999864 224666 999999999999998 56789987
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.10 E-value=1e-10 Score=57.96 Aligned_cols=38 Identities=37% Similarity=0.993 Sum_probs=32.2
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHh-CCCCCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV-RRLTCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~C 103 (112)
|+||++.. ..+..++ |+|.||..|+..|++ .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 4577777 999999999999998 66789987
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.07 E-value=1.1e-10 Score=85.08 Aligned_cols=50 Identities=28% Similarity=0.528 Sum_probs=42.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
....|+||++.|.. +++++ |||.||..||..|+.....||+||.++...+
T Consensus 25 ~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 25 TSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred cccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 46789999999854 55677 9999999999999998889999999876543
No 25
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2e-10 Score=79.16 Aligned_cols=52 Identities=33% Similarity=0.842 Sum_probs=42.5
Q ss_pred CccccccccccccCCC-------ceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGE-------RSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~-------~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~~~ 110 (112)
++..|+||-..+.... +...+. |+|+||..||+.|-. ++++||+|+..+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 5778999988775433 566787 999999999999984 688999999877654
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=7.1e-10 Score=76.16 Aligned_cols=51 Identities=25% Similarity=0.667 Sum_probs=42.5
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHH-HHhCCCC-CccccCCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDL-WLVRRLT-CPTCRSPFKMEPV 112 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~-w~~~~~~-CP~Cr~~~~~~~~ 112 (112)
.+..|+||++... .+..++ |||+||..||.. |-+++.- ||+||+-+.+++|
T Consensus 214 ~d~kC~lC~e~~~---~ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPE---VPSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccC---Cccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 4778999999864 466677 999999999999 9877655 9999998887763
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.89 E-value=1.3e-09 Score=55.89 Aligned_cols=38 Identities=24% Similarity=0.721 Sum_probs=22.6
Q ss_pred cccccccccC-CCceeecCCCcCcccHHhHHHHHhCC----CCCc
Q 038517 62 CAVCLDGVHK-GERSRNFSICKHVFHARCIDLWLVRR----LTCP 101 (112)
Q Consensus 62 C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~----~~CP 101 (112)
|+||.+ +.. .+.++.|+ |||+|+++||.++++++ .+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 644 44578898 99999999999999843 3576
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=98.87 E-value=2.1e-09 Score=56.69 Aligned_cols=42 Identities=26% Similarity=0.766 Sum_probs=32.9
Q ss_pred ccccccccccCCCceeecCCCc-----CcccHHhHHHHHhC--CCCCcccc
Q 038517 61 ICAVCLDGVHKGERSRNFSICK-----HVFHARCIDLWLVR--RLTCPTCR 104 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~~--~~~CP~Cr 104 (112)
.|.||++ ..+++.+...| |. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 33445566777 86 88999999999964 45899995
No 29
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=9.5e-10 Score=81.22 Aligned_cols=51 Identities=27% Similarity=0.784 Sum_probs=39.1
Q ss_pred CccccccccccccCCC--------------ceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGE--------------RSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~--------------~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~ 109 (112)
....|+||+.+..--. .....| |+|+||..|+.+|+.. +-.||+||.+++.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3457999998775111 123346 9999999999999985 5599999998864
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.3e-09 Score=80.74 Aligned_cols=49 Identities=27% Similarity=0.659 Sum_probs=39.0
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-----CCCCccccCCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-----RLTCPTCRSPFKMEP 111 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-----~~~CP~Cr~~~~~~~ 111 (112)
+..|||||+.... ...+. |||+||..||.+++.. ...||+||..+..+.
T Consensus 186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 7789999998643 44455 9999999999998853 357999999887654
No 31
>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=98.77 E-value=6.7e-09 Score=59.22 Aligned_cols=49 Identities=18% Similarity=0.361 Sum_probs=38.7
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKMEP 111 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~~~ 111 (112)
+..|+|+.+.+.. ++.++ +||.|.+.+|.+|+++ +.+||.++.++..+.
T Consensus 4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 5789999999965 88888 9999999999999998 899999999887654
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=4e-09 Score=62.86 Aligned_cols=54 Identities=28% Similarity=0.716 Sum_probs=41.3
Q ss_pred Cccccccccccc-------------cCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 58 LAAICAVCLDGV-------------HKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 58 ~~~~C~IC~~~~-------------~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
..+.|+||..-+ ..++..+.-..|+|.||.-||.+|++.++.||+|.+++.+.+
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR 111 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence 567899987432 122344444459999999999999999999999999887653
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.75 E-value=1.9e-09 Score=84.72 Aligned_cols=52 Identities=33% Similarity=0.779 Sum_probs=39.8
Q ss_pred CccccccccccccCCC---ceeecCCCcCcccHHhHHHHHhC--CCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGE---RSRNFSICKHVFHARCIDLWLVR--RLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~~ 109 (112)
+.++|+||...+..-+ .-.+.+.|.|.||..|+..|+++ +++||+||.+++.
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 6789999998765111 11233449999999999999986 5789999998864
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.73 E-value=1e-09 Score=62.13 Aligned_cols=51 Identities=29% Similarity=0.697 Sum_probs=23.8
Q ss_pred cccccccccccc-CCCceee-c--CCCcCcccHHhHHHHHhC----C-------CCCccccCCCCC
Q 038517 59 AAICAVCLDGVH-KGERSRN-F--SICKHVFHARCIDLWLVR----R-------LTCPTCRSPFKM 109 (112)
Q Consensus 59 ~~~C~IC~~~~~-~~~~~~~-~--~~C~H~fh~~Ci~~w~~~----~-------~~CP~Cr~~~~~ 109 (112)
+..|.||+.... .++.+.. - +.|+..||..||.+||.. + ..||.|++++..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999999865 3333222 2 359999999999999962 1 149999998753
No 35
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=1.6e-08 Score=71.52 Aligned_cols=51 Identities=24% Similarity=0.578 Sum_probs=36.8
Q ss_pred ccccccccccc-cCCC-ceeecCCCcCcccHHhHHHHHh-CCCCCccccCCCCCC
Q 038517 59 AAICAVCLDGV-HKGE-RSRNFSICKHVFHARCIDLWLV-RRLTCPTCRSPFKME 110 (112)
Q Consensus 59 ~~~C~IC~~~~-~~~~-~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~Cr~~~~~~ 110 (112)
+..||+|..+- ...+ ...+.+ |||.||..|+...+. ....||.|+.++...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 56799999952 2222 223335 999999999999664 456899999877654
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.68 E-value=6.4e-09 Score=73.93 Aligned_cols=48 Identities=25% Similarity=0.589 Sum_probs=41.9
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
-..|.||++.|.. +...| |+|.||.-||...|..+..||.|+.++...
T Consensus 23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 4569999999953 67777 999999999999999999999999987653
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.59 E-value=2.8e-08 Score=69.44 Aligned_cols=46 Identities=26% Similarity=0.516 Sum_probs=39.2
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
-..|.||-+.+.. +..++ |||.||.-||...|..+..||+||.+..
T Consensus 25 ~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 25 MLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence 4569999998853 55566 9999999999999999999999998653
No 38
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.57 E-value=1.3e-08 Score=55.95 Aligned_cols=47 Identities=26% Similarity=0.694 Sum_probs=23.5
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
..|++|.+.+.+ ++.+..|.|+|+..||.+-+. ..||+|+.+...++
T Consensus 8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 359999998854 655545999999999988554 34999999886655
No 39
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.2e-08 Score=71.42 Aligned_cols=48 Identities=29% Similarity=0.825 Sum_probs=35.7
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhC---CCCCccccCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRSP 106 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~~ 106 (112)
-..|.||-+-+.....+.-...|||+||..|+.+|+.. +..||.|+-.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIK 54 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeec
Confidence 35699995554444455545459999999999999985 3689999833
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.50 E-value=4.2e-08 Score=71.88 Aligned_cols=48 Identities=29% Similarity=0.724 Sum_probs=37.8
Q ss_pred CccccccccccccCCC-ceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGE-RSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
+-.+|++|||.+.... -+.... |.|.||..|+..| ...+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 4567999999986543 234445 9999999999999 4678999998555
No 41
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=7e-08 Score=66.96 Aligned_cols=43 Identities=28% Similarity=0.667 Sum_probs=37.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCcccc
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCR 104 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr 104 (112)
+...|+||++.|... ..++ |+|.||..|+..+......||.||
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 577899999999764 7777 999999999999988557899999
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=3.5e-07 Score=65.90 Aligned_cols=50 Identities=28% Similarity=0.741 Sum_probs=38.6
Q ss_pred CccccccccccccCCC----ceeecCCCcCcccHHhHHHHHh--C-----CCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGE----RSRNFSICKHVFHARCIDLWLV--R-----RLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~----~~~~~~~C~H~fh~~Ci~~w~~--~-----~~~CP~Cr~~~ 107 (112)
.+.+|.||++...... ....+|+|.|.||..||..|-. + .+.||.||...
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 5889999999764322 1344577999999999999983 3 47899999754
No 43
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=3.9e-07 Score=63.94 Aligned_cols=48 Identities=27% Similarity=0.533 Sum_probs=39.5
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKME 110 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~~ 110 (112)
..+|+||+... ..++.++ |+|.||.-||+.-.+. ..+|++||.+++..
T Consensus 7 ~~eC~IC~nt~---n~Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTG---NCPVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccC---CcCcccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 56799999864 5567788 9999999999987765 46699999998754
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=6.3e-07 Score=64.15 Aligned_cols=47 Identities=23% Similarity=0.684 Sum_probs=40.3
Q ss_pred CccccccccccccCCCceeecCCCcCc-ccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHV-FHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
.+.+|.||+.+... ..+|| |-|. .|..|-+...-.++.||+||+++.
T Consensus 289 ~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence 47789999998644 77899 9999 999999887767899999999874
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=1.3e-07 Score=67.60 Aligned_cols=49 Identities=33% Similarity=0.617 Sum_probs=39.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~ 109 (112)
.+..|+||++-++. .+..+.|.|.||.+||..-+.. ++.||.||+.+..
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 57789999998853 5555569999999999887764 7899999997643
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=2.8e-07 Score=48.96 Aligned_cols=46 Identities=26% Similarity=0.585 Sum_probs=33.0
Q ss_pred ccccccccccccCCCceeecCCCcCc-ccHHhHHH-HHhCCCCCccccCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHV-FHARCIDL-WLVRRLTCPTCRSPFK 108 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~-w~~~~~~CP~Cr~~~~ 108 (112)
.++|.||+|.-- + -+... |||. .+..|-.+ |-..+..||+||+++.
T Consensus 7 ~dECTICye~pv--d-sVlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPV--D-SVLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcc--h-HHHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 367999998632 1 22334 9998 88999555 4446899999999763
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=8.4e-07 Score=68.66 Aligned_cols=49 Identities=27% Similarity=0.599 Sum_probs=38.7
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHh-CCCCCccccCCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV-RRLTCPTCRSPFKMEP 111 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~ 111 (112)
-..|+.|-..++. .+.. .|+|.||..|+...+. ++..||.|.+.+..-+
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4569999977643 3333 4999999999999986 6889999999886544
No 48
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.11 E-value=5.8e-07 Score=70.00 Aligned_cols=50 Identities=24% Similarity=0.525 Sum_probs=39.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
....|++|+..+..+.....-+ |+|.||..||..|...-++||+||.++.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 4567888887775544444455 9999999999999999999999998764
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=4.1e-06 Score=61.08 Aligned_cols=48 Identities=31% Similarity=0.915 Sum_probs=36.7
Q ss_pred ccccccccccccCC--CceeecCCCcCcccHHhHHHHHhC--CCCCccccCCC
Q 038517 59 AAICAVCLDGVHKG--ERSRNFSICKHVFHARCIDLWLVR--RLTCPTCRSPF 107 (112)
Q Consensus 59 ~~~C~IC~~~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~ 107 (112)
+..|+||++++... ..+..+. |||.|..+||.+|+.+ ...||.|...-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~-cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQ-CGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeec-ccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 56799999988643 2444454 9999999999999963 35699997643
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.00 E-value=1.9e-06 Score=62.87 Aligned_cols=45 Identities=27% Similarity=0.757 Sum_probs=36.8
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCccccCCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPTCRSPFK 108 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~ 108 (112)
+.|.||-|.= ..+..-| |||..|..|+..|-.+ .++||.||.++.
