Query 040080
Match_columns 192
No_of_seqs 218 out of 1967
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 04:56:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040080hhsearch_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 2.1E-19 4.5E-24 148.9 10.7 77 52-129 204-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 1.1E-16 2.5E-21 95.5 1.8 44 78-122 1-44 (44)
3 COG5243 HRD1 HRD ubiquitin lig 99.5 1.8E-13 3.9E-18 113.1 11.0 53 74-127 284-346 (491)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 1E-13 2.3E-18 91.5 3.7 45 77-122 19-73 (73)
5 PHA02929 N1R/p28-like protein; 99.4 1.2E-13 2.6E-18 110.0 4.4 76 52-127 147-228 (238)
6 KOG0317 Predicted E3 ubiquitin 99.4 5E-13 1.1E-17 107.3 5.0 51 75-129 237-287 (293)
7 COG5540 RING-finger-containing 99.3 4.4E-13 9.5E-18 108.1 3.3 52 75-127 321-373 (374)
8 KOG0823 Predicted E3 ubiquitin 99.3 2.5E-12 5.5E-17 100.5 3.6 58 74-135 44-104 (230)
9 PF12861 zf-Apc11: Anaphase-pr 99.2 1.1E-11 2.3E-16 83.0 3.6 52 77-128 21-84 (85)
10 PLN03208 E3 ubiquitin-protein 99.2 1.9E-11 4.2E-16 93.9 4.5 55 75-133 16-86 (193)
11 PF13920 zf-C3HC4_3: Zinc fing 99.2 2.1E-11 4.6E-16 74.5 2.9 46 77-126 2-48 (50)
12 PF13923 zf-C3HC4_2: Zinc fing 99.1 4.2E-11 9.1E-16 69.4 3.0 39 80-121 1-39 (39)
13 cd00162 RING RING-finger (Real 99.1 5.9E-11 1.3E-15 70.0 3.3 44 79-125 1-45 (45)
14 KOG0320 Predicted E3 ubiquitin 99.1 4.9E-11 1.1E-15 89.7 2.7 54 75-130 129-182 (187)
15 PHA02926 zinc finger-like prot 99.1 6.2E-11 1.3E-15 92.3 2.0 53 75-127 168-231 (242)
16 KOG0802 E3 ubiquitin ligase [P 99.0 1.5E-10 3.3E-15 103.2 2.9 53 75-128 289-343 (543)
17 PF14634 zf-RING_5: zinc-RING 99.0 6E-10 1.3E-14 66.2 3.3 44 79-123 1-44 (44)
18 PF15227 zf-C3HC4_4: zinc fing 98.9 9E-10 1.9E-14 64.8 3.0 38 80-121 1-42 (42)
19 COG5194 APC11 Component of SCF 98.9 1.1E-09 2.5E-14 71.5 3.3 33 97-129 52-84 (88)
20 PF00097 zf-C3HC4: Zinc finger 98.9 1.4E-09 3E-14 63.5 3.3 39 80-121 1-41 (41)
21 KOG0828 Predicted E3 ubiquitin 98.9 1.8E-09 3.9E-14 92.4 5.2 52 75-127 569-635 (636)
22 smart00504 Ubox Modified RING 98.9 1.8E-09 4E-14 68.8 3.9 48 78-129 2-49 (63)
23 smart00184 RING Ring finger. E 98.8 3E-09 6.5E-14 60.4 3.1 38 80-121 1-39 (39)
24 KOG1493 Anaphase-promoting com 98.8 1.1E-09 2.3E-14 71.0 -0.1 51 77-127 20-82 (84)
25 TIGR00599 rad18 DNA repair pro 98.7 6.9E-09 1.5E-13 88.5 3.6 50 75-128 24-73 (397)
26 COG5574 PEX10 RING-finger-cont 98.7 7.9E-09 1.7E-13 82.4 2.4 51 75-129 213-265 (271)
27 KOG1734 Predicted RING-contain 98.6 1.2E-08 2.5E-13 81.6 1.0 54 75-129 222-284 (328)
28 KOG2930 SCF ubiquitin ligase, 98.6 3.6E-08 7.7E-13 67.7 2.7 56 76-131 45-113 (114)
29 KOG2164 Predicted E3 ubiquitin 98.6 3.6E-08 7.9E-13 85.1 3.3 52 77-132 186-242 (513)
30 KOG0287 Postreplication repair 98.5 3.3E-08 7.2E-13 81.3 1.7 49 77-129 23-71 (442)
31 COG5219 Uncharacterized conser 98.5 1.6E-08 3.4E-13 92.5 -0.6 54 73-126 1465-1523(1525)
32 smart00744 RINGv The RING-vari 98.5 1.5E-07 3.3E-12 57.0 2.9 42 79-122 1-49 (49)
33 PF11793 FANCL_C: FANCL C-term 98.4 4.7E-08 1E-12 63.9 0.3 51 77-127 2-67 (70)
34 TIGR00570 cdk7 CDK-activating 98.4 2.4E-07 5.2E-12 76.3 4.4 54 77-131 3-59 (309)
35 PF13445 zf-RING_UBOX: RING-ty 98.4 1.8E-07 3.9E-12 55.1 2.4 34 80-115 1-35 (43)
36 PF04564 U-box: U-box domain; 98.4 2.1E-07 4.6E-12 61.3 2.8 50 76-129 3-53 (73)
37 COG5432 RAD18 RING-finger-cont 98.4 1.8E-07 3.9E-12 75.7 2.2 49 77-129 25-73 (391)
38 KOG0827 Predicted E3 ubiquitin 98.2 5E-07 1.1E-11 75.7 2.0 54 78-131 5-61 (465)
39 KOG0804 Cytoplasmic Zn-finger 98.2 4.5E-07 9.7E-12 77.2 1.7 49 75-126 173-222 (493)
40 KOG4172 Predicted E3 ubiquitin 98.2 3.4E-07 7.4E-12 55.6 0.6 46 77-126 7-54 (62)
41 KOG0311 Predicted E3 ubiquitin 98.2 2.1E-07 4.5E-12 77.1 -0.9 56 75-133 41-97 (381)
42 KOG4265 Predicted E3 ubiquitin 98.2 9.9E-07 2.1E-11 73.4 2.9 49 75-127 288-337 (349)
43 PF14835 zf-RING_6: zf-RING of 98.1 5.8E-07 1.2E-11 56.8 0.2 47 78-129 8-54 (65)
44 KOG2177 Predicted E3 ubiquitin 98.1 1.1E-06 2.4E-11 71.5 1.8 45 75-123 11-55 (386)
45 KOG1645 RING-finger-containing 98.0 4.3E-06 9.3E-11 70.6 2.6 54 76-129 3-59 (463)
46 KOG1785 Tyrosine kinase negati 98.0 3E-06 6.4E-11 71.4 1.5 46 78-127 370-417 (563)
47 KOG0824 Predicted E3 ubiquitin 97.9 5.6E-06 1.2E-10 67.4 2.5 51 77-131 7-58 (324)
48 KOG0825 PHD Zn-finger protein 97.9 1.9E-06 4.2E-11 77.8 -0.4 51 77-128 123-173 (1134)
49 KOG1039 Predicted E3 ubiquitin 97.9 6.6E-06 1.4E-10 69.1 2.2 53 75-127 159-222 (344)
50 KOG0978 E3 ubiquitin ligase in 97.8 4.5E-06 9.8E-11 75.4 0.5 50 77-130 643-693 (698)
51 KOG1428 Inhibitor of type V ad 97.5 2.8E-05 6E-10 74.4 0.8 82 61-143 3469-3561(3738)
52 KOG4445 Uncharacterized conser 97.5 4.2E-05 9E-10 62.4 1.7 53 75-128 113-188 (368)
53 PF11789 zf-Nse: Zinc-finger o 97.5 0.00013 2.9E-09 45.5 3.1 42 76-120 10-53 (57)
54 KOG0826 Predicted E3 ubiquitin 97.5 0.0003 6.5E-09 58.1 5.9 48 75-125 298-345 (357)
55 KOG4159 Predicted E3 ubiquitin 97.4 7.5E-05 1.6E-09 64.1 2.3 49 75-127 82-130 (398)
56 KOG0297 TNF receptor-associate 97.4 0.0001 2.2E-09 63.5 2.2 52 75-129 19-70 (391)
57 KOG3970 Predicted E3 ubiquitin 97.3 0.00022 4.8E-09 56.0 3.0 50 77-128 50-107 (299)
58 KOG0801 Predicted E3 ubiquitin 97.3 8.3E-05 1.8E-09 55.5 0.5 41 64-105 164-204 (205)
59 PF05883 Baculo_RING: Baculovi 97.2 0.00011 2.3E-09 53.5 1.0 38 77-115 26-69 (134)
60 COG5152 Uncharacterized conser 97.2 0.00012 2.6E-09 56.4 1.2 46 76-125 195-240 (259)
61 KOG1941 Acetylcholine receptor 97.2 0.00011 2.4E-09 62.0 0.9 46 77-123 365-413 (518)
62 KOG4692 Predicted E3 ubiquitin 97.2 0.00035 7.7E-09 58.3 3.2 49 75-127 420-468 (489)
63 KOG3039 Uncharacterized conser 97.0 0.001 2.2E-08 53.1 4.5 57 77-133 221-277 (303)
64 KOG2660 Locus-specific chromos 97.0 0.00014 3E-09 60.1 -0.4 50 75-127 13-62 (331)
65 PF14570 zf-RING_4: RING/Ubox 96.8 0.0012 2.6E-08 39.5 2.6 45 80-125 1-47 (48)
66 KOG1002 Nucleotide excision re 96.8 0.00044 9.5E-09 60.6 0.9 50 75-128 534-588 (791)
67 KOG4275 Predicted E3 ubiquitin 96.8 0.00027 5.9E-09 57.5 -0.4 43 77-127 300-343 (350)
68 PHA02825 LAP/PHD finger-like p 96.8 0.0019 4.1E-08 48.3 3.9 49 75-128 6-61 (162)
69 KOG1571 Predicted E3 ubiquitin 96.7 0.00027 5.8E-09 59.1 -0.7 46 74-126 302-347 (355)
70 PHA02862 5L protein; Provision 96.7 0.0013 2.7E-08 48.4 2.7 46 78-128 3-55 (156)
71 KOG1814 Predicted E3 ubiquitin 96.7 0.00077 1.7E-08 57.3 1.6 48 75-123 182-237 (445)
72 KOG1813 Predicted E3 ubiquitin 96.6 0.00085 1.8E-08 54.8 1.1 48 75-126 239-286 (313)
73 KOG2879 Predicted E3 ubiquitin 96.6 0.0024 5.2E-08 51.7 3.6 51 74-127 236-288 (298)
74 COG5236 Uncharacterized conser 96.5 0.0031 6.8E-08 52.7 4.1 55 69-127 53-109 (493)