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 5799999852 3466667 9999999999999854 689999999874
No 51
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.94 E-value=1.1e-06 Score=66.07 Aligned_cols=49 Identities=27% Similarity=0.630 Sum_probs=39.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-----CCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-----RLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-----~~~CP~Cr~~~~~~ 110 (112)
++..|.+|-++-+. .+... |.|.||+.||++++.. +-+||+|...+..+
T Consensus 535 ~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 535 GEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 67889999997543 44555 9999999999998852 56899999887654
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.86 E-value=1.3e-05 Score=43.47 Aligned_cols=42 Identities=21% Similarity=0.502 Sum_probs=26.9
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCcc
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPT 102 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~ 102 (112)
....|+|.+..|++ ++....|+|+|-+..|.+|+++ ...||+
T Consensus 10 ~~~~CPiT~~~~~~---PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED---PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS---EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC---CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 45679999999864 5444349999999999999943 457998
No 53
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.75 E-value=2e-05 Score=41.05 Aligned_cols=40 Identities=28% Similarity=0.859 Sum_probs=26.7
Q ss_pred cccccccccCCCceeecCCCc-----CcccHHhHHHHHh--CCCCCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICK-----HVFHARCIDLWLV--RRLTCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~--~~~~CP~C 103 (112)
|-||++.-.+++ ....| |+ -..|..|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999876545 33445 65 3689999999997 45679887
No 54
>PHA02862 5L protein; Provisional
Probab=97.75 E-value=1.8e-05 Score=50.20 Aligned_cols=47 Identities=28% Similarity=0.801 Sum_probs=35.1
Q ss_pred ccccccccccccCCCceeecCCCc-----CcccHHhHHHHHhC--CCCCccccCCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICK-----HVFHARCIDLWLVR--RLTCPTCRSPFKME 110 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~~--~~~CP~Cr~~~~~~ 110 (112)
++.|-||+++-++. ..| |. ...|.+|+.+|++. +..|+.|+.+...+
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 46799999985332 234 65 56899999999974 56899999876543
No 55
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.74 E-value=9.3e-06 Score=57.24 Aligned_cols=52 Identities=29% Similarity=0.695 Sum_probs=42.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-----------------------CCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-----------------------RLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-----------------------~~~CP~Cr~~~~~~ 110 (112)
....|.|||--|..++...+++ |-|.||..|+.+++.. ...||+||..+..+
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 5577999999999988888888 9999999999987731 12599999987654
No 56
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=3.6e-05 Score=52.40 Aligned_cols=53 Identities=23% Similarity=0.606 Sum_probs=43.8
Q ss_pred CCCccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--------CCCCccccCCCCCC
Q 038517 56 RNLAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--------RLTCPTCRSPFKME 110 (112)
Q Consensus 56 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--------~~~CP~Cr~~~~~~ 110 (112)
++....|..|-..+..|+.++.. |-|.||.+|+++|... ...||-|..++.+.
T Consensus 47 sDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred cCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 33566799999999998888755 9999999999999863 34799999988654
No 57
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=2.3e-05 Score=57.67 Aligned_cols=48 Identities=27% Similarity=0.549 Sum_probs=41.4
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
.+..|.||..-+.. ++.+| |||.|+..||.+-+.....||.||.++..
T Consensus 83 sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 67899999988754 77777 99999999999988888899999988763
No 58
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.68 E-value=2e-05 Score=58.00 Aligned_cols=49 Identities=24% Similarity=0.611 Sum_probs=40.0
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
....|++|...+.. +.....|||.||..|+..|+..+..||.|+.++..
T Consensus 20 ~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 20 ENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred ccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCcccccccch
Confidence 46789999998865 33322399999999999999999999999987654
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.65 E-value=3.3e-05 Score=51.63 Aligned_cols=46 Identities=17% Similarity=0.423 Sum_probs=39.1
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
....|.||-++|+. ++... |||.||..|...-+++...|-+|.+..
T Consensus 195 IPF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 195 IPFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred Cceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 45689999999964 66666 999999999888888899999998753
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.64 E-value=1.6e-05 Score=57.89 Aligned_cols=47 Identities=30% Similarity=0.795 Sum_probs=38.0
Q ss_pred CccccccccccccCCC-ceeecCCCcCcccHHhHHHHHhCC--CCCccccC
Q 038517 58 LAAICAVCLDGVHKGE-RSRNFSICKHVFHARCIDLWLVRR--LTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~w~~~~--~~CP~Cr~ 105 (112)
.+..|..|=+.+-..+ ..--+| |.|+||..|+.+.+.++ .+||-||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 5678999998875443 455678 99999999999999764 68999994
No 61
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.61 E-value=6.7e-05 Score=39.11 Aligned_cols=45 Identities=22% Similarity=0.561 Sum_probs=22.9
Q ss_pred cccccccccCCC-ceeecCCCcCcccHHhHHHHHh-CCCCCccccCCC
Q 038517 62 CAVCLDGVHKGE-RSRNFSICKHVFHARCIDLWLV-RRLTCPTCRSPF 107 (112)
Q Consensus 62 C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~Cr~~~ 107 (112)
|++|.+++...+ ...--+ |++.++..|...-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999985433 333344 899999999988876 478999999875
No 62
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.61 E-value=1.2e-05 Score=57.14 Aligned_cols=48 Identities=25% Similarity=0.535 Sum_probs=38.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
....|.+|-..+-. .. +.+.|-|.||++||...+...++||.|...+-
T Consensus 14 ~~itC~LC~GYliD--AT-TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYLID--AT-TITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cceehhhccceeec--ch-hHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 45679999998753 22 22349999999999999999999999987653
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=4.6e-05 Score=49.36 Aligned_cols=29 Identities=21% Similarity=0.684 Sum_probs=27.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccH
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHA 87 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~ 87 (112)
...+|.||+|+++.++.+..+| |-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 6679999999999999999999 9999996
No 64
>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=97.40 E-value=0.0001 Score=46.41 Aligned_cols=36 Identities=19% Similarity=0.509 Sum_probs=29.3
Q ss_pred ccccccccccccCCCceeecCCCc------CcccHHhHHHHHh
Q 038517 59 AAICAVCLDGVHKGERSRNFSICK------HVFHARCIDLWLV 95 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~------H~fh~~Ci~~w~~ 95 (112)
..+|+||++.+...+.++.++ || |.||.+|+.+|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 567999999998755666666 66 9999999999943
No 65
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.00026 Score=49.49 Aligned_cols=48 Identities=23% Similarity=0.514 Sum_probs=36.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~ 108 (112)
.+.+|++|-+.-.. +.+..+|+|+||..||..-+.. ..+||.|..++.
T Consensus 238 ~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 67899999987432 3333339999999999876653 468999998775
No 66
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.34 E-value=0.00021 Score=46.15 Aligned_cols=47 Identities=21% Similarity=0.733 Sum_probs=34.6
Q ss_pred CccccccccccccCCCceeecCCCcC-----cccHHhHHHHHhC--CCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKH-----VFHARCIDLWLVR--RLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H-----~fh~~Ci~~w~~~--~~~CP~Cr~~~~~ 109 (112)
.+..|-||.++.. +. ..| |.. ..|.+|+.+|+.. ..+|+.|+++...
T Consensus 7 ~~~~CRIC~~~~~--~~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 7 MDKCCWICKDEYD--VV--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCeeEecCCCCC--Cc--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 5678999998843 22 234 654 5699999999974 5679999987643
No 67
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.34 E-value=0.00017 Score=60.14 Aligned_cols=50 Identities=24% Similarity=0.751 Sum_probs=39.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCC----------CCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR----------LTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~----------~~CP~Cr~~~~ 108 (112)
.++.|.||+.+-......+.+. |+|+||..|...-+.++ -+||+|+.++.
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 6788999998776656667788 99999999998766542 26999998764
No 68
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00016 Score=53.00 Aligned_cols=47 Identities=21% Similarity=0.532 Sum_probs=37.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--------CCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--------RLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--------~~~CP~Cr~ 105 (112)
.-..|.||+++....+....+| |+|+||+.|++.++.. .-.||-+..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4568999999986657888898 9999999999999952 235877654
No 69
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=97.26 E-value=0.00013 Score=44.00 Aligned_cols=32 Identities=31% Similarity=0.606 Sum_probs=26.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHH
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCID 91 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~ 91 (112)
.+..|++|-..+.. ......| |||+||..|++
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 67889999999865 5566677 99999999975
No 70
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.18 E-value=0.00049 Score=47.54 Aligned_cols=55 Identities=18% Similarity=0.346 Sum_probs=46.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEPV 112 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 112 (112)
....|++|.+.+.+......|.+|||+|...|+...+.....||+|-.++..++|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 4467999999998777666665699999999999998889999999999887654
No 71
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00015 Score=51.08 Aligned_cols=46 Identities=20% Similarity=0.337 Sum_probs=38.9
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
..+.|-||.+.|.. +++.. |+|.||..|-..-+++...|++|.++.
T Consensus 240 ~Pf~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 240 LPFKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred CCcccccccccccc---chhhc-CCceeehhhhccccccCCcceeccccc
Confidence 45679999999964 66666 999999999888888889999998865
No 72
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.11 E-value=0.00031 Score=55.60 Aligned_cols=49 Identities=29% Similarity=0.722 Sum_probs=37.9
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCC-------CCCccccCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR-------LTCPTCRSP 106 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~-------~~CP~Cr~~ 106 (112)
...+|.||.+.+...+.+-.-..|=|+||..||..|..+. -.||.|...
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 6679999999987666554444477999999999999642 259999843
No 73
>PHA03096 p28-like protein; Provisional
Probab=97.10 E-value=0.00029 Score=49.89 Aligned_cols=46 Identities=30% Similarity=0.659 Sum_probs=33.2
Q ss_pred cccccccccccCC----CceeecCCCcCcccHHhHHHHHhC---CCCCccccC
Q 038517 60 AICAVCLDGVHKG----ERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRS 105 (112)
Q Consensus 60 ~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~ 105 (112)
..|.||++..... ..-..++.|.|.|+..|+..|-.. ..+||.||.
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 5799999976532 244567779999999999999864 234555543
No 74
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.03 E-value=0.00038 Score=37.18 Aligned_cols=36 Identities=25% Similarity=0.681 Sum_probs=28.3
Q ss_pred CceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 73 ERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 73 ~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
..-.++| |+|..+..|..- .+-+-||.|.+++...+
T Consensus 18 ~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 18 TKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred ccccccc-ccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 4456677 999999999764 35678999999987664
No 75
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.99 E-value=0.00096 Score=46.67 Aligned_cols=53 Identities=23% Similarity=0.431 Sum_probs=41.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
....|||...++......+.+-+|||+|-..+|.+. .....||+|-.++..++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 667899999999554444444339999999999987 34668999999987665
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.94 E-value=0.00074 Score=48.72 Aligned_cols=56 Identities=16% Similarity=0.383 Sum_probs=40.7
Q ss_pred CCCccccccccccccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCCCCCC
Q 038517 56 RNLAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPFKMEP 111 (112)
Q Consensus 56 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~~~ 111 (112)
.++++.|+.|+|++...++-..--+||-..|.-|...--+. +..||-||+....+.
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 33567799999999876654443239998888887654333 678999999877664
No 77
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.88 E-value=0.00036 Score=47.89 Aligned_cols=45 Identities=22% Similarity=0.566 Sum_probs=31.7
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
.|.-|...-. ++...++. |+|+||..|...- ....||.|++++..
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeee
Confidence 4667776544 45555565 9999999997642 23389999998654
No 78
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00093 Score=47.32 Aligned_cols=47 Identities=26% Similarity=0.637 Sum_probs=38.3
Q ss_pred cccccccccccCCC---ceeecCCCcCcccHHhHHHHHhC-CCCCccccCCC
Q 038517 60 AICAVCLDGVHKGE---RSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPF 107 (112)
Q Consensus 60 ~~C~IC~~~~~~~~---~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~ 107 (112)
..|-||-++|+.++ .++.+. |||.|+..|+...+.. ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999998663 456676 9999999999887764 46799999874
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.00065 Score=48.60 Aligned_cols=48 Identities=25% Similarity=0.472 Sum_probs=37.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
+...|++|+....+ +..+.--|-+||..|+...+.+.+.||+=..+..
T Consensus 299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 67899999998754 2222226899999999999999999998666554
No 80
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.75 E-value=0.001 Score=33.96 Aligned_cols=41 Identities=32% Similarity=0.836 Sum_probs=22.1
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCC--CCccc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRL--TCPTC 103 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~--~CP~C 103 (112)
|.+|.+..-.|+.-.... |+=.+|..|+..++..+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 566777655444333333 888999999999998644 79987
No 81
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.001 Score=43.90 Aligned_cols=30 Identities=37% Similarity=0.960 Sum_probs=24.7
Q ss_pred CcCcccHHhHHHHHhC----C-------CCCccccCCCCCC
Q 038517 81 CKHVFHARCIDLWLVR----R-------LTCPTCRSPFKME 110 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~----~-------~~CP~Cr~~~~~~ 110 (112)
||.-||.-|+..|+.. + ..||+|..++..+
T Consensus 190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 9999999999999963 1 1499999988654
No 82
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.001 Score=48.26 Aligned_cols=47 Identities=21% Similarity=0.456 Sum_probs=39.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
++..|+||.-.- ...+..| |+|.=|+.||.+-+.+.+.|=.|++.+.
T Consensus 421 Ed~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred ccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence 778999998642 2244566 9999999999999999999999998765
No 83
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=5.5e-05 Score=55.08 Aligned_cols=51 Identities=20% Similarity=0.644 Sum_probs=42.7
Q ss_pred CccccccccccccCC-CceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHKG-ERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
....|+||.++++.. +++..+- |||.+|..||.+|+.+...||.|+++++.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 466799999998764 4455555 99999999999999999999999998753
No 84
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.60 E-value=0.0019 Score=47.26 Aligned_cols=49 Identities=18% Similarity=0.362 Sum_probs=41.1
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCC---CCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR---LTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~---~~CP~Cr~~~ 107 (112)
....|||=.+.-.+.+.+..+. |||+..++-+++..++. ..||+|=.+.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 5688999888887778889998 99999999999998764 4799995543
No 85
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.50 E-value=0.0028 Score=45.92 Aligned_cols=47 Identities=21% Similarity=0.492 Sum_probs=36.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHH--hCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWL--VRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~--~~~~~CP~Cr~~~~ 108 (112)
+...|.||-+... ...++| |+|..|--|-.+.- -.++.||+||+++.
T Consensus 60 en~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 60 ENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 6678999998763 366778 99999999965533 36889999999763
No 86
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=96.45 E-value=0.0021 Score=46.91 Aligned_cols=31 Identities=32% Similarity=0.956 Sum_probs=24.2
Q ss_pred CcCcccHHhHHHHHhCCC-------------CCccccCCCCCCC
Q 038517 81 CKHVFHARCIDLWLVRRL-------------TCPTCRSPFKMEP 111 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~-------------~CP~Cr~~~~~~~ 111 (112)
|...+|.+|+-+||..++ .||+||+.+...+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 557889999999996422 5999999876543
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.36 E-value=0.0025 Score=44.93 Aligned_cols=47 Identities=23% Similarity=0.617 Sum_probs=38.4
Q ss_pred CccccccccccccCCCc-eeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLDGVHKGER-SRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~-~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
....|+||.+.+-.... +..++ |||.-|..|+.+....+.+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 55669999997765554 45566 9999999999998887899999987
No 88
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.00093 Score=47.22 Aligned_cols=41 Identities=27% Similarity=0.690 Sum_probs=30.8
Q ss_pred ccccccccccccCCCceeecCCCcCc-ccHHhHHHHHhCCCCCccccCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHV-FHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
...|+||++... ....|+ |||. -|.+|.++ -+.||+||+-+
T Consensus 300 ~~LC~ICmDaP~---DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLE-CGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCc---ceEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence 568999999743 356787 9997 57777654 34899999854
No 89
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.84 E-value=0.0052 Score=48.59 Aligned_cols=40 Identities=33% Similarity=0.708 Sum_probs=29.4
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCcc
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPT 102 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~ 102 (112)
.|+||--.. .|....... |+|+.|.+|..+|+.....||.
T Consensus 1030 ~C~~C~l~V-~gss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAV-RGSSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEe-eccchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 466665544 233344455 9999999999999999999985
No 90
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.77 E-value=0.0063 Score=43.36 Aligned_cols=44 Identities=25% Similarity=0.638 Sum_probs=34.1
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHh-CCCCCccccC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV-RRLTCPTCRS 105 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~Cr~ 105 (112)
...|+.|-..+.. ....+.|+|.||..||..-|. ....||.|.+
T Consensus 274 ~LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 3679998877643 444566999999999987665 5688999976
No 91
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.75 E-value=0.0055 Score=44.41 Aligned_cols=43 Identities=30% Similarity=0.636 Sum_probs=31.3
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
....|.||+++..+ ...+| |||+-+ |..- .+...+||+||+.+
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~c-s~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLC-SKHLPQCPVCRQRI 346 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHH-HhhCCCCchhHHHH
Confidence 56789999998754 66777 999855 5433 23455699999865
No 92
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.74 E-value=0.0066 Score=48.40 Aligned_cols=53 Identities=19% Similarity=0.528 Sum_probs=40.3
Q ss_pred CccccccccccccCCCceeecCCCc-----CcccHHhHHHHHhC--CCCCccccCCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICK-----HVFHARCIDLWLVR--RLTCPTCRSPFKMEPV 112 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~~--~~~CP~Cr~~~~~~~~ 112 (112)
++..|.||..+=.+++.. ..| |+ -..|.+|+.+|+.- ...|-.|+.++..++|
T Consensus 11 d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred cchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 568899999876554433 445 66 45899999999974 5679999999887764
No 93
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.57 E-value=0.0042 Score=32.12 Aligned_cols=29 Identities=34% Similarity=0.855 Sum_probs=21.9
Q ss_pred Cc-CcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 81 CK-HVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 81 C~-H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
|+ |..+..|+...+.++..||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 66 999999999999999999999988764
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.54 E-value=0.0063 Score=48.69 Aligned_cols=35 Identities=23% Similarity=0.442 Sum_probs=28.5
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHH
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWL 94 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~ 94 (112)
.++.|.+|...+.. ..-.+.| |||.||++||.+-.
T Consensus 816 p~d~C~~C~~~ll~-~pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLI-KPFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhc-Ccceeee-ccchHHHHHHHHHH
Confidence 68899999998865 3455667 99999999998755
No 95
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.50 E-value=0.021 Score=30.47 Aligned_cols=44 Identities=20% Similarity=0.483 Sum_probs=33.6
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCcc--ccCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPT--CRSP 106 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~--Cr~~ 106 (112)
...|++|-+.|..++.+++-|.|+-.+|+.|... ...|-. |..+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4579999999987788888888999999999643 444544 5443
No 96
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.37 E-value=0.0063 Score=42.34 Aligned_cols=49 Identities=20% Similarity=0.740 Sum_probs=33.6
Q ss_pred CccccccccccccCCCc-eeecCCCc-----CcccHHhHHHHHhCC--------CCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGER-SRNFSICK-----HVFHARCIDLWLVRR--------LTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~-~~~~~~C~-----H~fh~~Ci~~w~~~~--------~~CP~Cr~~~ 107 (112)
.+..|-||+..=++.-. .-+.| |- |..|.+|+..|+.++ -+||.|+++.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 56779999986432211 12234 54 889999999999532 2599999865
No 97
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.00 E-value=0.029 Score=36.38 Aligned_cols=35 Identities=20% Similarity=0.596 Sum_probs=22.1
Q ss_pred CccccccccccccCCCceeecC-----------CCc-CcccHHhHHHHHh
Q 038517 58 LAAICAVCLDGVHKGERSRNFS-----------ICK-HVFHARCIDLWLV 95 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~-----------~C~-H~fh~~Ci~~w~~ 95 (112)
++..|+||||--.+ .++|- -|+ -.-|..|++++-+
T Consensus 1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 36789999997543 22222 044 3468999998754
No 98
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.97 E-value=0.0056 Score=48.21 Aligned_cols=45 Identities=27% Similarity=0.640 Sum_probs=34.8
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCccccCCCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPTCRSPFKM 109 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~~~~~ 109 (112)
..|.||++ . +.....+ |+|.|+..|+..-+.. ...||.||..+..
T Consensus 455 ~~c~ic~~-~---~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-c---ccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 78999999 2 3455566 9999999999887764 3469999986644
No 99
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.94 E-value=0.01 Score=42.16 Aligned_cols=30 Identities=27% Similarity=0.820 Sum_probs=23.9
Q ss_pred CcCcccHHhHHHHHhC-------------CCCCccccCCCCCC
Q 038517 81 CKHVFHARCIDLWLVR-------------RLTCPTCRSPFKME 110 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~-------------~~~CP~Cr~~~~~~ 110 (112)
|...+|.+|+-+|+.. +-+||+||+.+...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 6788999999999953 23699999987544
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.63 E-value=0.036 Score=46.26 Aligned_cols=45 Identities=33% Similarity=0.744 Sum_probs=36.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
.-..|.||++.+..-.-+ .. |||.++..|...|+..+..||.|..
T Consensus 1152 ~~~~c~ic~dil~~~~~I--~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI--AG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCe--ee-echhHhhhHHHHHHHHhccCcchhh
Confidence 456899999988631222 22 9999999999999999999999974
No 101
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.59 E-value=0.018 Score=46.01 Aligned_cols=43 Identities=21% Similarity=0.632 Sum_probs=32.1
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSP 106 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~ 106 (112)
....|..|-..++- +.+.=.|||.||..|+. .+...||-|+.+
T Consensus 839 q~skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 839 QVSKCSACEGTLDL---PFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeeecccCCcccc---ceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 44589999888743 33332399999999997 456789999864
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.56 E-value=0.036 Score=34.95 Aligned_cols=53 Identities=17% Similarity=0.359 Sum_probs=36.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHh---CCCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV---RRLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~---~~~~CP~Cr~~~~~~ 110 (112)
.-.+|.||.|...+..-+.--..||-..|..|.....+ -...||+|++.+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 35679999998654333322223999999999665444 367899999987654
No 103
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.043 Score=38.87 Aligned_cols=47 Identities=19% Similarity=0.458 Sum_probs=33.0
Q ss_pred cccccccc-ccCCCceeecCCCcCcccHHhHHHHHhC-CCCCccccCCC
Q 038517 61 ICAVCLDG-VHKGERSRNFSICKHVFHARCIDLWLVR-RLTCPTCRSPF 107 (112)
Q Consensus 61 ~C~IC~~~-~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~ 107 (112)
.|++|-.. |...+-......|+|..|.+|+...+.. ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888763 3333322223349999999999999865 57899997654
No 104
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.12 E-value=0.042 Score=39.35 Aligned_cols=45 Identities=24% Similarity=0.419 Sum_probs=32.9
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
+-.+||||.+.+.. ++..-.=||..|.+|-. +..+.||.||.++.
T Consensus 47 ~lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP---PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcc---cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 55789999999864 33221136999999864 45788999999876
No 105
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.10 E-value=0.026 Score=40.06 Aligned_cols=50 Identities=24% Similarity=0.636 Sum_probs=35.9
Q ss_pred CccccccccccccCCCc-eeecCCCc-----CcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGER-SRNFSICK-----HVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~-~~~~~~C~-----H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
.+..|.||.++...... ....| |. ...|+.|+..|+. ....|..|.....
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 34789999997654322 33444 55 6689999999997 4677999987543
No 106
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.76 E-value=0.024 Score=40.60 Aligned_cols=43 Identities=28% Similarity=0.565 Sum_probs=27.5
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
..|--|=-.+. ..-+..| |+|+||.+|-. +...+.||.|-..|
T Consensus 91 HfCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr--~~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIA--IYGRMIP-CKHVFCLECAR--SDSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCcce--eeecccc-cchhhhhhhhh--cCccccCcCcccHH
Confidence 45655544332 1224456 99999999964 24467899997544
No 107
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.29 E-value=0.052 Score=36.88 Aligned_cols=38 Identities=29% Similarity=0.679 Sum_probs=28.1
Q ss_pred cccccccccCCCceeecCCCcCc-ccHHhHHHHHhCCCCCccccCCC
Q 038517 62 CAVCLDGVHKGERSRNFSICKHV-FHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
|-.|.+.- ..+..+| |.|. +|..|-.. -..||+|+.+.
T Consensus 161 Cr~C~~~~---~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLP-CRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCC---ceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence 88888753 4577888 9987 88888432 45699998754
No 108
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.39 E-value=0.055 Score=40.05 Aligned_cols=37 Identities=16% Similarity=0.434 Sum_probs=27.1
Q ss_pred CccccccccccccCC-CceeecCCCcCcccHHhHHHHHh
Q 038517 58 LAAICAVCLDGVHKG-ERSRNFSICKHVFHARCIDLWLV 95 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~w~~ 95 (112)
....|.||+.+.... +...... |+|.||.+|+++.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhh
Confidence 467899999444333 3333344 999999999999886
No 109
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.80 E-value=0.26 Score=35.60 Aligned_cols=47 Identities=19% Similarity=0.414 Sum_probs=35.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC---CCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~ 105 (112)
.-..||+--+.-.+.+.+..+. |||+.-+.-+.+..++ ...||+|--
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4567888666665556677777 9999999999987765 356999943
No 110
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.72 E-value=0.36 Score=33.81 Aligned_cols=52 Identities=19% Similarity=0.357 Sum_probs=37.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
....|+|---++.....-..+-.|||+|-..-+++- +..+|++|...+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 456788877666544443333339999999888773 4788999999887765
No 111
>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=89.26 E-value=1.1 Score=23.99 Aligned_cols=48 Identities=23% Similarity=0.551 Sum_probs=33.7
Q ss_pred ccccccccccCCCceeecCCCc--CcccHHhHHHHHhCCCCCccccCCCCCCCC
Q 038517 61 ICAVCLDGVHKGERSRNFSICK--HVFHARCIDLWLVRRLTCPTCRSPFKMEPV 112 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~--H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 112 (112)
.|-.|-.++..+...... |. ..|+.+|....| +..||.|.-++...|+
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP~ 56 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRRPR 56 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccCCC
Confidence 466777777654422111 55 569999998866 7889999988877664
No 112
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.18 E-value=0.098 Score=41.23 Aligned_cols=47 Identities=23% Similarity=0.636 Sum_probs=36.2
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhC---CCCCccccCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR---RLTCPTCRSPFKM 109 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~---~~~CP~Cr~~~~~ 109 (112)
..+|+||+..+.+. ..+. |.|.|+..|+..-|.. ...||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 56799999988653 4555 9999999998876654 4569999976543
No 113
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=89.17 E-value=0.43 Score=29.26 Aligned_cols=30 Identities=23% Similarity=0.535 Sum_probs=21.1
Q ss_pred eecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 76 RNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 76 ~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
+..|+|++. ...+.+...|+.|++++..++
T Consensus 70 V~CP~C~K~------TKmLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 70 VECPNCGKQ------TKMLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred eECCCCCCh------HhhhchhhccCcCCCcCccCc
Confidence 345568773 334566678999999998774
No 114
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=89.10 E-value=0.32 Score=32.88 Aligned_cols=42 Identities=29% Similarity=0.772 Sum_probs=29.5
Q ss_pred Ccccccccccc-----ccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLDG-----VHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~-----~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
.+..|.+|-.+ |+. +.+..-+.|+-+||+.|.. +..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 56778888752 222 3455566699999999975 267999954
No 115
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.96 E-value=0.25 Score=37.21 Aligned_cols=37 Identities=19% Similarity=0.475 Sum_probs=29.8
Q ss_pred CCccccccccccccCCCceeecCCCcCcccHHhHHHHHhC
Q 038517 57 NLAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR 96 (112)
Q Consensus 57 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~ 96 (112)
.....|.||.+.+.. ....+. |+|.|+..|+...+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 356789999999854 455566 9999999999988863
No 116
>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=88.90 E-value=0.41 Score=25.02 Aligned_cols=43 Identities=21% Similarity=0.539 Sum_probs=18.4
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhC-----CCCCccccCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR-----RLTCPTCRSP 106 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-----~~~CP~Cr~~ 106 (112)
..|+|....+.. ++....|.|.-+.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~---P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI---PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS---EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe---CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 357887776643 44444499984433 4455542 2369999864
No 117
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=88.43 E-value=0.25 Score=34.42 Aligned_cols=48 Identities=23% Similarity=0.477 Sum_probs=34.4
Q ss_pred Cccccccccccc-cCCC-ceeecCCCcCcccHHhHHHHHhC-CCCCc--cccC
Q 038517 58 LAAICAVCLDGV-HKGE-RSRNFSICKHVFHARCIDLWLVR-RLTCP--TCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~-~~~~-~~~~~~~C~H~fh~~Ci~~w~~~-~~~CP--~Cr~ 105 (112)
.+..||+|..+- ...+ ++..-|.|=|..|.+|+.+-|.. ...|| -|.+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 456899999743 3333 33444569999999999999975 56899 5643
No 118
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=88.38 E-value=0.22 Score=37.50 Aligned_cols=34 Identities=24% Similarity=0.375 Sum_probs=27.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHh
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV 95 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~ 95 (112)
++..|+||-.-|++ ++.+| |+|..|..|-..-+.