75 PF10367 Vps39_2: Vacuolar sor 96.5 0.0014 3.1E-08 45.7 1.6 33 75-109 76-108 (109)
76 KOG4739 Uncharacterized protei 96.5 0.0015 3.2E-08 52.0 1.7 46 80-129 6-51 (233)
77 PF08746 zf-RING-like: RING-li 96.4 0.0017 3.7E-08 38.1 1.3 41 80-121 1-43 (43)
78 KOG1952 Transcription factor N 96.4 0.0016 3.5E-08 59.9 1.7 50 75-124 189-245 (950)
79 PF12906 RINGv: RING-variant d 96.2 0.0041 8.9E-08 37.2 2.4 40 80-121 1-47 (47)
80 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0056 1.2E-07 50.0 3.9 57 74-131 110-166 (260)
81 PHA03096 p28-like protein; Pro 96.2 0.0023 5E-08 52.8 1.6 46 78-123 179-231 (284)
82 COG5175 MOT2 Transcriptional r 95.9 0.0044 9.6E-08 51.7 1.8 53 77-129 14-67 (480)
83 KOG3268 Predicted E3 ubiquitin 95.9 0.0061 1.3E-07 46.4 2.4 32 98-129 189-231 (234)
84 KOG0827 Predicted E3 ubiquitin 95.5 0.00075 1.6E-08 57.0 -4.2 52 77-129 196-248 (465)
85 PF02439 Adeno_E3_CR2: Adenovi 95.4 0.037 8E-07 31.3 3.9 29 3-31 6-34 (38)
86 KOG2114 Vacuolar assembly/sort 95.3 0.009 2E-07 55.2 1.7 43 77-125 840-882 (933)
87 COG5222 Uncharacterized conser 95.0 0.021 4.5E-07 47.0 3.0 43 78-123 275-318 (427)
88 PF14447 Prok-RING_4: Prokaryo 95.0 0.011 2.4E-07 36.3 1.0 44 79-128 9-52 (55)
89 KOG4185 Predicted E3 ubiquitin 94.7 0.022 4.8E-07 47.1 2.4 48 78-125 4-54 (296)
90 PF07800 DUF1644: Protein of u 94.6 0.033 7.1E-07 41.7 2.9 34 77-113 2-47 (162)
91 KOG1001 Helicase-like transcri 94.4 0.015 3.2E-07 53.5 0.7 48 78-130 455-504 (674)
92 PF10272 Tmpp129: Putative tra 94.3 0.03 6.5E-07 47.6 2.4 30 99-128 311-353 (358)
93 KOG3800 Predicted E3 ubiquitin 94.2 0.041 8.9E-07 45.0 2.9 53 79-131 2-56 (300)
94 PF14446 Prok-RING_1: Prokaryo 94.2 0.082 1.8E-06 32.4 3.5 45 76-124 4-50 (54)
95 PF05290 Baculo_IE-1: Baculovi 94.1 0.037 8.1E-07 40.2 2.2 54 76-129 79-135 (140)
96 KOG1940 Zn-finger protein [Gen 94.0 0.032 7E-07 45.7 1.9 46 77-123 158-204 (276)
97 KOG3002 Zn finger protein [Gen 93.8 0.043 9.4E-07 45.6 2.4 47 75-127 46-92 (299)
98 KOG0309 Conserved WD40 repeat- 93.8 0.033 7.2E-07 51.1 1.8 39 80-120 1031-1069(1081)
99 KOG2034 Vacuolar sorting prote 93.7 0.032 6.9E-07 52.0 1.6 36 75-112 815-850 (911)
100 KOG2817 Predicted E3 ubiquitin 93.7 0.051 1.1E-06 46.3 2.6 48 75-123 332-382 (394)
101 PF12273 RCR: Chitin synthesis 93.4 0.08 1.7E-06 38.5 3.0 13 21-33 17-29 (130)
102 KOG1100 Predicted E3 ubiquitin 93.1 0.043 9.4E-07 43.3 1.2 40 80-127 161-201 (207)
103 KOG0298 DEAD box-containing he 93.0 0.031 6.7E-07 54.0 0.3 46 75-123 1151-1196(1394)
104 KOG3161 Predicted E3 ubiquitin 93.0 0.025 5.5E-07 50.9 -0.2 44 77-123 11-54 (861)
105 KOG2932 E3 ubiquitin ligase in 92.9 0.043 9.4E-07 45.4 1.0 43 79-126 92-134 (389)
106 COG5220 TFB3 Cdk activating ki 92.5 0.053 1.2E-06 43.3 0.9 55 76-130 9-68 (314)
107 PF03854 zf-P11: P-11 zinc fin 92.4 0.058 1.3E-06 32.0 0.8 44 79-128 4-48 (50)
108 PF15050 SCIMP: SCIMP protein 91.8 0.37 8.1E-06 34.4 4.4 33 3-36 8-40 (133)
109 KOG3053 Uncharacterized conser 91.6 0.085 1.8E-06 42.5 1.2 51 74-125 17-81 (293)
110 COG5183 SSM4 Protein involved 91.4 0.19 4.2E-06 46.7 3.3 53 75-129 10-69 (1175)
111 KOG4362 Transcriptional regula 90.6 0.092 2E-06 48.0 0.5 61 77-142 21-84 (684)
112 KOG3113 Uncharacterized conser 89.4 0.31 6.6E-06 39.3 2.5 55 75-131 109-163 (293)
113 PF01102 Glycophorin_A: Glycop 89.2 0.66 1.4E-05 33.5 4.0 15 3-17 67-81 (122)
114 KOG3899 Uncharacterized conser 89.0 0.21 4.6E-06 41.1 1.4 31 99-129 325-368 (381)
115 PF02891 zf-MIZ: MIZ/SP-RING z 88.4 0.61 1.3E-05 28.1 2.8 43 78-124 3-50 (50)
116 KOG0269 WD40 repeat-containing 88.3 0.41 8.9E-06 44.2 2.9 40 79-120 781-820 (839)
117 KOG0802 E3 ubiquitin ligase [P 87.5 0.35 7.6E-06 43.6 2.0 50 75-132 477-526 (543)
118 PF01102 Glycophorin_A: Glycop 87.3 1.1 2.3E-05 32.4 4.0 29 4-32 65-93 (122)
119 KOG0825 PHD Zn-finger protein 85.5 0.53 1.1E-05 43.8 2.0 52 75-126 94-154 (1134)
120 KOG1812 Predicted E3 ubiquitin 84.6 0.38 8.1E-06 41.6 0.6 39 75-114 144-183 (384)
121 PF11023 DUF2614: Protein of u 84.0 3.5 7.6E-05 29.2 5.1 18 112-129 82-99 (114)
122 KOG3842 Adaptor protein Pellin 83.9 1.4 3E-05 36.8 3.6 52 75-127 339-415 (429)
123 KOG1609 Protein involved in mR 83.9 0.56 1.2E-05 38.8 1.4 51 77-128 78-136 (323)
124 KOG1829 Uncharacterized conser 83.7 0.39 8.5E-06 43.4 0.4 45 75-123 509-558 (580)
125 KOG4367 Predicted Zn-finger pr 83.6 0.58 1.3E-05 40.7 1.3 36 75-114 2-37 (699)
126 PF13901 DUF4206: Domain of un 82.1 1.1 2.3E-05 35.2 2.3 42 76-123 151-197 (202)
127 PF10571 UPF0547: Uncharacteri 82.0 0.8 1.7E-05 23.7 1.0 23 79-103 2-24 (26)
128 KOG4718 Non-SMC (structural ma 81.5 0.82 1.8E-05 36.0 1.4 48 76-126 180-227 (235)
129 PF12273 RCR: Chitin synthesis 81.1 1 2.3E-05 32.6 1.8 8 22-29 15-22 (130)
130 TIGR00622 ssl1 transcription f 80.1 2.4 5.3E-05 30.0 3.3 46 77-122 55-110 (112)
131 PF15102 TMEM154: TMEM154 prot 79.9 0.49 1.1E-05 35.1 -0.3 10 105-114 127-136 (146)
132 KOG1812 Predicted E3 ubiquitin 79.4 0.88 1.9E-05 39.3 1.0 44 77-121 306-351 (384)
133 KOG1815 Predicted E3 ubiquitin 79.3 1.3 2.8E-05 39.0 2.0 51 75-128 68-128 (444)
134 PF07975 C1_4: TFIIH C1-like d 78.7 1.8 3.8E-05 26.3 1.9 43 80-122 2-50 (51)
135 KOG0824 Predicted E3 ubiquitin 78.6 2.2 4.8E-05 35.4 3.0 50 75-127 103-152 (324)
136 smart00249 PHD PHD zinc finger 78.6 1.5 3.3E-05 24.8 1.6 30 80-110 2-31 (47)
137 PF06667 PspB: Phage shock pro 78.1 6 0.00013 26.0 4.4 28 1-28 1-28 (75)
138 KOG3005 GIY-YIG type nuclease 77.8 1.4 3E-05 36.0 1.6 50 76-125 181-242 (276)
139 PRK14750 kdpF potassium-transp 77.2 6.5 0.00014 20.7 3.5 17 1-17 1-17 (29)
140 COG5109 Uncharacterized conser 77.1 1.8 3.8E-05 36.2 2.1 46 75-121 334-382 (396)
141 PF00628 PHD: PHD-finger; Int 75.6 1.7 3.6E-05 25.8 1.2 43 80-123 2-50 (51)
142 PF02439 Adeno_E3_CR2: Adenovi 73.2 12 0.00025 21.2 4.1 28 6-34 6-33 (38)
143 PF06906 DUF1272: Protein of u 73.2 4.5 9.8E-05 24.9 2.7 46 79-128 7-54 (57)
144 KOG2807 RNA polymerase II tran 72.7 3.2 7E-05 34.8 2.6 47 76-123 329-375 (378)
145 KOG2068 MOT2 transcription fac 72.4 3.1 6.6E-05 35.0 2.4 49 77-126 249-298 (327)
146 PRK09458 pspB phage shock prot 72.2 5.9 0.00013 26.0 3.2 28 1-28 1-28 (75)
147 PF13908 Shisa: Wnt and FGF in 72.1 2.4 5.2E-05 32.4 1.6 12 5-16 80-91 (179)
148 PF06844 DUF1244: Protein of u 71.6 2.3 5E-05 27.1 1.2 12 103-114 12-23 (68)
149 TIGR02976 phageshock_pspB phag 71.4 11 0.00024 24.7 4.4 22 6-27 6-27 (75)
150 PF07423 DUF1510: Protein of u 71.0 3.3 7.1E-05 32.9 2.2 12 2-13 15-26 (217)
151 KOG2066 Vacuolar assembly/sort 70.8 1.6 3.5E-05 40.6 0.5 43 77-121 784-830 (846)
152 PHA02902 putative IMV membrane 70.5 18 0.00038 23.0 4.9 15 49-63 48-62 (70)
153 PLN02400 cellulose synthase 70.1 7.1 0.00015 38.0 4.5 52 76-127 35-90 (1085)
154 PF06679 DUF1180: Protein of u 70.1 6.9 0.00015 29.7 3.6 23 11-33 99-121 (163)
155 PF14569 zf-UDP: Zinc-binding 69.4 9.3 0.0002 25.2 3.7 53 75-127 7-63 (80)
156 PRK00523 hypothetical protein; 69.3 19 0.00042 23.4 5.1 19 4-22 7-25 (72)
157 PLN02189 cellulose synthase 69.0 8.1 0.00018 37.5 4.6 52 76-127 33-88 (1040)
158 PF15183 MRAP: Melanocortin-2 68.9 12 0.00025 25.1 4.1 27 4-30 37-63 (90)
159 PF13908 Shisa: Wnt and FGF in 68.4 2.8 6E-05 32.1 1.3 17 2-18 81-97 (179)
160 PHA03049 IMV membrane protein; 68.1 8.5 0.00019 24.5 3.2 13 10-22 8-20 (68)
161 PF05454 DAG1: Dystroglycan (D 68.0 1.7 3.7E-05 36.1 0.0 24 4-27 148-171 (290)
162 PRK14748 kdpF potassium-transp 68.0 15 0.00033 19.3 3.6 19 1-19 1-19 (29)
163 PRK01844 hypothetical protein; 66.6 17 0.00037 23.6 4.4 21 3-23 5-25 (72)
164 PF05961 Chordopox_A13L: Chord 66.1 13 0.00028 23.8 3.7 10 12-21 10-19 (68)
165 smart00132 LIM Zinc-binding do 66.1 6.6 0.00014 21.1 2.3 36 80-125 2-37 (39)
166 PF04710 Pellino: Pellino; In 65.9 2 4.3E-05 37.0 0.0 51 76-127 327-402 (416)
167 PF00412 LIM: LIM domain; Int 65.1 5.8 0.00012 23.8 2.0 40 80-129 1-40 (58)
168 PF06024 DUF912: Nucleopolyhed 65.0 2.6 5.6E-05 29.3 0.4 13 7-19 66-78 (101)
169 KOG3579 Predicted E3 ubiquitin 65.0 3.9 8.6E-05 33.7 1.5 41 75-115 266-306 (352)
170 PF01363 FYVE: FYVE zinc finge 64.1 3.3 7.2E-05 26.2 0.8 36 77-112 9-44 (69)
171 PLN02436 cellulose synthase A 63.9 11 0.00025 36.6 4.6 52 76-127 35-90 (1094)
172 PF13719 zinc_ribbon_5: zinc-r 62.6 5.1 0.00011 22.3 1.3 13 79-91 4-16 (37)
173 PRK01844 hypothetical protein; 59.9 16 0.00035 23.7 3.4 31 5-35 3-33 (72)
174 PF08374 Protocadherin: Protoc 59.4 3.8 8.1E-05 32.4 0.5 24 4-27 38-61 (221)
175 cd00065 FYVE FYVE domain; Zinc 59.2 8.3 0.00018 23.2 2.0 36 78-113 3-38 (57)
176 PF02529 PetG: Cytochrome B6-F 58.9 30 0.00066 19.3 4.4 31 1-31 1-31 (37)
177 PF08114 PMP1_2: ATPase proteo 58.2 5.8 0.00013 22.8 1.0 7 26-32 30-36 (43)
178 PF07191 zinc-ribbons_6: zinc- 57.7 0.93 2E-05 29.3 -2.6 41 78-127 2-42 (70)
179 cd00350 rubredoxin_like Rubred 57.4 5.7 0.00012 21.5 0.9 20 99-124 7-26 (33)
180 PF05399 EVI2A: Ectropic viral 57.1 20 0.00043 28.4 4.1 19 5-23 135-153 (227)
181 KOG2979 Protein involved in DN 57.1 6.7 0.00015 31.8 1.6 40 78-120 177-218 (262)
182 PF15176 LRR19-TM: Leucine-ric 56.7 32 0.0007 23.9 4.6 19 6-24 20-38 (102)
183 PF04423 Rad50_zn_hook: Rad50 56.6 3.5 7.6E-05 25.0 -0.1 13 116-128 21-33 (54)
184 PF13717 zinc_ribbon_4: zinc-r 55.8 6.4 0.00014 21.9 0.9 13 79-91 4-16 (36)
185 CHL00008 petG cytochrome b6/f 55.2 35 0.00077 19.0 4.0 27 5-31 5-31 (37)
186 smart00064 FYVE Protein presen 54.8 12 0.00026 23.4 2.3 37 77-113 10-46 (68)
187 PHA02681 ORF089 virion membran 54.3 53 0.0011 22.0 5.1 20 47-66 44-63 (92)
188 PLN02638 cellulose synthase A 54.0 21 0.00046 34.9 4.6 51 76-126 16-70 (1079)
189 TIGR01195 oadG_fam sodium pump 53.6 39 0.00085 22.4 4.6 25 6-30 12-36 (82)
190 KOG1245 Chromatin remodeling c 53.3 6 0.00013 39.8 0.9 50 76-126 1107-1160(1404)
191 PF04216 FdhE: Protein involve 53.2 1.5 3.3E-05 36.2 -2.8 46 75-123 170-219 (290)
192 PF07649 C1_3: C1-like domain; 52.7 12 0.00027 19.5 1.7 29 79-108 2-30 (30)
193 PF14169 YdjO: Cold-inducible 51.9 6.8 0.00015 24.5 0.7 13 115-127 39-51 (59)
194 PF04277 OAD_gamma: Oxaloaceta 51.7 63 0.0014 20.8 6.9 19 6-24 9-27 (79)
195 PRK00665 petG cytochrome b6-f 51.2 42 0.00092 18.7 4.0 25 6-30 6-30 (37)
196 PF14991 MLANA: Protein melan- 50.7 2.5 5.4E-05 30.0 -1.6 13 15-27 35-47 (118)
197 TIGR00847 ccoS cytochrome oxid 50.5 33 0.00071 20.8 3.5 16 7-22 7-22 (51)
198 PLN02915 cellulose synthase A 50.4 83 0.0018 30.9 7.8 52 76-127 14-69 (1044)
199 PF07406 NICE-3: NICE-3 protei 50.2 11 0.00024 29.2 1.8 10 103-112 124-133 (186)
200 PLN02195 cellulose synthase A 50.1 22 0.00047 34.4 4.0 51 76-126 5-59 (977)
201 KOG2113 Predicted RNA binding 50.0 11 0.00023 31.7 1.7 45 75-125 341-386 (394)
202 PF15176 LRR19-TM: Leucine-ric 49.3 41 0.00089 23.4 4.2 33 2-34 20-52 (102)
203 PF07010 Endomucin: Endomucin; 49.1 51 0.0011 26.5 5.2 28 5-32 189-216 (259)
204 PRK12705 hypothetical protein; 49.1 29 0.00063 31.2 4.4 27 3-29 3-29 (508)
205 PF00558 Vpu: Vpu protein; In 49.0 28 0.0006 23.2 3.3 10 49-58 54-63 (81)
206 PF00737 PsbH: Photosystem II 48.3 35 0.00076 20.6 3.3 12 3-14 28-39 (52)
207 PF13832 zf-HC5HC2H_2: PHD-zin 48.3 17 0.00037 25.1 2.4 34 76-110 54-87 (110)
208 COG3492 Uncharacterized protei 48.1 9.2 0.0002 26.0 0.9 12 103-114 43-54 (104)
209 PF06365 CD34_antigen: CD34/Po 45.9 16 0.00035 28.7 2.1 22 16-37 112-133 (202)
210 KOG3039 Uncharacterized conser 45.8 21 0.00046 28.9 2.8 36 75-114 41-76 (303)
211 PF06750 DiS_P_DiS: Bacterial 45.1 21 0.00045 24.3 2.3 38 77-127 33-70 (92)
212 PF10883 DUF2681: Protein of u 45.0 44 0.00095 22.6 3.8 19 12-30 9-27 (87)
213 smart00647 IBR In Between Ring 44.9 6.7 0.00014 24.0 -0.2 19 93-111 40-58 (64)
214 PF12072 DUF3552: Domain of un 44.1 40 0.00088 26.2 4.1 19 5-23 3-21 (201)
215 PF15050 SCIMP: SCIMP protein 44.0 41 0.00088 24.2 3.6 25 2-26 11-35 (133)
216 PRK04989 psbM photosystem II r 42.7 50 0.0011 18.2 3.1 10 5-14 8-17 (35)
217 PF13771 zf-HC5HC2H: PHD-like 42.7 16 0.00034 24.2 1.4 33 77-110 36-68 (90)
218 PF10577 UPF0560: Uncharacteri 42.5 44 0.00095 31.7 4.6 24 4-27 272-295 (807)
219 PF10497 zf-4CXXC_R1: Zinc-fin 42.2 36 0.00079 23.7 3.2 24 100-123 37-69 (105)
220 PLN02248 cellulose synthase-li 41.6 25 0.00053 34.6 2.9 33 99-131 150-182 (1135)
221 PF15099 PIRT: Phosphoinositid 40.9 16 0.00035 26.4 1.3 22 6-27 82-103 (129)
222 KOG1729 FYVE finger containing 39.4 5.2 0.00011 33.2 -1.6 37 78-115 215-251 (288)
223 CHL00080 psbM photosystem II p 39.3 59 0.0013 17.8 3.0 15 4-18 7-21 (34)
224 CHL00066 psbH photosystem II p 39.3 48 0.001 21.5 3.1 11 3-13 43-53 (73)
225 PF12158 DUF3592: Protein of u 39.2 55 0.0012 23.4 4.0 26 2-27 2-27 (148)
226 PF05915 DUF872: Eukaryotic pr 38.6 55 0.0012 23.3 3.8 24 4-27 43-66 (115)
227 TIGR03038 PS_II_psbM photosyst 38.5 67 0.0015 17.5 3.1 11 4-14 7-17 (33)
228 PLN00055 photosystem II reacti 38.4 50 0.0011 21.4 3.1 11 3-13 43-53 (73)
229 KOG2231 Predicted E3 ubiquitin 38.2 32 0.00069 32.0 3.0 52 79-134 2-60 (669)
230 PF05605 zf-Di19: Drought indu 38.0 15 0.00034 22.0 0.7 12 77-88 2-13 (54)
231 PF14654 Epiglycanin_C: Mucin, 37.5 66 0.0014 22.2 3.7 23 6-28 22-44 (106)
232 PRK02624 psbH photosystem II r 37.1 57 0.0012 20.5 3.1 10 3-12 31-40 (64)
233 PF12292 DUF3624: Protein of u 37.1 81 0.0017 20.8 4.0 21 11-31 54-74 (77)
234 PF05568 ASFV_J13L: African sw 36.9 48 0.001 24.7 3.2 20 12-31 34-53 (189)
235 KOG3799 Rab3 effector RIM1 and 36.6 9.1 0.0002 28.1 -0.6 43 75-125 63-117 (169)