T Consensus 3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 35679999998864 88898 999999999765543
No 119
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.34 E-value=0.3 Score=37.74 Aligned_cols=45 Identities=31% Similarity=0.805 Sum_probs=35.8
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
....|.||+++. ..+..+ |. |..|+..|+..+..||.|+..+..+
T Consensus 478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence 567899999987 234444 77 8999999999999999998866544
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=87.94 E-value=0.45 Score=38.06 Aligned_cols=43 Identities=21% Similarity=0.449 Sum_probs=30.0
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCcc
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPT 102 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~ 102 (112)
....|.+|-..+.. ..+- .+-|+|.-|.+|+++|+.+...||.
T Consensus 778 a~~~CtVC~~vi~G-~~~~-c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 778 ASAKCTVCDLVIRG-VDVW-CQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hhcCceeecceeee-eEee-cccccccccHHHHHHHHhcCCCCcc
Confidence 34467777766532 2121 2339999999999999998887766
No 121
>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=86.36 E-value=0.31 Score=25.64 Aligned_cols=39 Identities=23% Similarity=0.542 Sum_probs=22.4
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
|+-|-+.+..++.+. .. -+..||..|+. |-.|++++...
T Consensus 1 C~~C~~~I~~~~~~~-~~-~~~~~H~~Cf~--------C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KA-MGKFWHPECFK--------CSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEE-EE-TTEEEETTTSB--------ETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEE-Ee-CCcEEEccccc--------cCCCCCccCCC
Confidence 555666665433332 22 56677777753 77777766543
No 122
>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=86.26 E-value=0.46 Score=26.32 Aligned_cols=12 Identities=25% Similarity=0.750 Sum_probs=8.8
Q ss_pred cccHHhHHHHHh
Q 038517 84 VFHARCIDLWLV 95 (112)
Q Consensus 84 ~fh~~Ci~~w~~ 95 (112)
-||+.|+..|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 123
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.91 E-value=0.28 Score=38.17 Aligned_cols=44 Identities=30% Similarity=0.749 Sum_probs=27.8
Q ss_pred Cccccccccc-----cccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLD-----GVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~-----~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
.+..|.+|.. .|+ .+.++....|+++||+.|+.+ ++..||.|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 6677888832 121 223333334999999999754 4555999954
No 124
>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=85.26 E-value=0.84 Score=24.05 Aligned_cols=43 Identities=23% Similarity=0.479 Sum_probs=20.1
Q ss_pred cccccccccCCC------ceeecCCCcCcccHHhHHHHHhCCCCCcccc
Q 038517 62 CAVCLDGVHKGE------RSRNFSICKHVFHARCIDLWLVRRLTCPTCR 104 (112)
Q Consensus 62 C~IC~~~~~~~~------~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr 104 (112)
|--|+..+..+. ....-+.|++.|+.+|=.--=..--.||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 445666665431 3445567999999999321112345799884
No 125
>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=85.26 E-value=0.6 Score=22.08 Aligned_cols=37 Identities=30% Similarity=0.732 Sum_probs=23.8
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
|..|-+.+..++.... . =+..||..|+. |..|+.++.
T Consensus 2 C~~C~~~i~~~~~~~~-~-~~~~~H~~Cf~--------C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLR-A-LGKVWHPECFK--------CSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEE-e-CCccccccCCC--------CcccCCcCc
Confidence 6777777655422222 2 46789988864 888887663
No 126
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=84.93 E-value=0.75 Score=31.42 Aligned_cols=47 Identities=32% Similarity=0.590 Sum_probs=35.0
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
.-..|.+|..-.-. .++.-. |+-.+|..|+...+++...||.|.--+
T Consensus 180 nlk~Cn~Ch~LvIq--g~rCg~-c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQ--GIRCGS-CNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhhe--eeccCc-ccchhhhHHHHHHhcccCcCCchhccc
Confidence 34579999886532 233233 888899999999999999999995433
No 127
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.41 E-value=0.37 Score=37.98 Aligned_cols=40 Identities=23% Similarity=0.678 Sum_probs=28.9
Q ss_pred ccccccccccccCCC-ceeecCCCcCcccHHhHHHHHhCCCCCc
Q 038517 59 AAICAVCLDGVHKGE-RSRNFSICKHVFHARCIDLWLVRRLTCP 101 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~w~~~~~~CP 101 (112)
-..|.||+..|-... .++.+. |||+.|+.|+.... +.+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhHh--hccCC
Confidence 356999987775433 455565 99999999987643 56677
No 128
>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=83.02 E-value=0.87 Score=23.36 Aligned_cols=43 Identities=23% Similarity=0.549 Sum_probs=27.9
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHh------CCCCCcccc
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV------RRLTCPTCR 104 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~------~~~~CP~Cr 104 (112)
.|.||...- .++..+.-..|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378888843 3344444445999999999765432 134688775
No 129
>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 KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=81.75 E-value=1.4 Score=31.90 Aligned_cols=51 Identities=18% Similarity=0.447 Sum_probs=36.7
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
....|+||-+.....+...+--+|++..|..|+..-...+.+||.||++..
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 347899999987544444332228888777777776677889999998654
No 131
>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=79.95 E-value=1 Score=20.27 Aligned_cols=22 Identities=23% Similarity=0.449 Sum_probs=10.1
Q ss_pred cccccccccCCCceeecCCCcCcc
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVF 85 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~f 85 (112)
|+-|...+.. ....-|.|||.|
T Consensus 3 CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchh--hcCcCCCCCCCC
Confidence 5555555432 222233466655
No 132
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.47 E-value=1.4 Score=35.78 Aligned_cols=48 Identities=8% Similarity=0.035 Sum_probs=33.1
Q ss_pred CccccccccccccCCC---ceeecCCCcCcccHHhHHHHHhC------CCCCccccC
Q 038517 58 LAAICAVCLDGVHKGE---RSRNFSICKHVFHARCIDLWLVR------RLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~fh~~Ci~~w~~~------~~~CP~Cr~ 105 (112)
...+|.+|.-++...+ .+..+.+|+|.||..||..|..+ +-.|+.|..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 5667888888876522 22223349999999999999963 334777754
No 133
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=78.90 E-value=1.6 Score=21.09 Aligned_cols=26 Identities=27% Similarity=0.543 Sum_probs=13.9
Q ss_pred ccccccccccCCCc-------eeecCCCcCccc
Q 038517 61 ICAVCLDGVHKGER-------SRNFSICKHVFH 86 (112)
Q Consensus 61 ~C~IC~~~~~~~~~-------~~~~~~C~H~fh 86 (112)
.|+=|...|..++. ...-+.|+|.|+
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 57777766654331 122344777764
No 134
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.56 E-value=1.3 Score=33.00 Aligned_cols=44 Identities=23% Similarity=0.431 Sum_probs=30.0
Q ss_pred ccccccccccccCCC--ceeecCCCcCcccHHhHHHHHhCCCCCccc
Q 038517 59 AAICAVCLDGVHKGE--RSRNFSICKHVFHARCIDLWLVRRLTCPTC 103 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~--~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~C 103 (112)
--.|+.|.-.++..+ ...+-. |||.|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 456888876554322 233445 99999999999998777666443
No 135
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=78.50 E-value=1.4 Score=23.19 Aligned_cols=24 Identities=29% Similarity=0.623 Sum_probs=15.9
Q ss_pred CCCcCcccHHhHHHHHhCCCCCccc
Q 038517 79 SICKHVFHARCIDLWLVRRLTCPTC 103 (112)
Q Consensus 79 ~~C~H~fh~~Ci~~w~~~~~~CP~C 103 (112)
+.|||.|-.. +.........||.|
T Consensus 32 ~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEcc-HhhhccCCCCCCCC
Confidence 3488877654 44444567789988
No 136
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=78.39 E-value=1.4 Score=21.40 Aligned_cols=26 Identities=27% Similarity=0.590 Sum_probs=13.8
Q ss_pred ccccccccccCCC-------ceeecCCCcCccc
Q 038517 61 ICAVCLDGVHKGE-------RSRNFSICKHVFH 86 (112)
Q Consensus 61 ~C~IC~~~~~~~~-------~~~~~~~C~H~fh 86 (112)
.|+-|-..|..++ ....-+.|+|.|.
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 4666766665332 1233344777664
No 137
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=78.38 E-value=3.7 Score=23.27 Aligned_cols=48 Identities=21% Similarity=0.500 Sum_probs=29.4
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
|--|-.++..+......-.=.|.|+.+|...-| +..||.|--++...|
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcCc
Confidence 555556664433222220034889999987543 678999988776554
No 138
>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=77.92 E-value=1.2 Score=24.48 Aligned_cols=37 Identities=19% Similarity=0.341 Sum_probs=18.4
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHH
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWL 94 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~ 94 (112)
....|.+|...|..-..-..-..||++|+..|.....
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 4567999999996543333333499999999976544
No 139
>PLN02189 cellulose synthase
Probab=77.81 E-value=2.5 Score=35.30 Aligned_cols=50 Identities=20% Similarity=0.531 Sum_probs=34.8
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
....|.||-++.. .|+.-+-...|+--.|+.|. +.-. .++.||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 5678999999875 33333333447777999998 3332 3788999998764
No 140
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.63 E-value=0.91 Score=36.56 Aligned_cols=40 Identities=20% Similarity=0.566 Sum_probs=28.6
Q ss_pred CccccccccccccCC----CceeecCCCcCcccHHhHHHHHhCCC
Q 038517 58 LAAICAVCLDGVHKG----ERSRNFSICKHVFHARCIDLWLVRRL 98 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~w~~~~~ 98 (112)
.+..|.-|++..... +.++++- |+|.||+.|+..-..+++
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~ 826 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA 826 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc
Confidence 456788998865422 3566676 999999999876665544
No 141
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=77.50 E-value=3 Score=30.41 Aligned_cols=52 Identities=21% Similarity=0.444 Sum_probs=35.2
Q ss_pred Ccccccccccccc---------------CCC-ceeecCCCcCcccHHhHHHHHhC---------CCCCccccCCCCCC
Q 038517 58 LAAICAVCLDGVH---------------KGE-RSRNFSICKHVFHARCIDLWLVR---------RLTCPTCRSPFKME 110 (112)
Q Consensus 58 ~~~~C~IC~~~~~---------------~~~-~~~~~~~C~H~fh~~Ci~~w~~~---------~~~CP~Cr~~~~~~ 110 (112)
.+..|++|+..-. .|- ....-| |||+--++-..-|.+. +..||.|-+.+.-+
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 4678999997532 111 112234 9999989989999863 34699998876543
No 142
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=76.33 E-value=5.2 Score=22.98 Aligned_cols=51 Identities=25% Similarity=0.533 Sum_probs=19.8
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh-CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV-RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~-~~~~CP~Cr~~~~ 108 (112)
....|.||=++.- .|+.-+....|+--.++.|..==.+ .++.||.|++...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 5678999998764 2332222233777788999753333 4788999998764
No 143
>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=74.63 E-value=3 Score=21.78 Aligned_cols=37 Identities=19% Similarity=0.406 Sum_probs=24.8
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHh
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV 95 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~ 95 (112)
...|.+|-..|.....-..-..||++|+..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3568888887764332222334999999999876554
No 144
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=74.53 E-value=0.99 Score=33.61 Aligned_cols=51 Identities=22% Similarity=0.494 Sum_probs=0.0
Q ss_pred cccccccccccc-------------CC---CceeecCCCcCcccHHhHHHHHhC---------CCCCccccCCCCCC
Q 038517 59 AAICAVCLDGVH-------------KG---ERSRNFSICKHVFHARCIDLWLVR---------RLTCPTCRSPFKME 110 (112)
Q Consensus 59 ~~~C~IC~~~~~-------------~~---~~~~~~~~C~H~fh~~Ci~~w~~~---------~~~CP~Cr~~~~~~ 110 (112)
...|++|+..-. .+ -....-| |||+-=....+-|.+- +..||.|-.++..+
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 668999996432 00 0223345 9999988899999863 24699998888643
No 145
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.26 E-value=3.8 Score=25.22 Aligned_cols=46 Identities=24% Similarity=0.459 Sum_probs=32.3
Q ss_pred ccccccccccccCCC----------ceeecCCCcCcccHHhHHHHHhCCCCCcccc
Q 038517 59 AAICAVCLDGVHKGE----------RSRNFSICKHVFHARCIDLWLVRRLTCPTCR 104 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~----------~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr 104 (112)
...|--|...|.... ....-+.|++.|+.+|=.-+-..-..||.|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 345888988875421 1233455999999999666666667799995
No 146
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=73.20 E-value=3.3 Score=30.25 Aligned_cols=46 Identities=28% Similarity=0.538 Sum_probs=32.0
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
...|-.|.++...+...+--. |+++||.+|=.--=.+-..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCC
Confidence 445999987776655565555 9999999994432234457999963
No 147
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=73.12 E-value=1.1 Score=33.33 Aligned_cols=27 Identities=33% Similarity=0.559 Sum_probs=0.0
Q ss_pred CCcCcccHHhHHHHHhC------CCCCccccCCCCC
Q 038517 80 ICKHVFHARCIDLWLVR------RLTCPTCRSPFKM 109 (112)
Q Consensus 80 ~C~H~fh~~Ci~~w~~~------~~~CP~Cr~~~~~ 109 (112)
+|||++.. ..|-.. ...||+||++-+.
T Consensus 308 ~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 308 NCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ------------------------------------
T ss_pred cccceeee---cccccccccccccccCCCccccCCc
Confidence 39998653 467642 4579999986443
No 148
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.02 E-value=2.5 Score=30.28 Aligned_cols=40 Identities=15% Similarity=0.270 Sum_probs=28.2
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR 97 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~ 97 (112)
....|.+|.|.++..+.+-.-.-=.|.||..|-.+-++.+
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4578999999997655443111124999999998888753
No 149
>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=72.45 E-value=1 Score=23.70 Aligned_cols=12 Identities=33% Similarity=0.869 Sum_probs=6.1
Q ss_pred CCCccccCCCCC
Q 038517 98 LTCPTCRSPFKM 109 (112)
Q Consensus 98 ~~CP~Cr~~~~~ 109 (112)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999988764
No 150
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=71.87 E-value=0.64 Score=33.22 Aligned_cols=35 Identities=31% Similarity=0.839 Sum_probs=28.6
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHhC
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR 96 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~ 96 (112)
.|.+|++++..+....... |..+||..|+..|+.+
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred ecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 8999999998655555555 6669999999999975
No 151
>PLN02436 cellulose synthase A
Probab=71.07 E-value=4.6 Score=33.95 Aligned_cols=50 Identities=22% Similarity=0.590 Sum_probs=34.6
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
....|.||-++.. .|+--+-...|+--.|+.|.. .-. .++.||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-yer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-YERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhcCCccCcccCCchh
Confidence 5678999999863 334333334477779999983 332 3688999998764
No 152
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=69.42 E-value=0.7 Score=20.12 Aligned_cols=10 Identities=40% Similarity=1.142 Sum_probs=5.2
Q ss_pred CCCCccccCC
Q 038517 97 RLTCPTCRSP 106 (112)
Q Consensus 97 ~~~CP~Cr~~ 106 (112)
.+.||.|.++
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3446666544
No 153
>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=68.04 E-value=7.1 Score=23.63 Aligned_cols=24 Identities=25% Similarity=0.650 Sum_probs=18.3
Q ss_pred cCcccHHhHHHHHhC---------CCCCccccC
Q 038517 82 KHVFHARCIDLWLVR---------RLTCPTCRS 105 (112)
Q Consensus 82 ~H~fh~~Ci~~w~~~---------~~~CP~Cr~ 105 (112)
.=.|+..||..++.. .-.||.||-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988853 235999874
No 154
>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 PRK02935 hypothetical protein; Provisional
Probab=67.47 E-value=6.7 Score=23.85 Aligned_cols=20 Identities=25% Similarity=0.534 Sum_probs=14.6
Q ss_pred HHHhCCCCCccccCCCCCCC
Q 038517 92 LWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 92 ~w~~~~~~CP~Cr~~~~~~~ 111 (112)
+.+.+-.-|..|+++++.++
T Consensus 81 KmLGrvD~CM~C~~PLTLd~ 100 (110)
T PRK02935 81 KMLGRVDACMHCNQPLTLDR 100 (110)
T ss_pred hhccceeecCcCCCcCCcCc
Confidence 34556667999999988764
No 156
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=67.15 E-value=1.5 Score=23.30 Aligned_cols=21 Identities=24% Similarity=0.460 Sum_probs=15.4
Q ss_pred CceeecCCCcCcccHHhHHHH
Q 038517 73 ERSRNFSICKHVFHARCIDLW 93 (112)
Q Consensus 73 ~~~~~~~~C~H~fh~~Ci~~w 93 (112)
...+.-+.|+|.|+..|..+|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344555459999999998877
No 157
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=66.72 E-value=6.6 Score=33.07 Aligned_cols=50 Identities=24% Similarity=0.604 Sum_probs=34.2
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
....|.||=++.. .|+--+-...|+-=.|+.|. +.=. .++.||.|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 5678999999864 33333333447777999998 3332 4788999998664
No 158
>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=66.42 E-value=3.2 Score=19.50 Aligned_cols=19 Identities=21% Similarity=0.758 Sum_probs=11.6
Q ss_pred CcCcccHHhHHHHHhCCCCCccccC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
|||++-..- ....||.|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666654322 3457999976
No 159
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.42 E-value=3.7 Score=28.88 Aligned_cols=33 Identities=12% Similarity=0.177 Sum_probs=27.0
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHh
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV 95 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~ 95 (112)
-+.|..||..+.. ++..+ =||+|++.||.+.+.
T Consensus 43 FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRD---PVITP-DGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccC---CccCC-CCeeeeHHHHHHHHH
Confidence 4569999998754 66677 899999999999874
No 160
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=65.89 E-value=4.1 Score=28.85 Aligned_cols=47 Identities=23% Similarity=0.516 Sum_probs=32.7
Q ss_pred cccccccccccCCCceee---cCCCcCcccHHhHHHHHhC---------CCCCccccCC
Q 038517 60 AICAVCLDGVHKGERSRN---FSICKHVFHARCIDLWLVR---------RLTCPTCRSP 106 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~---~~~C~H~fh~~Ci~~w~~~---------~~~CP~Cr~~ 106 (112)
..|.+|..++.+.+..+. -+-|+-++|..|+..-+.. ...||.|++-
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 589999999954443322 1238889999999984431 2469999874
No 161
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.31 E-value=5.2 Score=31.92 Aligned_cols=45 Identities=27% Similarity=0.494 Sum_probs=32.8
Q ss_pred ccccccccccCCCceeecCCCcC-cccHHhHHHHHh--C----CCCCccccCCCCC
Q 038517 61 ICAVCLDGVHKGERSRNFSICKH-VFHARCIDLWLV--R----RLTCPTCRSPFKM 109 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~w~~--~----~~~CP~Cr~~~~~ 109 (112)
.|+||-..+. .+..-. ||| ..+..|..+... . .+.||+||.++..
T Consensus 2 ~c~ic~~s~~---~~~~~s-~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPD---FVGRGS-CGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCcc---cccccc-ccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 5899998764 344444 999 899999887663 2 4568999987654
No 162
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.73 E-value=3.7 Score=24.29 Aligned_cols=12 Identities=25% Similarity=0.725 Sum_probs=10.7
Q ss_pred cccHHhHHHHHh
Q 038517 84 VFHARCIDLWLV 95 (112)
Q Consensus 84 ~fh~~Ci~~w~~ 95 (112)
-||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
No 163
>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=64.31 E-value=7.4 Score=17.69 Aligned_cols=29 Identities=21% Similarity=0.431 Sum_probs=9.7
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhH
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCI 90 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci 90 (112)
.|.+|-+.... .....-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47788877654 334343449988998885
No 164
>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=61.44 E-value=11 Score=22.25 Aligned_cols=38 Identities=21% Similarity=0.339 Sum_probs=27.8
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
...|+-|...+.- .-..| |..|+..+..|..|+++++.
T Consensus 33 rS~C~~C~~~L~~---~~lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSW---WDLIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcc---cccch----------HHHHHHhCCCCcccCCCCCh
Confidence 3458888777643 22334 77899999999999998865
No 165
>PRK05978 hypothetical protein; Provisional
Probab=60.35 E-value=6.4 Score=25.42 Aligned_cols=26 Identities=23% Similarity=0.586 Sum_probs=19.3
Q ss_pred CCc--CcccHHhHHHHHhCCCCCccccCCCCCC
Q 038517 80 ICK--HVFHARCIDLWLVRRLTCPTCRSPFKME 110 (112)
Q Consensus 80 ~C~--H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 110 (112)
.|| +.|+ .+++-+..||.|-.++...
T Consensus 38 ~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 38 ACGEGKLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred CCCCCcccc-----cccccCCCccccCCccccC
Confidence 355 6665 5778899999998887654
No 166
>PLN02400 cellulose synthase
Probab=60.14 E-value=8.1 Score=32.58 Aligned_cols=50 Identities=22% Similarity=0.544 Sum_probs=33.7
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
....|.||=++.. +|+--+-...|+-=.|+.|. +.=. .++.||.|++...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCccc
Confidence 5678999999864 33322323337766899997 3322 3678999998764
No 167
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=58.69 E-value=11 Score=31.80 Aligned_cols=50 Identities=26% Similarity=0.533 Sum_probs=34.4
Q ss_pred Ccccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 58 LAAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
....|.||=++.. +|+--+-...|+--.|+.|. +.=. .++.||.|++...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 5778999998864 33333333347777999998 3332 3678999998764
No 168
>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=58.63 E-value=2.2 Score=24.00 Aligned_cols=40 Identities=20% Similarity=0.522 Sum_probs=18.2
Q ss_pred cccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
..||.|..++.... +|.++..|-.. +.....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 45888887754221 44455555443 344566888877664
No 169
>PLN02195 cellulose synthase A
Probab=57.89 E-value=14 Score=30.99 Aligned_cols=49 Identities=29% Similarity=0.620 Sum_probs=33.6
Q ss_pred cccccccccccc---CCCceeecCCCcCcccHHhHHHHHh--CCCCCccccCCCC
Q 038517 59 AAICAVCLDGVH---KGERSRNFSICKHVFHARCIDLWLV--RRLTCPTCRSPFK 108 (112)
Q Consensus 59 ~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~--~~~~CP~Cr~~~~ 108 (112)
...|.||=+... .|+--+-...|+--.|+.|. +.=. .++.||.|++...
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 567999998664 23323333448888999998 4433 3678999998775
No 170
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.98 E-value=2.6 Score=26.86 Aligned_cols=47 Identities=28% Similarity=0.509 Sum_probs=23.1
Q ss_pred Cccccccccc-cccCCCceeecCCCcCcccHHhHHHHHhC-CC---CCccccC
Q 038517 58 LAAICAVCLD-GVHKGERSRNFSICKHVFHARCIDLWLVR-RL---TCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~-~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~-~~---~CP~Cr~ 105 (112)
++..|.||+. .|..|--..... |.-.||+.|--+-..+ ++ .|-.|+.
T Consensus 64 ddatC~IC~KTKFADG~GH~C~Y-Cq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 64 DDATCGICHKTKFADGCGHNCSY-CQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred cCcchhhhhhcccccccCcccch-hhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 7889999997 343322222222 3344455553332222 22 3666665
No 171
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=56.44 E-value=12 Score=30.54 Aligned_cols=48 Identities=25% Similarity=0.400 Sum_probs=30.5
Q ss_pred CccccccccccccC----C-----CceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 58 LAAICAVCLDGVHK----G-----ERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 58 ~~~~C~IC~~~~~~----~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
.+..|+-|...|.. | ...-..|.|+|..|..=|. +.+.||+|...+..
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSMESF 1186 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChhhc
Confidence 45677777776641 1 1122245599988876553 46789999987654
No 172
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=54.47 E-value=8.2 Score=30.28 Aligned_cols=37 Identities=16% Similarity=0.386 Sum_probs=24.6
Q ss_pred CCccccccccccccCC------C----ceeecCCCcCcccHHhHHHHH
Q 038517 57 NLAAICAVCLDGVHKG------E----RSRNFSICKHVFHARCIDLWL 94 (112)
Q Consensus 57 ~~~~~C~IC~~~~~~~------~----~~~~~~~C~H~fh~~Ci~~w~ 94 (112)
.....|+||.|.|+.- . ..+.+. =|-+||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchHH
Confidence 3567899999999621 1 112222 47899999987643
No 173
>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=53.93 E-value=3.4 Score=18.41 Aligned_cols=9 Identities=33% Similarity=0.992 Sum_probs=5.1
Q ss_pred CCccccCCC
Q 038517 99 TCPTCRSPF 107 (112)
Q Consensus 99 ~CP~Cr~~~ 107 (112)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 366665554
No 174
>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=53.69 E-value=1.3 Score=31.45 Aligned_cols=47 Identities=21% Similarity=0.373 Sum_probs=19.2
Q ss_pred CccccccccccccCCCceeecC--CCcCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNFS--ICKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~--~C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
....||+|=..-.-+. +..-. -=.|.+|.-|-.+|--.+..||.|-.
T Consensus 171 ~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3468999987532100 00000 01355667788888777889999965
No 175
>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=52.94 E-value=10 Score=23.27 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=26.5
Q ss_pred CccccccccccccC--CCceeecCCCcCcccHHhHHHHHhCCC--CCccccC
Q 038517 58 LAAICAVCLDGVHK--GERSRNFSICKHVFHARCIDLWLVRRL--TCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~--~~~~~~~~~C~H~fh~~Ci~~w~~~~~--~CP~Cr~ 105 (112)
.+..|.+|...|.. +....-.. |+|.+|..|-.. ..+.. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~-C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVD-CKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETT-TTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCc-CCccccCccCCc-CCCCCCEEChhhHH
Confidence 46689999987642 22333444 999999999543 11111 3777654
No 176
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=52.51 E-value=8.7 Score=20.85 Aligned_cols=13 Identities=38% Similarity=0.984 Sum_probs=9.7
Q ss_pred CCCCccccCCCCC
Q 038517 97 RLTCPTCRSPFKM 109 (112)
Q Consensus 97 ~~~CP~Cr~~~~~ 109 (112)
...||+|..+...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4679999987643
No 177
>PRK01343 zinc-binding protein; Provisional
Probab=51.93 E-value=11 Score=20.36 Aligned_cols=12 Identities=33% Similarity=0.894 Sum_probs=8.4
Q ss_pred CCCCccccCCCC
Q 038517 97 RLTCPTCRSPFK 108 (112)
Q Consensus 97 ~~~CP~Cr~~~~ 108 (112)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456888887654
No 178
>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=51.44 E-value=3 Score=20.80 Aligned_cols=24 Identities=29% Similarity=0.486 Sum_probs=13.6
Q ss_pred CcCcccHHhHHHHHhCCCCCccccC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
|||.|-..--..= .....||.|..