236 KOG4443 Putative transcription 36.5 18 0.00039 33.3 1.1 28 98-125 40-72 (694)
237 PF08374 Protocadherin: Protoc 36.4 21 0.00046 28.3 1.4 25 2-26 40-64 (221)
238 KOG3054 Uncharacterized conser 36.4 68 0.0015 26.1 4.2 6 26-31 21-26 (299)
239 KOG4451 Uncharacterized conser 36.2 35 0.00076 27.4 2.6 27 103-129 251-277 (286)
240 PRK05978 hypothetical protein; 36.2 24 0.00051 26.4 1.6 24 101-129 43-66 (148)
241 KOG1815 Predicted E3 ubiquitin 36.0 11 0.00024 33.1 -0.2 37 78-114 227-267 (444)
242 PF02318 FYVE_2: FYVE-type zin 36.0 28 0.00062 24.6 1.9 47 76-124 53-103 (118)
243 COG3630 OadG Na+-transporting 35.8 1.1E+02 0.0025 20.4 4.6 22 6-27 15-36 (84)
244 COG3813 Uncharacterized protei 35.4 40 0.00087 21.9 2.3 28 100-129 28-55 (84)
245 PF07010 Endomucin: Endomucin; 35.3 61 0.0013 26.0 3.8 24 4-27 192-215 (259)
246 PRK09510 tolA cell envelope in 35.3 43 0.00093 29.1 3.2 19 3-21 13-31 (387)
247 TIGR01562 FdhE formate dehydro 34.9 8.6 0.00019 32.2 -1.0 47 77-124 184-233 (305)
248 PF10146 zf-C4H2: Zinc finger- 34.5 27 0.00059 28.0 1.8 27 103-129 196-222 (230)
249 PF10083 DUF2321: Uncharacteri 34.1 19 0.00041 27.1 0.8 45 81-128 8-52 (158)
250 PF09723 Zn-ribbon_8: Zinc rib 34.1 8.8 0.00019 22.0 -0.8 24 99-123 11-34 (42)
251 KOG2071 mRNA cleavage and poly 33.9 21 0.00045 32.5 1.1 36 75-111 511-556 (579)
252 PF02656 DUF202: Domain of unk 33.8 1.2E+02 0.0026 19.1 4.5 16 6-21 47-62 (73)
253 PF04277 OAD_gamma: Oxaloaceta 33.6 1.3E+02 0.0028 19.2 5.7 23 5-27 5-27 (79)
254 TIGR00627 tfb4 transcription f 33.1 32 0.00069 28.5 2.0 9 116-124 270-278 (279)
255 PF13706 PepSY_TM_3: PepSY-ass 32.9 90 0.002 17.2 3.5 19 3-21 11-29 (37)
256 PF14311 DUF4379: Domain of un 32.5 28 0.0006 21.0 1.2 22 99-121 34-55 (55)
257 COG4357 Zinc finger domain con 32.5 31 0.00068 23.7 1.6 29 99-128 65-93 (105)
258 PF00130 C1_1: Phorbol esters/ 32.3 40 0.00086 19.8 1.9 34 76-110 10-45 (53)
259 PF05715 zf-piccolo: Piccolo Z 32.2 22 0.00047 22.2 0.7 12 115-126 2-13 (61)
260 PRK11677 hypothetical protein; 31.8 60 0.0013 23.8 3.1 19 5-23 3-21 (134)
261 PF15361 RIC3: Resistance to i 31.7 1.4E+02 0.003 22.3 5.1 21 8-28 83-103 (152)
262 PF02480 Herpes_gE: Alphaherpe 31.2 16 0.00035 32.2 0.0 14 19-32 372-385 (439)
263 PRK14094 psbM photosystem II r 31.0 46 0.00099 19.7 1.9 6 4-9 7-12 (50)
264 PF11770 GAPT: GRB2-binding ad 30.9 20 0.00043 26.8 0.4 9 5-13 12-20 (158)
265 PHA02849 putative transmembran 30.7 1.1E+02 0.0025 20.2 3.9 9 61-69 64-72 (82)
266 PF15018 InaF-motif: TRP-inter 30.5 72 0.0016 18.0 2.6 12 4-15 9-20 (38)
267 KOG4185 Predicted E3 ubiquitin 30.3 8.2 0.00018 31.8 -1.9 49 77-125 207-266 (296)
268 PHA02657 hypothetical protein; 30.0 1.2E+02 0.0025 20.5 3.9 15 57-71 72-86 (95)
269 PRK04778 septation ring format 29.3 93 0.002 28.3 4.5 11 2-12 2-12 (569)
270 PF06679 DUF1180: Protein of u 29.2 86 0.0019 23.8 3.6 25 7-31 98-122 (163)
271 PRK11486 flagellar biosynthesi 29.2 1.6E+02 0.0034 21.3 4.8 12 18-29 30-41 (124)
272 PF15298 AJAP1_PANP_C: AJAP1/P 28.7 26 0.00057 27.4 0.8 22 6-27 105-126 (205)
273 KOG2041 WD40 repeat protein [G 28.2 43 0.00093 31.6 2.2 28 96-127 1159-1186(1189)
274 PRK11088 rrmA 23S rRNA methylt 28.2 43 0.00093 27.1 2.0 25 78-103 3-27 (272)
275 PF06676 DUF1178: Protein of u 27.6 19 0.0004 26.9 -0.2 24 99-127 10-44 (148)
276 KOG4323 Polycomb-like PHD Zn-f 27.5 37 0.0008 30.1 1.6 49 77-125 168-225 (464)
277 PF09237 GAGA: GAGA factor; I 27.4 20 0.00043 21.8 -0.0 11 116-126 25-35 (54)
278 PF14584 DUF4446: Protein of u 27.3 1.1E+02 0.0025 22.8 4.0 35 61-96 81-115 (151)
279 PF13172 PepSY_TM_1: PepSY-ass 27.3 1.1E+02 0.0024 16.4 3.0 17 3-19 12-28 (34)
280 PF12259 DUF3609: Protein of u 26.8 47 0.001 28.6 2.1 14 15-28 309-322 (361)
281 PRK03564 formate dehydrogenase 26.8 25 0.00055 29.5 0.4 47 76-123 186-234 (309)
282 PF15179 Myc_target_1: Myc tar 26.5 1.4E+02 0.0031 23.1 4.4 20 5-24 22-41 (197)
283 COG5627 MMS21 DNA repair prote 26.4 35 0.00076 27.5 1.1 46 77-125 189-238 (275)
284 PF13120 DUF3974: Domain of un 26.1 37 0.00079 23.4 1.0 16 7-22 10-25 (126)
285 cd04718 BAH_plant_2 BAH, or Br 25.8 21 0.00046 26.6 -0.2 27 103-129 2-32 (148)
286 PRK11827 hypothetical protein; 25.4 25 0.00054 22.0 0.1 41 110-150 3-44 (60)
287 PF06422 PDR_CDR: CDR ABC tran 25.2 1.2E+02 0.0025 21.0 3.5 12 3-14 52-63 (103)
288 PF09943 DUF2175: Uncharacteri 25.1 62 0.0013 22.5 2.0 33 79-113 4-36 (101)
289 KOG1538 Uncharacterized conser 25.1 29 0.00062 32.4 0.5 32 95-126 1046-1077(1081)
290 COG4858 Uncharacterized membra 25.1 1.5E+02 0.0033 23.2 4.3 27 3-29 125-151 (226)
291 KOG1973 Chromatin remodeling p 24.5 22 0.00049 29.2 -0.3 28 99-126 240-270 (274)
292 COG5264 VTC1 Vacuolar transpor 24.2 1.8E+02 0.0039 21.0 4.3 24 4-27 60-83 (126)
293 COG4847 Uncharacterized protei 23.9 68 0.0015 22.1 2.0 34 77-112 6-39 (103)
294 PRK03814 oxaloacetate decarbox 23.8 2.2E+02 0.0047 19.1 4.5 17 7-23 17-33 (85)
295 PF03672 UPF0154: Uncharacteri 23.7 1.4E+02 0.0031 18.9 3.3 10 13-22 8-17 (64)
296 PF05191 ADK_lid: Adenylate ki 23.6 33 0.00071 19.0 0.4 29 97-127 5-33 (36)
297 COG2816 NPY1 NTP pyrophosphohy 23.6 19 0.0004 29.8 -0.9 29 100-128 110-142 (279)
298 PRK02919 oxaloacetate decarbox 23.4 1.7E+02 0.0036 19.5 3.8 15 7-21 16-30 (82)
299 smart00734 ZnF_Rad18 Rad18-lik 23.3 34 0.00074 17.4 0.4 9 117-125 3-11 (26)
300 PF14927 Neurensin: Neurensin 22.8 1E+02 0.0022 22.8 2.9 22 3-24 46-67 (140)
301 PRK04778 septation ring format 22.6 1E+02 0.0023 28.0 3.6 7 8-14 5-11 (569)
302 PF05454 DAG1: Dystroglycan (D 22.6 29 0.00062 28.9 0.0 14 19-32 160-173 (290)
303 PF07282 OrfB_Zn_ribbon: Putat 22.5 1.2E+02 0.0027 18.7 3.0 32 76-107 27-60 (69)
304 PRK01343 zinc-binding protein; 22.4 42 0.00091 20.8 0.7 12 115-126 9-20 (57)
305 TIGR02661 MauD methylamine deh 22.4 2.2E+02 0.0047 21.6 4.9 9 117-125 85-93 (189)
306 KOG0956 PHD finger protein AF1 22.4 38 0.00082 31.6 0.7 50 77-127 117-183 (900)
307 PF15145 DUF4577: Domain of un 22.3 1.1E+02 0.0023 21.8 2.8 17 11-27 70-86 (128)
308 KOG1356 Putative transcription 22.1 38 0.00082 32.2 0.7 33 78-112 230-262 (889)
309 PF06957 COPI_C: Coatomer (COP 22.0 68 0.0015 28.2 2.2 40 78-123 365-404 (422)
310 COG3064 TolA Membrane protein 21.9 1E+02 0.0022 26.1 3.0 20 4-23 14-33 (387)
311 PHA02669 hypothetical protein; 21.9 1.6E+02 0.0036 22.4 3.9 11 3-13 7-17 (210)
312 PF06643 DUF1158: Protein of u 21.8 2.4E+02 0.0052 18.4 4.5 27 3-29 51-77 (82)
313 PF07213 DAP10: DAP10 membrane 21.7 2.1E+02 0.0046 18.9 3.9 24 6-29 36-59 (79)
314 KOG1226 Integrin beta subunit 21.3 53 0.0012 30.9 1.4 25 3-27 714-738 (783)
315 PF02936 COX4: Cytochrome c ox 21.3 1.5E+02 0.0032 21.9 3.6 19 6-24 77-95 (142)
316 PF15353 HECA: Headcase protei 21.2 63 0.0014 22.7 1.5 14 99-112 40-53 (107)
317 PHA03013 hypothetical protein; 21.1 96 0.0021 21.0 2.3 24 1-24 1-24 (109)
318 PF03229 Alpha_GJ: Alphavirus 20.6 2.3E+02 0.0049 20.3 4.1 8 5-12 89-96 (126)
319 PF03850 Tfb4: Transcription f 20.6 47 0.001 27.4 0.9 6 116-121 270-275 (276)
320 PF06937 EURL: EURL protein; 20.5 77 0.0017 26.1 2.0 45 76-120 29-75 (285)
321 PF10873 DUF2668: Protein of u 20.4 1E+02 0.0022 23.0 2.4 22 5-27 66-87 (155)
322 PF15378 DUF4605: Domain of un 20.3 2.3E+02 0.0051 17.7 3.9 21 3-23 29-49 (60)
323 PF14004 DUF4227: Protein of u 20.3 2.6E+02 0.0056 18.1 5.2 10 35-44 35-44 (71)
324 PF05502 Dynactin_p62: Dynacti 20.2 51 0.0011 29.5 1.1 12 78-89 27-38 (483)
325 PF09451 ATG27: Autophagy-rela 20.2 1E+02 0.0023 25.1 2.8 7 58-64 241-247 (268)
326 KOG1631 Translocon-associated 20.2 2.1E+02 0.0046 23.1 4.3 26 4-29 184-209 (261)
327 KOG4056 Translocase of outer m 20.1 1.4E+02 0.0029 22.1 3.0 29 6-34 7-35 (143)
328 PF01485 IBR: IBR domain; Int 20.0 11 0.00024 23.0 -2.4 15 97-111 44-58 (64)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.80 E-value=2.1e-19 Score=148.88 Aligned_cols=77 Identities=32% Similarity=0.858 Sum_probs=68.0
Q ss_pred CCCCCHHHHhcCCceEeeccCCCCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCC-CcccccccccCC
Q 040080 52 STSMSRDDVEKLPCYEYLAKSKGSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPN-CPICRSTANSRR 129 (192)
Q Consensus 52 ~~~~~~~~i~~l~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~-CP~Cr~~~~~~~ 129 (192)
...+.++.++++|...|...+.......|+||+|+|..++.++.+| |+|.||..||++||..+.+ ||+||+++....
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 4468889999999999998877655579999999999999999999 9999999999999988755 999999876543
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=99.62 E-value=1.1e-16 Score=95.50 Aligned_cols=44 Identities=48% Similarity=1.250 Sum_probs=40.1
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICR 122 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 122 (192)
++|+||++.|..++.+..++ |||.||.+||..|++++.+||+||
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 36999999999888999999 999999999999999999999997
No 3
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=1.8e-13 Score=113.08 Aligned_cols=53 Identities=34% Similarity=0.873 Sum_probs=44.0
Q ss_pred CCCCCcccccCcc-ccCCC---------ceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 74 GSSPIECAVCLDK-FNKGD---------KCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 74 ~~~~~~C~IC~~~-~~~~~---------~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
..++..|.|||++ |..+. ....+| |||+||..|++.|++++++||+||.++..
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 4667889999999 55442 335688 99999999999999999999999999543
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.43 E-value=1e-13 Score=91.46 Aligned_cols=45 Identities=36% Similarity=0.908 Sum_probs=35.4
Q ss_pred CCcccccCccccCC----------CceEEcCCCCCcccHHhHHHHHcCCCCCcccc
Q 040080 77 PIECAVCLDKFNKG----------DKCRLLPICNHSFHAQCVDAWLLTNPNCPICR 122 (192)
Q Consensus 77 ~~~C~IC~~~~~~~----------~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 122 (192)
++.|+||++.+... -.+...+ |||.||..||.+|+..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44599999999422 2344445 999999999999999999999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.42 E-value=1.2e-13 Score=109.99 Aligned_cols=76 Identities=26% Similarity=0.579 Sum_probs=56.7
Q ss_pred CCCCCHHHHhcCCceEeeccC--CCCCCCcccccCccccCCC----ceEEcCCCCCcccHHhHHHHHcCCCCCccccccc
Q 040080 52 STSMSRDDVEKLPCYEYLAKS--KGSSPIECAVCLDKFNKGD----KCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 52 ~~~~~~~~i~~l~~~~~~~~~--~~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
.....+..+..+|.+....+. ....+.+|+||++.+..+. .+..++.|+|.||..||..|+..+.+||+||.++
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 344577888889987544332 2245678999999876543 1234445999999999999999999999999987
Q ss_pred cc
Q 040080 126 NS 127 (192)
Q Consensus 126 ~~ 127 (192)
..
T Consensus 227 ~~ 228 (238)
T PHA02929 227 IS 228 (238)
T ss_pred eE
Confidence 53
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=5e-13 Score=107.33 Aligned_cols=51 Identities=25% Similarity=0.762 Sum_probs=44.0
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
.....|.+||+....+ ..+| |||+||+.||..|...+..||+||..+.+.+
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 4457899999997655 4577 9999999999999999999999999987765
No 7
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=4.4e-13 Score=108.14 Aligned_cols=52 Identities=46% Similarity=1.160 Sum_probs=46.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHc-CCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 127 (192)
..+.+|+|||+.|...+.++.+| |.|.||..|+++|+. .+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34578999999999999999999 999999999999998 47789999998865
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.5e-12 Score=100.49 Aligned_cols=58 Identities=24% Similarity=0.594 Sum_probs=45.1
Q ss_pred CCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC---CCCCcccccccccCCCCCCCC
Q 040080 74 GSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT---NPNCPICRSTANSRRFGEESS 135 (192)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~~~~~~~ 135 (192)
....++|.|||+.-+.+ +++. |||+||+.||.+|+.. .+.||+||..+..++..+..+
T Consensus 44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG 104 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG 104 (230)
T ss_pred CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence 35678999999986444 4455 9999999999999976 344999999998877544433
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.21 E-value=1.1e-11 Score=82.96 Aligned_cols=52 Identities=33% Similarity=0.789 Sum_probs=39.4
Q ss_pred CCcccccCccccC--------CCc-eEEcCCCCCcccHHhHHHHHcC---CCCCcccccccccC
Q 040080 77 PIECAVCLDKFNK--------GDK-CRLLPICNHSFHAQCVDAWLLT---NPNCPICRSTANSR 128 (192)
Q Consensus 77 ~~~C~IC~~~~~~--------~~~-~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 128 (192)
++.|.||...|.. ++. ......|+|.||..||.+|+.+ +..||+||+++..+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 6679999988862 222 2233459999999999999986 46799999988654
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.19 E-value=1.9e-11 Score=93.89 Aligned_cols=55 Identities=25% Similarity=0.746 Sum_probs=43.0
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC----------------CCCCcccccccccCCCCCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT----------------NPNCPICRSTANSRRFGEE 133 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~~~~~~~ 133 (192)
.+..+|+||++.+..+ ..++ |||.||..||..|+.. ...||+||.++........