T Consensus 11 Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 11 CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 8877765321000 12457999987
No 179
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=50.70 E-value=15 Score=21.97 Aligned_cols=34 Identities=18% Similarity=0.229 Sum_probs=26.4
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHH
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWL 94 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~ 94 (112)
+-.|.||-+...+|+.-...+ =| ..|.+|+.+=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kG-sVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KG-SVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CC-cchHHHHHHHH
Confidence 456999999999999887776 34 47899987643
No 180
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=49.62 E-value=18 Score=26.84 Aligned_cols=15 Identities=40% Similarity=0.866 Sum_probs=11.4
Q ss_pred CCCcccccccccccc
Q 038517 56 RNLAAICAVCLDGVH 70 (112)
Q Consensus 56 ~~~~~~C~IC~~~~~ 70 (112)
...++.|++|=+...
T Consensus 12 edl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 12 EDLGELCPVCGDKVS 26 (475)
T ss_pred cccccccccccCccc
Confidence 346788999988764
No 181
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=48.75 E-value=8.8 Score=22.74 Aligned_cols=27 Identities=30% Similarity=0.728 Sum_probs=17.2
Q ss_pred CcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
||-.|-.+= ++.-..||.|++++-.+|
T Consensus 64 CGfef~~~~----ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 64 CGFEFRDDK----IKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cCccccccc----cCCcccCCcchhhcccCC
Confidence 776666532 234567999998775543
No 182
>PLN02248 cellulose synthase-like protein
Probab=48.20 E-value=20 Score=30.54 Aligned_cols=29 Identities=24% Similarity=0.582 Sum_probs=25.4
Q ss_pred CcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
|++..|++|...-++....||-|+.+...
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 78999999999999888999999887643
No 183
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=47.32 E-value=14 Score=25.73 Aligned_cols=26 Identities=23% Similarity=0.368 Sum_probs=18.3
Q ss_pred cccccccccccCCCceeecCCCcCccc
Q 038517 60 AICAVCLDGVHKGERSRNFSICKHVFH 86 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~H~fh 86 (112)
..||+|...+...+..-..+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 46999999997555444445 678873
No 184
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=47.15 E-value=19 Score=19.56 Aligned_cols=32 Identities=16% Similarity=0.250 Sum_probs=20.8
Q ss_pred CccccccccccccC--CCceeecCCCcCcccHHh
Q 038517 58 LAAICAVCLDGVHK--GERSRNFSICKHVFHARC 89 (112)
Q Consensus 58 ~~~~C~IC~~~~~~--~~~~~~~~~C~H~fh~~C 89 (112)
-...|+.|-..... .......+.||+.+|++-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHH
Confidence 34568888776655 344555556888887764
No 185
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=45.78 E-value=11 Score=20.65 Aligned_cols=12 Identities=42% Similarity=1.198 Sum_probs=9.2
Q ss_pred CCCCccccCCCC
Q 038517 97 RLTCPTCRSPFK 108 (112)
Q Consensus 97 ~~~CP~Cr~~~~ 108 (112)
...||.|++++.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 356999999864
No 186
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=45.06 E-value=13 Score=26.28 Aligned_cols=45 Identities=16% Similarity=0.262 Sum_probs=30.4
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~Cr~ 105 (112)
-+..|||=...+.. +.+-..|||+|-++=|.+.+.. .-.||+--.
T Consensus 175 fs~rdPis~~~I~n---PviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 175 FSNRDPISKKPIVN---PVISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred hcccCchhhhhhhc---hhhhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 45578876655532 3333349999999999998875 345886443
No 187
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=44.29 E-value=22 Score=25.34 Aligned_cols=43 Identities=21% Similarity=0.495 Sum_probs=25.9
Q ss_pred cccccccccccCCCceeecCCCc-CcccHHhHHHHHh-CCCCCcc
Q 038517 60 AICAVCLDGVHKGERSRNFSICK-HVFHARCIDLWLV-RRLTCPT 102 (112)
Q Consensus 60 ~~C~IC~~~~~~~~~~~~~~~C~-H~fh~~Ci~~w~~-~~~~CP~ 102 (112)
..|.||+|-.-+|..-..+..-. =.-|++|+.+|=. -+..||.
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 35889998654443222111122 2468999999975 4677884
No 188
>PRK11827 hypothetical protein; Provisional
Probab=43.90 E-value=7.6 Score=21.14 Aligned_cols=16 Identities=25% Similarity=0.725 Sum_probs=8.5
Q ss_pred HHhCCCCCccccCCCC
Q 038517 93 WLVRRLTCPTCRSPFK 108 (112)
Q Consensus 93 w~~~~~~CP~Cr~~~~ 108 (112)
|+..--.||.|+.++.
T Consensus 4 ~LLeILaCP~ckg~L~ 19 (60)
T PRK11827 4 RLLEIIACPVCNGKLW 19 (60)
T ss_pred HHHhheECCCCCCcCe
Confidence 3334445666666554
No 189
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=41.90 E-value=12 Score=28.24 Aligned_cols=33 Identities=12% Similarity=0.395 Sum_probs=21.5
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHH
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLW 93 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w 93 (112)
..+|+||+-.|........ .|.-..|..|+.+.
T Consensus 74 ~~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecccccchhh--hhccchhhhheecc
Confidence 3579999998865322222 27777788887663
No 190
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=41.15 E-value=21 Score=25.48 Aligned_cols=9 Identities=33% Similarity=0.981 Sum_probs=6.0
Q ss_pred CCCccccCC
Q 038517 98 LTCPTCRSP 106 (112)
Q Consensus 98 ~~CP~Cr~~ 106 (112)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 458888764
No 191
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=41.10 E-value=22 Score=21.15 Aligned_cols=33 Identities=21% Similarity=0.563 Sum_probs=21.9
Q ss_pred CccccccccccccCCCcee-ecCCCcCcccHHhHHH
Q 038517 58 LAAICAVCLDGVHKGERSR-NFSICKHVFHARCIDL 92 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~-~~~~C~H~fh~~Ci~~ 92 (112)
....|.||... .|..+. ..+.|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 36779999987 222221 1223888999999755
No 192
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=40.56 E-value=19 Score=19.51 Aligned_cols=14 Identities=14% Similarity=0.463 Sum_probs=11.2
Q ss_pred CCCCccccCCCCCC
Q 038517 97 RLTCPTCRSPFKME 110 (112)
Q Consensus 97 ~~~CP~Cr~~~~~~ 110 (112)
++-||+|.+.++++
T Consensus 8 H~HC~VCg~aIp~d 21 (64)
T COG4068 8 HRHCVVCGKAIPPD 21 (64)
T ss_pred CccccccCCcCCCc
Confidence 45699999988876
No 193
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=40.32 E-value=26 Score=22.27 Aligned_cols=12 Identities=33% Similarity=0.966 Sum_probs=9.5
Q ss_pred CCCccccCCCCC
Q 038517 98 LTCPTCRSPFKM 109 (112)
Q Consensus 98 ~~CP~Cr~~~~~ 109 (112)
..||.|..++..
T Consensus 124 f~Cp~Cg~~l~~ 135 (147)
T smart00531 124 FTCPRCGEELEE 135 (147)
T ss_pred EECCCCCCEEEE
Confidence 679999987744
No 194
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=39.02 E-value=21 Score=17.79 Aligned_cols=20 Identities=25% Similarity=0.763 Sum_probs=12.8
Q ss_pred HHHHHhCCCCCccccCCCCC
Q 038517 90 IDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 90 i~~w~~~~~~CP~Cr~~~~~ 109 (112)
+..|-.-...||.|..++..
T Consensus 10 L~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 10 LQGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HHhHhHhcCccCCCCCeeEE
Confidence 34455557788888766543
No 195
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=37.62 E-value=10 Score=17.15 Aligned_cols=10 Identities=50% Similarity=1.132 Sum_probs=5.0
Q ss_pred CCccccCCCC
Q 038517 99 TCPTCRSPFK 108 (112)
Q Consensus 99 ~CP~Cr~~~~ 108 (112)
.||.|.+++.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4899988764
No 196
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=36.67 E-value=19 Score=23.83 Aligned_cols=30 Identities=27% Similarity=0.614 Sum_probs=20.0
Q ss_pred ccccc---ccccCCCceeecCCCcCcccHHhHHH
Q 038517 62 CAVCL---DGVHKGERSRNFSICKHVFHARCIDL 92 (112)
Q Consensus 62 C~IC~---~~~~~~~~~~~~~~C~H~fh~~Ci~~ 92 (112)
|..|. .+...|.-+.-.. |.-.||+.||-.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcCC
Confidence 55663 4555555555566 888899988854
No 197
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=35.19 E-value=17 Score=26.24 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=29.9
Q ss_pred HHHcCCCceecCCCCccccccccccccCCCceeecCCCcCcccHHhHH
Q 038517 44 EKIRGFPWFDCQRNLAAICAVCLDGVHKGERSRNFSICKHVFHARCID 91 (112)
Q Consensus 44 ~~~~~l~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~ 91 (112)
+.+....++.++-.+-..|.||...-.+.+.+..-- |.--||..|+-
T Consensus 299 elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 299 ELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred HHHhHHhhcchhhcccHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 333444444444447788999999876655444333 88888888853
No 198
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=35.18 E-value=31 Score=24.19 Aligned_cols=23 Identities=17% Similarity=0.349 Sum_probs=17.1
Q ss_pred cHHhHHHHHhCCCCCccccCCCC
Q 038517 86 HARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 86 h~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
...-+..|..+++.||.|..++.
T Consensus 88 ~a~~l~~w~~~~~fC~~CG~~~~ 110 (256)
T PRK00241 88 RAVQLAEFYRSHRFCGYCGHPMH 110 (256)
T ss_pred HHHHHHHHhhcCccccccCCCCe
Confidence 34457778888888998888764
No 199
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.98 E-value=11 Score=27.24 Aligned_cols=46 Identities=24% Similarity=0.494 Sum_probs=34.4
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSP 106 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~ 106 (112)
....|-||...+.. ..+...|.|.|+..|...|....+.||.|+.-
T Consensus 104 ~~~~~~~~~g~l~v---pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 104 DHDICYICYGKLTV---PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred CccceeeeeeeEEe---cccccCceeeeeecCCchhhhhhhccchhhcC
Confidence 45678888877642 22222289999999999999999999998763
No 200
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=34.88 E-value=6.7 Score=17.31 Aligned_cols=10 Identities=30% Similarity=0.856 Sum_probs=5.1
Q ss_pred CCCCccccCC
Q 038517 97 RLTCPTCRSP 106 (112)
Q Consensus 97 ~~~CP~Cr~~ 106 (112)
.+.||.|-++
T Consensus 16 ~~fC~~CG~~ 25 (26)
T PF13248_consen 16 AKFCPNCGAK 25 (26)
T ss_pred cccChhhCCC
Confidence 3446666543
No 201
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=34.45 E-value=28 Score=21.29 Aligned_cols=25 Identities=12% Similarity=0.158 Sum_probs=14.3
Q ss_pred ccccccccccCC-CceeecCCCcCcc
Q 038517 61 ICAVCLDGVHKG-ERSRNFSICKHVF 85 (112)
Q Consensus 61 ~C~IC~~~~~~~-~~~~~~~~C~H~f 85 (112)
.||-|-.+|.-. ......|.|+|.+
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred cCCcCCCcceEecCCeeECccccccc
Confidence 488888776421 2334455577743
No 202
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=34.43 E-value=17 Score=23.06 Aligned_cols=21 Identities=33% Similarity=0.755 Sum_probs=15.8
Q ss_pred CCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 79 SICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 79 ~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
++|||+|+-. +..||.|.++.
T Consensus 33 ~~CG~v~~PP--------r~~Cp~C~~~~ 53 (140)
T COG1545 33 KKCGRVYFPP--------RAYCPKCGSET 53 (140)
T ss_pred CCCCeEEcCC--------cccCCCCCCCC
Confidence 4599988863 56699998874
No 203
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=33.98 E-value=24 Score=17.73 Aligned_cols=12 Identities=42% Similarity=1.143 Sum_probs=7.9
Q ss_pred CCCCccccCCCC
Q 038517 97 RLTCPTCRSPFK 108 (112)
Q Consensus 97 ~~~CP~Cr~~~~ 108 (112)
.+.||+|..++.
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 456788776654
No 204
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=33.73 E-value=10 Score=20.08 Aligned_cols=9 Identities=44% Similarity=1.176 Sum_probs=3.5
Q ss_pred CCccccCCC
Q 038517 99 TCPTCRSPF 107 (112)
Q Consensus 99 ~CP~Cr~~~ 107 (112)
+||.|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 477776544
No 205
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=33.62 E-value=25 Score=25.58 Aligned_cols=46 Identities=20% Similarity=0.447 Sum_probs=27.4
Q ss_pred CccccccccccccCCCceeec-CCC--cCcccHHhHHHHHhCCCCCccccC
Q 038517 58 LAAICAVCLDGVHKGERSRNF-SIC--KHVFHARCIDLWLVRRLTCPTCRS 105 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~-~~C--~H~fh~~Ci~~w~~~~~~CP~Cr~ 105 (112)
....||+|=..-..+ ++.. ..= .+.+|.-|-.+|--.+..||.|..