T Consensus 16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 4567899999998654 4566 9999999999999852 2469999999977654433
No 11
>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=99.16 E-value=2.1e-11 Score=74.53 Aligned_cols=46 Identities=35% Similarity=0.878 Sum_probs=38.5
Q ss_pred CCcccccCccccCCCceEEcCCCCCc-ccHHhHHHHHcCCCCCcccccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
+..|.||++... .+..+| |||. ||..|+..|+.....||+||+++.
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 457999999853 457778 9999 999999999999999999999875
No 12
>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=99.13 E-value=4.2e-11 Score=69.38 Aligned_cols=39 Identities=41% Similarity=1.194 Sum_probs=32.5
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 121 (192)
|+||++.+.+ .+..++ |||.||..|+..|++.+..||+|
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 8999999855 456677 99999999999999998889998
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.11 E-value=5.9e-11 Score=70.01 Aligned_cols=44 Identities=43% Similarity=1.192 Sum_probs=36.5
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCccccccc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTA 125 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 125 (192)
+|+||++.+ .......+ |||.||..|+..|+.. +..||+||..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 33455556 9999999999999987 67799999764
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=4.9e-11 Score=89.66 Aligned_cols=54 Identities=28% Similarity=0.727 Sum_probs=44.0
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRF 130 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 130 (192)
.+-..|+|||+.+..... ....|||+||..||..-++....||+||+.+..+.+
T Consensus 129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 445679999999865433 333499999999999999999999999998877654
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.05 E-value=6.2e-11 Score=92.27 Aligned_cols=53 Identities=36% Similarity=0.791 Sum_probs=40.0
Q ss_pred CCCCcccccCccccCC-----CceEEcCCCCCcccHHhHHHHHcCC------CCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKG-----DKCRLLPICNHSFHAQCVDAWLLTN------PNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~-----~~~~~~~~C~H~fh~~Ci~~wl~~~------~~CP~Cr~~~~~ 127 (192)
+.+.+|+|||+..-.. ..-..++.|+|.||..||..|...+ .+||+||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 5578899999986322 1233565699999999999999753 359999998753
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.5e-10 Score=103.23 Aligned_cols=53 Identities=32% Similarity=0.860 Sum_probs=44.9
Q ss_pred CCCCcccccCccccCCCc--eEEcCCCCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 75 SSPIECAVCLDKFNKGDK--CRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~--~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.....|+||++.+..+.. ...++ |+|+||..|+..|++++++||+||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 456789999999977543 56788 999999999999999999999999955443
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.96 E-value=6e-10 Score=66.22 Aligned_cols=44 Identities=32% Similarity=0.882 Sum_probs=36.9
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
.|+||++.|.......+++ |||+||..|+..+......||+||+
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 4999999995555666777 9999999999998855677999985
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.92 E-value=9e-10 Score=64.75 Aligned_cols=38 Identities=39% Similarity=0.951 Sum_probs=28.9
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC----CCCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN----PNCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~----~~CP~C 121 (192)
|+||++.|..+ ..++ |||.|+..||..|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999766 5677 99999999999999763 259987
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.90 E-value=1.1e-09 Score=71.48 Aligned_cols=33 Identities=39% Similarity=0.808 Sum_probs=29.5
Q ss_pred CCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 97 PICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 97 ~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
..|+|.||..||..||.++..||++|+++...+
T Consensus 52 G~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 52 GVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred EecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 349999999999999999999999999986644
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.90 E-value=1.4e-09 Score=63.53 Aligned_cols=39 Identities=44% Similarity=1.185 Sum_probs=32.6
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHc--CCCCCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL--TNPNCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~--~~~~CP~C 121 (192)
|+||++.+..+ ...++ |||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998554 34677 999999999999998 35569998
No 21
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=1.8e-09 Score=92.41 Aligned_cols=52 Identities=31% Similarity=0.812 Sum_probs=39.8
Q ss_pred CCCCcccccCccccCC---C-----------ceEEcCCCCCcccHHhHHHHHcC-CCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKG---D-----------KCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~---~-----------~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 127 (192)
....+|+|||.++.-- . ....+| |.|+||..|+..|+.. +-.||+||.++.+
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3456799999987521 1 133457 9999999999999985 5589999998864
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.89 E-value=1.8e-09 Score=68.80 Aligned_cols=48 Identities=17% Similarity=0.533 Sum_probs=41.0
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
..|+||++.+..+ ..++ |||+|+..||..|+..+.+||+|+.++....
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4699999999775 4567 9999999999999998889999999885433
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.83 E-value=3e-09 Score=60.44 Aligned_cols=38 Identities=42% Similarity=1.202 Sum_probs=31.7
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHc-CCCCCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL-TNPNCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~C 121 (192)
|+||++.. .....++ |||.||..|+..|+. .+..||+|
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 3456677 999999999999998 56679987
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=1.1e-09 Score=71.04 Aligned_cols=51 Identities=39% Similarity=0.923 Sum_probs=37.6
Q ss_pred CCcccccCccccC--------CCceE-EcCCCCCcccHHhHHHHHcC---CCCCccccccccc
Q 040080 77 PIECAVCLDKFNK--------GDKCR-LLPICNHSFHAQCVDAWLLT---NPNCPICRSTANS 127 (192)
Q Consensus 77 ~~~C~IC~~~~~~--------~~~~~-~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 127 (192)
++.|.||.-.|.. ++.+. ++..|.|.||..||.+|+.. +..||+||+.+..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 3478888888852 23222 23459999999999999976 3459999998754
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.74 E-value=6.9e-09 Score=88.47 Aligned_cols=50 Identities=30% Similarity=0.840 Sum_probs=42.4
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.....|+||++.|..+ ..++ |||.||..||..|+.....||+||..+...
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 4467899999998665 3567 999999999999998888899999988654
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=7.9e-09 Score=82.40 Aligned_cols=51 Identities=25% Similarity=0.718 Sum_probs=41.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHH-HHcCCCC-CcccccccccCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDA-WLLTNPN-CPICRSTANSRR 129 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~~ 129 (192)
..+..|+||++....+ ..++ |||+||..||.. |-.++.. ||+||+...++.
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 3477899999996554 5567 999999999999 8776665 999999887654
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.2e-08 Score=81.59 Aligned_cols=54 Identities=31% Similarity=0.771 Sum_probs=43.6
Q ss_pred CCCCcccccCccccCCC-------ceEEcCCCCCcccHHhHHHHHc--CCCCCcccccccccCC
Q 040080 75 SSPIECAVCLDKFNKGD-------KCRLLPICNHSFHAQCVDAWLL--TNPNCPICRSTANSRR 129 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~-------~~~~~~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~ 129 (192)
.++..|+||-..+.... ..-.+. |+|+||..||+-|.. ++++||.|+..+..++
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 56778999998886543 455677 999999999999984 4778999999887654
No 28
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=3.6e-08 Score=67.66 Aligned_cols=56 Identities=29% Similarity=0.663 Sum_probs=41.8
Q ss_pred CCCcccccCcccc-------------CCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCCC
Q 040080 76 SPIECAVCLDKFN-------------KGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRFG 131 (192)
Q Consensus 76 ~~~~C~IC~~~~~-------------~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 131 (192)
..+.|+||...+- .++....-..|+|.||..||..|+++++.||+|.+++...+++
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr~g 113 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQRYG 113 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEeecC
Confidence 3466999876541 1223333345999999999999999999999999988765543
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=3.6e-08 Score=85.09 Aligned_cols=52 Identities=27% Similarity=0.604 Sum_probs=40.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC-----CCCcccccccccCCCCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN-----PNCPICRSTANSRRFGE 132 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~~~~~ 132 (192)
+..||||++....+ ..+. |||+||..||-.++... ..||+||..+..++...
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 66799999985443 3344 99999999999988653 45999999998866443
No 30
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.52 E-value=3.3e-08 Score=81.33 Aligned_cols=49 Identities=31% Similarity=0.856 Sum_probs=43.1
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
-..|.||.+.|..+ .++| |+|.||.-||+.+|..+..||.|+.++.+..
T Consensus 23 lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 23 LLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 45699999999776 5667 9999999999999999999999999887654
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.51 E-value=1.6e-08 Score=92.45 Aligned_cols=54 Identities=31% Similarity=0.789 Sum_probs=40.1
Q ss_pred CCCCCCcccccCcccc-CCC--ceEEcCCCCCcccHHhHHHHHcC--CCCCcccccccc
Q 040080 73 KGSSPIECAVCLDKFN-KGD--KCRLLPICNHSFHAQCVDAWLLT--NPNCPICRSTAN 126 (192)
Q Consensus 73 ~~~~~~~C~IC~~~~~-~~~--~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~ 126 (192)
...+..+|+||+..+. ... +-...+.|.|.||..|+.+|+++ +++||+||..++
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3367889999998765 111 11223349999999999999987 567999998765
No 32
>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=98.45 E-value=1.5e-07 Score=57.04 Aligned_cols=42 Identities=26% Similarity=0.804 Sum_probs=31.9
Q ss_pred cccccCccccCCCceEEcCCCC-----CcccHHhHHHHHcCC--CCCcccc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICN-----HSFHAQCVDAWLLTN--PNCPICR 122 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~~~--~~CP~Cr 122 (192)
.|.||++.. .++.....| |. |.+|..|+..|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~-~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-CCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999833 334445677 86 889999999999654 4799995
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.43 E-value=4.7e-08 Score=63.86 Aligned_cols=51 Identities=27% Similarity=0.764 Sum_probs=24.4
Q ss_pred CCcccccCccccCCCce--EEc--CCCCCcccHHhHHHHHcC---C--------CCCccccccccc
Q 040080 77 PIECAVCLDKFNKGDKC--RLL--PICNHSFHAQCVDAWLLT---N--------PNCPICRSTANS 127 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~--~~~--~~C~H~fh~~Ci~~wl~~---~--------~~CP~Cr~~~~~ 127 (192)
+.+|.||+..+.....+ ..- +.|++.||..||.+||.. . .+||.|+.++.-
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 35799999987622221 221 359999999999999963 1 249999998864
No 34
>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=98.42 E-value=2.4e-07 Score=76.30 Aligned_cols=54 Identities=22% Similarity=0.586 Sum_probs=39.2
Q ss_pred CCcccccCcc-ccCCC-ceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCCCC
Q 040080 77 PIECAVCLDK-FNKGD-KCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRRFG 131 (192)
Q Consensus 77 ~~~C~IC~~~-~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 131 (192)
+..||+|+.. |.+++ ...+.+ |||.||..|++..+.. ...||.|+.++....+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 3579999995 33333 223335 9999999999996644 55799999998776643
No 35
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.41 E-value=1.8e-07 Score=55.09 Aligned_cols=34 Identities=26% Similarity=0.759 Sum_probs=21.0
Q ss_pred ccccCccccCC-CceEEcCCCCCcccHHhHHHHHcCC
Q 040080 80 CAVCLDKFNKG-DKCRLLPICNHSFHAQCVDAWLLTN 115 (192)
Q Consensus 80 C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~~ 115 (192)
|+||++ |... .....++ |||.|+.+|+..++.++
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence 899999 7553 3456688 99999999999999753
No 36
>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=98.40 E-value=2.1e-07 Score=61.28 Aligned_cols=50 Identities=16% Similarity=0.433 Sum_probs=38.2
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCC
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRR 129 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 129 (192)
+.+.|+|+.+.|.++ .+++ +||.|...||..|+.. +.+||+|+.++....
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 356799999999665 5567 9999999999999998 888999999887654
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.36 E-value=1.8e-07 Score=75.65 Aligned_cols=49 Identities=29% Similarity=0.683 Sum_probs=41.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
...|-||-+.|..+ ..++ |||.||.-||...|..+..||+||.+..+..
T Consensus 25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 45699999998665 3455 9999999999999999999999999876644
No 38
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=5e-07 Score=75.67 Aligned_cols=54 Identities=30% Similarity=0.784 Sum_probs=39.1
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC---CCCCcccccccccCCCC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT---NPNCPICRSTANSRRFG 131 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~~~ 131 (192)
..|.||-+-+.....+.-+..|||+||..|+..|+.. +..||.|+-.+..+.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 4699995544444444444459999999999999987 34699999666555444
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.22 E-value=4.5e-07 Score=77.21 Aligned_cols=49 Identities=33% Similarity=0.883 Sum_probs=38.7
Q ss_pred CCCCcccccCccccCCC-ceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 75 SSPIECAVCLDKFNKGD-KCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
.+...|||||+.+.... .+.... |.|.||..|+..| ...+||+||.-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 34567999999997654 334445 9999999999999 4578999998655
No 40
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=3.4e-07 Score=55.63 Aligned_cols=46 Identities=26% Similarity=0.561 Sum_probs=34.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCc-ccHHhHHHHHc-CCCCCcccccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLL-TNPNCPICRSTAN 126 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~-~~~~CP~Cr~~~~ 126 (192)
..+|.||++.-.+. .+-. |||. .|..|-.+-++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvds---VlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH---HHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37899999974332 2233 9998 89999765444 6889999999884
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=2.1e-07 Score=77.12 Aligned_cols=56 Identities=29% Similarity=0.523 Sum_probs=43.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCCCCCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRRFGEE 133 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~ 133 (192)
..+..|+||++-++.. +..+.|.|.||.+||..-++. ++.||.||+.+..+.....
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence 4467799999988654 344559999999999988866 7789999999877654333
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=9.9e-07 Score=73.35 Aligned_cols=49 Identities=33% Similarity=0.766 Sum_probs=41.4
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCc-ccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
....+|.|||.+- ....++| |.|. .|..|-+...-.++.||+||+++..
T Consensus 288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 3467899999984 4558899 9999 9999999977778889999998854
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.13 E-value=5.8e-07 Score=56.84 Aligned_cols=47 Identities=26% Similarity=0.725 Sum_probs=23.3
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
..|++|.+-+..+ ..+..|.|+||..||..-+. ..||+|+.+.-.++
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 4599999998654 33444999999999988544 35999999876544
No 44
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.1e-06 Score=71.53 Aligned_cols=45 Identities=33% Similarity=0.882 Sum_probs=38.4
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
.+...|+||++.|..+ ..++ |+|.||..|+..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 4567899999999877 6778 9999999999999874456999994
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=4.3e-06 Score=70.60 Aligned_cols=54 Identities=31% Similarity=0.845 Sum_probs=41.6
Q ss_pred CCCcccccCccccC-CCceEEcCCCCCcccHHhHHHHHcC--CCCCcccccccccCC
Q 040080 76 SPIECAVCLDKFNK-GDKCRLLPICNHSFHAQCVDAWLLT--NPNCPICRSTANSRR 129 (192)
Q Consensus 76 ~~~~C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 129 (192)
....|+||++.+.- ++.....+.|||.|-.+||+.|+.+ ...||.|..+...+.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 35679999999864 4555555669999999999999964 345999988766554
No 46
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.96 E-value=3e-06 Score=71.43 Aligned_cols=46 Identities=26% Similarity=0.827 Sum_probs=38.6
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--CCCCccccccccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--NPNCPICRSTANS 127 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 127 (192)
..|-||-+. ...+.+.| |||..|..|+..|-.. .++||.||..+.-
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 459999886 56778888 9999999999999855 5789999998754
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=5.6e-06 Score=67.41 Aligned_cols=51 Identities=25% Similarity=0.428 Sum_probs=39.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCCCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRRFG 131 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 131 (192)
..+|+||+....-+ ..++ |+|.||.-||+--..+ ..+|++||.++.+.-..
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 45799999986444 5566 9999999999865544 56699999999775443
No 48
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.91 E-value=1.9e-06 Score=77.75 Aligned_cols=51 Identities=24% Similarity=0.466 Sum_probs=40.8
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
...|++|+..+..+......+ |+|.||..||..|.+.-.+||+||..+...
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 345777777776554444566 999999999999999999999999987553
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=6.6e-06 Score=69.14 Aligned_cols=53 Identities=36% Similarity=0.902 Sum_probs=39.3
Q ss_pred CCCCcccccCccccCCC----ceEEcCCCCCcccHHhHHHHHc--C-----CCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGD----KCRLLPICNHSFHAQCVDAWLL--T-----NPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fh~~Ci~~wl~--~-----~~~CP~Cr~~~~~ 127 (192)
..+.+|.||++...... .-.++|+|.|.||..||+.|-. + .+.||.||.....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 34678999999874432 1234577999999999999983 3 3569999997643
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=4.5e-06 Score=75.40 Aligned_cols=50 Identities=24% Similarity=0.683 Sum_probs=39.3
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRRF 130 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~ 130 (192)
-..|+.|-..+++. .+.. |||+||..|+..-+.. +..||.|.+.|...++
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~k-C~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VITK-CGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred ceeCCCccCchhhH---HHHh-cchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 35699999776443 3444 9999999999998866 6779999999876554
No 51
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.52 E-value=2.8e-05 Score=74.45 Aligned_cols=82 Identities=22% Similarity=0.462 Sum_probs=56.8
Q ss_pred hcCCceEeeccCC-CCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC----------CCCcccccccccCC
Q 040080 61 EKLPCYEYLAKSK-GSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN----------PNCPICRSTANSRR 129 (192)
Q Consensus 61 ~~l~~~~~~~~~~-~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~----------~~CP~Cr~~~~~~~ 129 (192)
.-||......... ...++.|.||+.+-.....++.+. |+|+||..|.+.-|++. -+||+|+.++....
T Consensus 3469 ~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred hcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence 3466665444332 356778999999877777888898 99999999998766542 24999999998766
Q ss_pred CCCCCCcccchhhh
Q 040080 130 FGEESSRFSDIDVE 143 (192)
Q Consensus 130 ~~~~~~~~~~~~~~ 143 (192)
..+.-.+.....++
T Consensus 3548 LkDLldPiKel~ed 3561 (3738)
T KOG1428|consen 3548 LKDLLDPIKELYED 3561 (3738)
T ss_pred HHHHHHHHHHHHHH
Confidence 54444433333333
No 52
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.52 E-value=4.2e-05 Score=62.40 Aligned_cols=53 Identities=25% Similarity=0.670 Sum_probs=42.9
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHc------------------C-----CCCCcccccccccC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL------------------T-----NPNCPICRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~------------------~-----~~~CP~Cr~~~~~~ 128 (192)
.....|.|||.-|..+.....++ |-|.||..|+..+|. . ...||+||..+...