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 457899998753111 1110 001 144556677788777888999975
No 206
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=33.46 E-value=15 Score=17.98 Aligned_cols=9 Identities=33% Similarity=1.243 Sum_probs=5.7
Q ss_pred CccccCCCC
Q 038517 100 CPTCRSPFK 108 (112)
Q Consensus 100 CP~Cr~~~~ 108 (112)
||.|+..+.
T Consensus 2 CP~C~~~l~ 10 (41)
T PF13453_consen 2 CPRCGTELE 10 (41)
T ss_pred cCCCCcccc
Confidence 777776543
No 207
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=33.00 E-value=33 Score=17.38 Aligned_cols=33 Identities=24% Similarity=0.444 Sum_probs=21.5
Q ss_pred ccccccccccc--cCCCceeecCCCcCcccHHhHHH
Q 038517 59 AAICAVCLDGV--HKGERSRNFSICKHVFHARCIDL 92 (112)
Q Consensus 59 ~~~C~IC~~~~--~~~~~~~~~~~C~H~fh~~Ci~~ 92 (112)
...|.+|-+.+ ...+...-.. |+-..|+.|+..
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 45699998887 3334444455 999999999753
No 208
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=32.59 E-value=44 Score=20.19 Aligned_cols=33 Identities=15% Similarity=0.194 Sum_probs=25.5
Q ss_pred ccccccccccCCCceeecCCCcCcccHHhHHHHHh
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLV 95 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~ 95 (112)
.|.||-.++-.|+.-..+.. -..|..|+.+=..
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 59999999988887766653 4589999877543
No 209
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=32.51 E-value=26 Score=24.47 Aligned_cols=12 Identities=42% Similarity=0.946 Sum_probs=8.8
Q ss_pred Cccccccccccc
Q 038517 58 LAAICAVCLDGV 69 (112)
Q Consensus 58 ~~~~C~IC~~~~ 69 (112)
.+..|++|+..|
T Consensus 259 ~GfvCsVCLsvf 270 (296)
T COG5242 259 LGFVCSVCLSVF 270 (296)
T ss_pred Eeeehhhhheee
Confidence 567788888766
No 210
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=32.36 E-value=36 Score=15.38 Aligned_cols=28 Identities=29% Similarity=0.517 Sum_probs=15.7
Q ss_pred ccccccccccCCCceeecCCCcCcccHHh
Q 038517 61 ICAVCLDGVHKGERSRNFSICKHVFHARC 89 (112)
Q Consensus 61 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~C 89 (112)
.|.+|.+...... ...-..|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4788877764432 222233666677665
No 211
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=32.35 E-value=11 Score=27.14 Aligned_cols=40 Identities=23% Similarity=0.684 Sum_probs=23.3
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
-+..|.-|.+-+...+.++.- =.|+||..|+. |-+|++.+
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L 130 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQL 130 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhccc
Confidence 344566666665443444332 56788887764 66666544
No 212
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=32.30 E-value=29 Score=19.71 Aligned_cols=33 Identities=21% Similarity=0.446 Sum_probs=22.1
Q ss_pred CccccccccccccCCCce-eecCCCcCcccHHhHHH
Q 038517 58 LAAICAVCLDGVHKGERS-RNFSICKHVFHARCIDL 92 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~-~~~~~C~H~fh~~Ci~~ 92 (112)
....|.+|-... |-.+ -..+.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 355799999762 3322 22344999999999754
No 213
>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=32.28 E-value=21 Score=23.32 Aligned_cols=26 Identities=23% Similarity=0.689 Sum_probs=18.0
Q ss_pred CcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
=.+.||.+|..+-. ..||.|..++.-
T Consensus 26 ~~~~fC~kCG~~tI---~~Cp~C~~~IrG 51 (158)
T PF10083_consen 26 LREKFCSKCGAKTI---TSCPNCSTPIRG 51 (158)
T ss_pred HHHHHHHHhhHHHH---HHCcCCCCCCCC
Confidence 34668888876543 458999887754
No 214
>PRK10220 hypothetical protein; Provisional
Probab=31.85 E-value=41 Score=20.65 Aligned_cols=25 Identities=16% Similarity=0.287 Sum_probs=14.2
Q ss_pred ccccccccccCC-CceeecCCCcCcc
Q 038517 61 ICAVCLDGVHKG-ERSRNFSICKHVF 85 (112)
Q Consensus 61 ~C~IC~~~~~~~-~~~~~~~~C~H~f 85 (112)
.||-|-.+|.-. ......|.|+|.|
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcC
Confidence 488888766422 2334455577743
No 215
>PF11120 DUF2636: Protein of unknown function (DUF2636); InterPro: IPR019995 Members of this protein family are found invariably together with genes of bacterial cellulose biosynthesis, and are presumed to be involved in the process []. Members average about 63 amino acids in length and are not uncharacterised. The gene has been designated both YhjT and BcsF (bacterial cellulose synthesis F).
Probab=30.43 E-value=40 Score=18.46 Aligned_cols=14 Identities=43% Similarity=0.603 Sum_probs=11.4
Q ss_pred ChhhHHHHHHHhhc
Q 038517 1 MAISDLFQMLSSSA 14 (112)
Q Consensus 1 ~~isd~~~~l~~~~ 14 (112)
|.++|+++.+...+
T Consensus 1 M~i~DiiQii~l~A 14 (62)
T PF11120_consen 1 MNISDIIQIIILCA 14 (62)
T ss_pred CCHHHHHHHHHHHH
Confidence 88999999887653
No 216
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=30.10 E-value=15 Score=18.38 Aligned_cols=13 Identities=23% Similarity=0.667 Sum_probs=8.9
Q ss_pred CCCCccccCCCCC
Q 038517 97 RLTCPTCRSPFKM 109 (112)
Q Consensus 97 ~~~CP~Cr~~~~~ 109 (112)
...||.|..++..
T Consensus 21 ~~~Cp~CG~~~~~ 33 (46)
T PRK00398 21 GVRCPYCGYRILF 33 (46)
T ss_pred ceECCCCCCeEEE
Confidence 3468888876653
No 217
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=29.90 E-value=31 Score=27.70 Aligned_cols=25 Identities=32% Similarity=1.039 Sum_probs=20.0
Q ss_pred CcCcccHHhHHHHHhC-----CCCCccccC
Q 038517 81 CKHVFHARCIDLWLVR-----RLTCPTCRS 105 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~-----~~~CP~Cr~ 105 (112)
|+-.+|..|+.-|+.. .-.||-||.
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 8889999999999964 235888864
No 218
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=29.44 E-value=29 Score=24.37 Aligned_cols=48 Identities=23% Similarity=0.297 Sum_probs=32.1
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhC--CCCCcc--ccCCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVR--RLTCPT--CRSPFK 108 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--~~~CP~--Cr~~~~ 108 (112)
.+..|+|-+..+. .+..-.+|+|.|-.+-|...++. -..||. |.+.+.
T Consensus 188 ~~nrCpitl~p~~---~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~ 239 (275)
T COG5627 188 LSNRCPITLNPDF---YPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEV 239 (275)
T ss_pred hcccCCcccCcch---hHHHHhhhcccccHHHHHHHhcCCceeecchhhcchhee
Confidence 4567998776542 24444459999999999999884 345764 444333
No 219
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=28.26 E-value=5.1 Score=21.13 Aligned_cols=18 Identities=22% Similarity=0.597 Sum_probs=12.8
Q ss_pred eecCCCcCcccHHhHHHH
Q 038517 76 RNFSICKHVFHARCIDLW 93 (112)
Q Consensus 76 ~~~~~C~H~fh~~Ci~~w 93 (112)
+.-+.|++.|+..|-.+|
T Consensus 41 ~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 41 VTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp CCTTSCCSEECSSSTSES
T ss_pred eECCCCCCcCccccCccc
Confidence 344458899988887666
No 220
>PF12773 DZR: Double zinc ribbon
Probab=28.04 E-value=64 Score=16.12 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=8.1
Q ss_pred CCCCccccCCCCC
Q 038517 97 RLTCPTCRSPFKM 109 (112)
Q Consensus 97 ~~~CP~Cr~~~~~ 109 (112)
...||.|.+.+..
T Consensus 29 ~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 29 KKICPNCGAENPP 41 (50)
T ss_pred CCCCcCCcCCCcC
Confidence 3457777776543
No 221
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=27.61 E-value=32 Score=26.50 Aligned_cols=14 Identities=29% Similarity=0.392 Sum_probs=9.4
Q ss_pred CccccccccccccC
Q 038517 58 LAAICAVCLDGVHK 71 (112)
Q Consensus 58 ~~~~C~IC~~~~~~ 71 (112)
+...|+-||+++..
T Consensus 25 ~~~yCp~CL~~~p~ 38 (483)
T PF05502_consen 25 DSYYCPNCLFEVPS 38 (483)
T ss_pred ceeECccccccCCh
Confidence 44568888877754
No 222
>PF15353 HECA: Headcase protein family homologue
Probab=27.42 E-value=44 Score=20.39 Aligned_cols=15 Identities=20% Similarity=0.605 Sum_probs=12.5
Q ss_pred CcCcccHHhHHHHHh
Q 038517 81 CKHVFHARCIDLWLV 95 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~ 95 (112)
.++..|++|+..|=.
T Consensus 40 ~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 40 FGQYMHRECFEKWED 54 (107)
T ss_pred CCCchHHHHHHHHHH
Confidence 568899999999953
No 223
>PRK00420 hypothetical protein; Validated
Probab=27.13 E-value=52 Score=20.25 Aligned_cols=12 Identities=17% Similarity=0.564 Sum_probs=7.3
Q ss_pred CCCCccccCCCC
Q 038517 97 RLTCPTCRSPFK 108 (112)
Q Consensus 97 ~~~CP~Cr~~~~ 108 (112)
...||.|...+.
T Consensus 40 ~~~Cp~Cg~~~~ 51 (112)
T PRK00420 40 EVVCPVHGKVYI 51 (112)
T ss_pred ceECCCCCCeee
Confidence 345887776543
No 224
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=27.11 E-value=26 Score=19.06 Aligned_cols=10 Identities=40% Similarity=1.404 Sum_probs=7.2
Q ss_pred CCccccCCCC
Q 038517 99 TCPTCRSPFK 108 (112)
Q Consensus 99 ~CP~Cr~~~~ 108 (112)
.||.||.++.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 4888887754
No 225
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=27.10 E-value=9.7 Score=16.66 Aligned_cols=7 Identities=43% Similarity=1.341 Sum_probs=3.1
Q ss_pred CccccCC
Q 038517 100 CPTCRSP 106 (112)
Q Consensus 100 CP~Cr~~ 106 (112)
||.|.+.
T Consensus 5 C~~CgR~ 11 (25)
T PF13913_consen 5 CPICGRK 11 (25)
T ss_pred CCCCCCE
Confidence 4444443
No 226
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=27.05 E-value=23 Score=30.97 Aligned_cols=49 Identities=27% Similarity=0.497 Sum_probs=34.9
Q ss_pred CccccccccccccCCCceeecCCCcCcccHHhHHHHHhCC----CCCccccCCC
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRR----LTCPTCRSPF 107 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~----~~CP~Cr~~~ 107 (112)
....|.+|.........+... .|.-.||..|+..-+.+- =.||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 667899999886542333323 388889999999877642 3699998753
No 227
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=26.59 E-value=46 Score=18.10 Aligned_cols=16 Identities=31% Similarity=0.626 Sum_probs=12.0
Q ss_pred CCCceeecCCCcCcccH
Q 038517 71 KGERSRNFSICKHVFHA 87 (112)
Q Consensus 71 ~~~~~~~~~~C~H~fh~ 87 (112)
+++-+..|. |||.=|-
T Consensus 8 e~hWVA~L~-CGH~QHv 23 (61)
T PF12088_consen 8 EGHWVAELS-CGHTQHV 23 (61)
T ss_pred cCCEEEEec-ccccccc
Confidence 556788898 9987653
No 228
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=26.24 E-value=43 Score=25.79 Aligned_cols=49 Identities=22% Similarity=0.558 Sum_probs=31.4
Q ss_pred Cccccccccc-cccCCCceeecCCCcCcccHHhHHHHHhC--------CCCCccccCC
Q 038517 58 LAAICAVCLD-GVHKGERSRNFSICKHVFHARCIDLWLVR--------RLTCPTCRSP 106 (112)
Q Consensus 58 ~~~~C~IC~~-~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~--------~~~CP~Cr~~ 106 (112)
....|.+|.. ..-..+++.....|+-.||..|.....+. .-.|-+|...
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 4455999995 33344455555558899999997665431 1248888653
No 229
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=25.48 E-value=34 Score=15.80 Aligned_cols=8 Identities=25% Similarity=0.804 Sum_probs=1.9
Q ss_pred cccccccc
Q 038517 62 CAVCLDGV 69 (112)
Q Consensus 62 C~IC~~~~ 69 (112)
|+.|-.++
T Consensus 5 Cp~C~se~ 12 (30)
T PF08274_consen 5 CPLCGSEY 12 (30)
T ss_dssp -TTT----
T ss_pred CCCCCCcc
Confidence 66666544
No 230
>PRK11595 DNA utilization protein GntX; Provisional
Probab=24.81 E-value=85 Score=21.38 Aligned_cols=22 Identities=23% Similarity=0.575 Sum_probs=9.6
Q ss_pred ccHHhHHHHHhCCCCCccccCC
Q 038517 85 FHARCIDLWLVRRLTCPTCRSP 106 (112)
Q Consensus 85 fh~~Ci~~w~~~~~~CP~Cr~~ 106 (112)
+|..|...|-.-...||.|-.+
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~ 43 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLP 43 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCc
Confidence 3444544432212345555544
No 231
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=24.78 E-value=72 Score=19.18 Aligned_cols=28 Identities=25% Similarity=0.414 Sum_probs=16.4
Q ss_pred CcCcccHHhHHHHHhCCCCCccccCCCCC
Q 038517 81 CKHVFHARCIDLWLVRRLTCPTCRSPFKM 109 (112)
Q Consensus 81 C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~ 109 (112)
||+--|.--+.++. .-.+||.|+.++.+
T Consensus 65 CGvC~~~LT~~EY~-~~~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYG-MCGSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHh-hcCCCCCcCCCCCc
Confidence 66544443344432 24569999988754
No 232
>PF05353 Atracotoxin: Delta Atracotoxin; InterPro: IPR008017 Delta atracotoxin produces potentially fatal neurotoxic symptoms in primates by slowing the inactivation of voltage-gated sodium channels []. The structure of atracotoxin comprises a core beta region containing a triple-stranded a thumb-like extension protruding from the beta region and a C-terminal helix. The beta region contains a cystine knot motif, a feature seen in other neurotoxic polypeptides [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2ROO_A 1VTX_A 1QDP_A.
Probab=24.09 E-value=3.7 Score=20.37 Aligned_cols=15 Identities=27% Similarity=0.871 Sum_probs=10.6
Q ss_pred HHhHHHHHhCCCCCc
Q 038517 87 ARCIDLWLVRRLTCP 101 (112)
Q Consensus 87 ~~Ci~~w~~~~~~CP 101 (112)
..||..|.+.+.+|.
T Consensus 18 mkCiyAWYnqq~sCq 32 (42)
T PF05353_consen 18 MKCIYAWYNQQSSCQ 32 (42)
T ss_dssp EEEEE-SSGSTEEEE
T ss_pred HHHHHHHHccCCchH
Confidence 358889998887764
No 233
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=23.86 E-value=38 Score=22.47 Aligned_cols=15 Identities=27% Similarity=0.603 Sum_probs=11.2
Q ss_pred CCCCccccCCCCCCC
Q 038517 97 RLTCPTCRSPFKMEP 111 (112)
Q Consensus 97 ~~~CP~Cr~~~~~~~ 111 (112)
...||.|++.++.++
T Consensus 169 ~~~c~~~~~~~~~~~ 183 (187)
T TIGR01367 169 SHECPLCLAGIPAEK 183 (187)
T ss_pred cccCChhhcCCCCcC
Confidence 345999999887653
No 234
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=22.90 E-value=59 Score=21.59 Aligned_cols=15 Identities=40% Similarity=0.917 Sum_probs=12.4
Q ss_pred CCCCCccccCCCCCC
Q 038517 96 RRLTCPTCRSPFKME 110 (112)
Q Consensus 96 ~~~~CP~Cr~~~~~~ 110 (112)
.+..||.|..++..+
T Consensus 153 GRP~CPlCg~PlDP~ 167 (171)
T PF11290_consen 153 GRPPCPLCGEPLDPE 167 (171)
T ss_pred CCCCCCCCCCCCCCC
Confidence 467899999998765
No 235
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=22.83 E-value=1.6e+02 Score=19.53 Aligned_cols=16 Identities=19% Similarity=0.594 Sum_probs=11.9
Q ss_pred HhCCCCCccccCCCCC
Q 038517 94 LVRRLTCPTCRSPFKM 109 (112)
Q Consensus 94 ~~~~~~CP~Cr~~~~~ 109 (112)
+.....||.|..++..
T Consensus 133 ~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 133 MEYGFRCPQCGEMLEE 148 (178)
T ss_pred hhcCCcCCCCCCCCee
Confidence 3457789999987754
No 236
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=22.28 E-value=90 Score=14.60 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=4.4
Q ss_pred ccccccccc
Q 038517 61 ICAVCLDGV 69 (112)
Q Consensus 61 ~C~IC~~~~ 69 (112)
.|+-|-..|
T Consensus 4 ~CP~C~~~~ 12 (38)
T TIGR02098 4 QCPNCKTSF 12 (38)
T ss_pred ECCCCCCEE
Confidence 355555544
No 237
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=21.97 E-value=46 Score=17.26 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=7.3
Q ss_pred CCCCccccCC
Q 038517 97 RLTCPTCRSP 106 (112)
Q Consensus 97 ~~~CP~Cr~~ 106 (112)
.-.||+|..+
T Consensus 34 ~w~CP~C~a~ 43 (50)
T cd00730 34 DWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCc
Confidence 4579999763
No 238
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=21.95 E-value=70 Score=15.42 Aligned_cols=33 Identities=24% Similarity=0.462 Sum_probs=22.0
Q ss_pred ccccccccccccCCC-ceeecCCCcCcccHHhHHH
Q 038517 59 AAICAVCLDGVHKGE-RSRNFSICKHVFHARCIDL 92 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~ 92 (112)
...|.+|.+.+.... ...-.. |+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~-C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSW-CKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCC-CCchHHHHHHhh
Confidence 445999988775432 333333 888899999865
No 239
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=21.82 E-value=76 Score=24.41 Aligned_cols=47 Identities=23% Similarity=0.405 Sum_probs=36.6
Q ss_pred cccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCCCCC
Q 038517 62 CAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFKMEP 111 (112)
Q Consensus 62 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 111 (112)
|+|--|.- +.+++.|.-||+|-+.-|.+.+....++|+=..++..+.
T Consensus 3 CaISgEvP---~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~ee 49 (506)
T KOG0289|consen 3 CAISGEVP---EEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEE 49 (506)
T ss_pred ecccCCCC---CCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHH
Confidence 55544432 456666769999999999999999999999888887653
No 240
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.73 E-value=67 Score=22.52 Aligned_cols=28 Identities=18% Similarity=0.351 Sum_probs=18.6
Q ss_pred CccccccccccccCCCceeecCCCcCcccHH
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICKHVFHAR 88 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~ 88 (112)
....|+.|-. +. ......|.||+.+|++
T Consensus 308 tS~~C~~cg~-~~--~r~~~C~~cg~~~~rD 335 (364)
T COG0675 308 TSKTCPCCGH-LS--GRLFKCPRCGFVHDRD 335 (364)
T ss_pred CcccccccCC-cc--ceeEECCCCCCeehhh
Confidence 4467988887 22 3344455599988887
No 241
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=21.67 E-value=30 Score=19.03 Aligned_cols=10 Identities=40% Similarity=0.943 Sum_probs=7.3
Q ss_pred CCCCccccCC
Q 038517 97 RLTCPTCRSP 106 (112)
Q Consensus 97 ~~~CP~Cr~~ 106 (112)
...||+|..+
T Consensus 18 ~e~CP~Cgs~ 27 (64)
T COG2093 18 TEICPVCGST 27 (64)
T ss_pred CccCCCCCCc
Confidence 3459999876
No 242
>PF10170 C6_DPF: Cysteine-rich domain; InterPro: IPR018785 This entry represents the N-terminal approximately 100 amino acids of a family of proteins found in a range of organisms, including human, chicken and Drosophila [, , ]. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Probab=21.59 E-value=97 Score=18.57 Aligned_cols=32 Identities=31% Similarity=0.571 Sum_probs=22.3
Q ss_pred CccccccccccccCCCceeecCCCc----CcccHHhHHHHHh
Q 038517 58 LAAICAVCLDGVHKGERSRNFSICK----HVFHARCIDLWLV 95 (112)
Q Consensus 58 ~~~~C~IC~~~~~~~~~~~~~~~C~----H~fh~~Ci~~w~~ 95 (112)
.+..|++|-...-.+ +.|. -.||..|.+++++
T Consensus 48 LGa~CS~C~~~VC~~------~~CSlFYtkrFC~pC~~~~~~ 83 (97)
T PF10170_consen 48 LGAPCSICGKPVCVG------QDCSLFYTKRFCLPCVKRNLK 83 (97)
T ss_pred ECccccccCCceEcC------CCccEEeeCceeHHHHHHHHH
Confidence 577899988764332 2254 4699999998875
No 243
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=21.41 E-value=45 Score=16.00 Aligned_cols=27 Identities=15% Similarity=0.383 Sum_probs=16.1
Q ss_pred CCCcCcccHHhHHHHHhCCCCCccccCCC
Q 038517 79 SICKHVFHARCIDLWLVRRLTCPTCRSPF 107 (112)
Q Consensus 79 ~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~ 107 (112)
+.||.+||..=- + -+....|..|..++
T Consensus 5 ~~Cg~~Yh~~~~-p-P~~~~~Cd~cg~~L 31 (36)
T PF05191_consen 5 PKCGRIYHIEFN-P-PKVEGVCDNCGGEL 31 (36)
T ss_dssp TTTTEEEETTTB----SSTTBCTTTTEBE
T ss_pred CCCCCccccccC-C-CCCCCccCCCCCee
Confidence 459999995311 0 12356788887654
No 244
>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=21.20 E-value=74 Score=22.09 Aligned_cols=22 Identities=18% Similarity=0.430 Sum_probs=13.1
Q ss_pred ccHHhHHHHHhCCCCCccccCC
Q 038517 85 FHARCIDLWLVRRLTCPTCRSP 106 (112)
Q Consensus 85 fh~~Ci~~w~~~~~~CP~Cr~~ 106 (112)
-|.+|-.+-=.+-..||+|++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 3445544332345789999864
No 245
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=21.11 E-value=61 Score=19.14 Aligned_cols=37 Identities=19% Similarity=0.529 Sum_probs=26.5
Q ss_pred ccccccccccccCCCceeecCCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 59 AAICAVCLDGVHKGERSRNFSICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 59 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
...|.||-..... =||.||..|-. +...|.+|-+.+.
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKIL 80 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeec
Confidence 4579999876421 46778888843 4678999988763
No 246
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=21.11 E-value=41 Score=20.46 Aligned_cols=12 Identities=42% Similarity=1.063 Sum_probs=6.8
Q ss_pred CCccccCCCCCC
Q 038517 99 TCPTCRSPFKME 110 (112)
Q Consensus 99 ~CP~Cr~~~~~~ 110 (112)
.||.|-..+...
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 466666655443
No 247
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=21.08 E-value=61 Score=15.85 Aligned_cols=33 Identities=27% Similarity=0.513 Sum_probs=21.3
Q ss_pred ccccccccccccCC--CceeecCCCcCcccHHhHHH
Q 038517 59 AAICAVCLDGVHKG--ERSRNFSICKHVFHARCIDL 92 (112)
Q Consensus 59 ~~~C~IC~~~~~~~--~~~~~~~~C~H~fh~~Ci~~ 92 (112)
...|.+|.+.+... +...-.. |+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~-C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSW-CKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCC-CCCchhhhhhcc
Confidence 44588888877542 3333334 888888888754
No 248
>TIGR03493 cellullose_BcsF celllulose biosynthesis operon protein BcsF/YhjT. Members of this protein family are found invariably together with genes of bacterial cellulose biosynthesis, and are presumed to be involved in the process. Members average about 63 amino acids in length and are not uncharacterized. The gene has been designated both YhjT and BcsF (bacterial cellulose synthesis F).
Probab=21.01 E-value=78 Score=17.31 Aligned_cols=15 Identities=40% Similarity=0.516 Sum_probs=11.6
Q ss_pred ChhhHHHHHHHhhcC
Q 038517 1 MAISDLFQMLSSSAS 15 (112)
Q Consensus 1 ~~isd~~~~l~~~~~ 15 (112)
|.++|+++.+...+.
T Consensus 1 M~i~DilQli~lcAL 15 (62)
T TIGR03493 1 MNISDILQLVLLCAL 15 (62)
T ss_pred CCHHHHHHHHHHHHH
Confidence 789999988876543
No 249
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=20.80 E-value=54 Score=26.83 Aligned_cols=30 Identities=27% Similarity=0.702 Sum_probs=18.7
Q ss_pred CCCcCcccHHhHHHHHhCCCCCccccCCCC
Q 038517 79 SICKHVFHARCIDLWLVRRLTCPTCRSPFK 108 (112)
Q Consensus 79 ~~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~ 108 (112)
|.|.-.||.+=..--..++.-||.||+...
T Consensus 1048 p~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1048 PSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred chHHhhhccchhhHHHHhcCCCCccccccc
Confidence 335566665544433446778999998654
No 250
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=20.75 E-value=68 Score=21.37 Aligned_cols=15 Identities=33% Similarity=0.866 Sum_probs=12.4
Q ss_pred CCCCCccccCCCCCC
Q 038517 96 RRLTCPTCRSPFKME 110 (112)
Q Consensus 96 ~~~~CP~Cr~~~~~~ 110 (112)
....||.|-.++.++
T Consensus 155 GRP~CPlCg~PldP~ 169 (177)
T TIGR03847 155 GRPPCPLCGRPIDPD 169 (177)
T ss_pred CCCCCCCCCCCCCCC
Confidence 467899999998765
No 251
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=20.53 E-value=1.4e+02 Score=19.31 Aligned_cols=16 Identities=25% Similarity=0.706 Sum_probs=11.5
Q ss_pred HhCCCCCccccCCCCC
Q 038517 94 LVRRLTCPTCRSPFKM 109 (112)
Q Consensus 94 ~~~~~~CP~Cr~~~~~ 109 (112)
+.....||.|..++..
T Consensus 125 ~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 125 MELNFTCPRCGAMLDY 140 (158)
T ss_pred HHcCCcCCCCCCEeee
Confidence 3457789999887643
Done!