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 44567999999999988888888 999999999977663 1 23499999988654
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.46 E-value=0.00013 Score=45.54 Aligned_cols=42 Identities=19% Similarity=0.654 Sum_probs=27.2
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--CCCCcc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--NPNCPI 120 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~ 120 (192)
-...|||.+..|++ .+.... |||.|-...|.+|+.+ ...||+
T Consensus 10 ~~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 35679999999865 455555 9999999999999944 344998
No 54
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=0.0003 Score=58.11 Aligned_cols=48 Identities=21% Similarity=0.427 Sum_probs=37.5
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
.+...|++|+....++..+. . -|-+||..|+.+++.+++.||+=..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~--v-SGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLE--V-SGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEE--e-cceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 44567999999987763322 2 689999999999999999999854443
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=7.5e-05 Score=64.08 Aligned_cols=49 Identities=35% Similarity=0.764 Sum_probs=41.7
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
..+++|.||+..+..+ ..+| |||.||..||..-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 5678999999988665 4567 99999999999977777779999998875
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.35 E-value=0.0001 Score=63.53 Aligned_cols=52 Identities=23% Similarity=0.633 Sum_probs=42.5
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
..+..|++|...+..+... .. |||.||..|+..|+..+..||.|+..+....
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhh
Confidence 4567899999998776221 34 9999999999999999999999998876544
No 57
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=0.00022 Score=56.00 Aligned_cols=50 Identities=28% Similarity=0.674 Sum_probs=41.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--------CCCCcccccccccC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--------NPNCPICRSTANSR 128 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~ 128 (192)
...|..|-..+..++.++.. |-|+||++|++.|-.. ...||.|-.++.+.
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 44599999999889887765 9999999999999854 23599999988764
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=8.3e-05 Score=55.50 Aligned_cols=41 Identities=29% Similarity=0.626 Sum_probs=35.1
Q ss_pred CceEeeccCCCCCCCcccccCccccCCCceEEcCCCCCcccH
Q 040080 64 PCYEYLAKSKGSSPIECAVCLDKFNKGDKCRLLPICNHSFHA 105 (192)
Q Consensus 64 ~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~ 105 (192)
|.+.|+......+..+|.|||+++..++.+..+| |-.+||.
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 4556666666677789999999999999999999 9999996
No 59
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.25 E-value=0.00011 Score=53.49 Aligned_cols=38 Identities=24% Similarity=0.649 Sum_probs=31.3
Q ss_pred CCcccccCccccCCCceEEcCCCC------CcccHHhHHHHHcCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICN------HSFHAQCVDAWLLTN 115 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~------H~fh~~Ci~~wl~~~ 115 (192)
..+|+||++.+.....++.++ || |+||.+|+..|-+.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence 568999999998866777777 77 899999999994333
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.23 E-value=0.00012 Score=56.40 Aligned_cols=46 Identities=22% Similarity=0.616 Sum_probs=38.7
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
-++.|.||..+|..+ +... |||.||..|...-++....|-+|-+..
T Consensus 195 IPF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 195 IPFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred Cceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 357899999999776 3444 999999999999888888999998754
No 61
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.21 E-value=0.00011 Score=61.97 Aligned_cols=46 Identities=33% Similarity=0.863 Sum_probs=37.1
Q ss_pred CCcccccCccccC-CCceEEcCCCCCcccHHhHHHHHcCC--CCCccccc
Q 040080 77 PIECAVCLDKFNK-GDKCRLLPICNHSFHAQCVDAWLLTN--PNCPICRS 123 (192)
Q Consensus 77 ~~~C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~ 123 (192)
+..|..|-+.+.. ++...-+| |.|+||..|+...+.++ .+||.||.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4569999998753 34556688 99999999999999775 45999994
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00035 Score=58.32 Aligned_cols=49 Identities=22% Similarity=0.530 Sum_probs=42.0
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
.++..|+||+.. +......| |+|.=|..||.+.+.+.+.|=.|++.+..
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 567789999987 44446778 99999999999999999999999998754
No 63
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.02 E-value=0.001 Score=53.08 Aligned_cols=57 Identities=18% Similarity=0.314 Sum_probs=50.1
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCCCCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRFGEE 133 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 133 (192)
-..|++|.+.+.+...+..+..|||+|+.+|+...+.....||+|-.++..++....
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~L 277 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGL 277 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEee
Confidence 457999999999988888886799999999999999889999999999988775544
No 64
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.00 E-value=0.00014 Score=60.12 Aligned_cols=50 Identities=22% Similarity=0.585 Sum_probs=41.3
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
.....|.+|-..|.+... .+.|-|-||.+||..++.....||.|...+-.
T Consensus 13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 456789999999876633 33499999999999999999999999987744
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.82 E-value=0.0012 Score=39.53 Aligned_cols=45 Identities=22% Similarity=0.552 Sum_probs=22.3
Q ss_pred ccccCccccCCC-ceEEcCCCCCcccHHhHHHHHcC-CCCCccccccc
Q 040080 80 CAVCLDKFNKGD-KCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTA 125 (192)
Q Consensus 80 C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 125 (192)
|++|.+++...+ ...--+ ||+.++..|...-+.. +..||-||.+.
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 789999984332 323334 8999999999887764 77899999864
No 66
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.79 E-value=0.00044 Score=60.58 Aligned_cols=50 Identities=24% Similarity=0.663 Sum_probs=38.4
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-----CCCCcccccccccC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-----NPNCPICRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~ 128 (192)
.+..+|.+|-+.-+. .+... |.|.||..|+..++.. +-+||+|...+...
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 556789999998433 34455 9999999999888754 45699998877553
No 67
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00027 Score=57.52 Aligned_cols=43 Identities=33% Similarity=0.773 Sum_probs=34.3
Q ss_pred CCcccccCccccCCCceEEcCCCCCc-ccHHhHHHHHcCCCCCccccccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
...|+|||+. +..+..++ |||. -|.+|-... +.||+||+.+..
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHHHH
Confidence 4569999998 67788899 9998 788886552 379999997743
No 68
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.76 E-value=0.0019 Score=48.29 Aligned_cols=49 Identities=27% Similarity=0.657 Sum_probs=36.2
Q ss_pred CCCCcccccCccccCCCceEEcCCCCC-----cccHHhHHHHHcCC--CCCcccccccccC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNH-----SFHAQCVDAWLLTN--PNCPICRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~fh~~Ci~~wl~~~--~~CP~Cr~~~~~~ 128 (192)
..+..|-||.+.... . ..| |.. ..|.+|+..|+..+ ..|++|+++....
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 456789999988532 1 245 665 46999999999764 4599999988654
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00027 Score=59.15 Aligned_cols=46 Identities=33% Similarity=0.731 Sum_probs=33.4
Q ss_pred CCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 74 GSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
...+..|.||+++..+ ...+| |||+-| |..-- +...+||+||..+.
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3556779999998644 57788 999965 65542 33455999999774
No 70
>PHA02862 5L protein; Provisional
Probab=96.73 E-value=0.0013 Score=48.37 Aligned_cols=46 Identities=22% Similarity=0.608 Sum_probs=34.5
Q ss_pred CcccccCccccCCCceEEcCCCC-----CcccHHhHHHHHcC--CCCCcccccccccC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICN-----HSFHAQCVDAWLLT--NPNCPICRSTANSR 128 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 128 (192)
..|=||++.-... ..| |. ..-|.+|+..|+.. +..|++|+.+...+
T Consensus 3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 5699999985332 345 65 46899999999976 34599999987554
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.00077 Score=57.35 Aligned_cols=48 Identities=23% Similarity=0.663 Sum_probs=38.5
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--------CCCCccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--------NPNCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~ 123 (192)
.....|.||++..........+| |+|+||..|+..++.. .-.||-+..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 44577999999987778888899 9999999999999853 123887655
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.00085 Score=54.78 Aligned_cols=48 Identities=21% Similarity=0.533 Sum_probs=39.9
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
.-++.|-||...|..+ ++.. |+|.||..|-..-++....|++|-++..
T Consensus 239 ~~Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cCCccccccccccccc---hhhc-CCceeehhhhccccccCCcceecccccc
Confidence 3456799999999776 4455 9999999999988888889999988664
No 73
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0024 Score=51.69 Aligned_cols=51 Identities=25% Similarity=0.540 Sum_probs=38.3
Q ss_pred CCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--CCCCccccccccc
Q 040080 74 GSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--NPNCPICRSTANS 127 (192)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 127 (192)
+....+|++|-+.-..+ ....+ |+|+||..||..-+.. .-+||.|-.+..+
T Consensus 236 ~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 36678999999985443 33445 9999999999986654 3579999877653
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.53 E-value=0.0031 Score=52.69 Aligned_cols=55 Identities=22% Similarity=0.607 Sum_probs=40.0
Q ss_pred eccCCCCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHH--HcCCCCCccccccccc
Q 040080 69 LAKSKGSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAW--LLTNPNCPICRSTANS 127 (192)
Q Consensus 69 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w--l~~~~~CP~Cr~~~~~ 127 (192)
++++...+...|.||-+.+ .....+| |+|..|--|--.- |...+.||+||..+..
T Consensus 53 SaddtDEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 53 SADDTDEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred cccccccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 3334446667899999875 3446788 9999999997543 3457789999997754
No 75
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.47 E-value=0.0014 Score=45.69 Aligned_cols=33 Identities=24% Similarity=0.731 Sum_probs=26.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHH
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVD 109 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~ 109 (192)
.+...|++|-..+.. ......| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 345679999999976 4666678 99999999975
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.46 E-value=0.0015 Score=52.01 Aligned_cols=46 Identities=26% Similarity=0.623 Sum_probs=32.9
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
|.-|...-. ++...++. |+|+||..|...- ....||+||.++....
T Consensus 6 Cn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 6 CNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ 51 (233)
T ss_pred eccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeee
Confidence 666665544 55666666 9999999997762 2238999999876544
No 77
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.39 E-value=0.0017 Score=38.10 Aligned_cols=41 Identities=27% Similarity=0.858 Sum_probs=23.0
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCC--CCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNP--NCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~--~CP~C 121 (192)
|.+|.+-...+....... |+-.+|..|+..++.... .||.|
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 667777766653333223 888999999999998755 69987
No 78
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.38 E-value=0.0016 Score=59.90 Aligned_cols=50 Identities=26% Similarity=0.741 Sum_probs=38.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-------CCCCcccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-------NPNCPICRST 124 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-------~~~CP~Cr~~ 124 (192)
....+|.||++.+.....+-.-..|-|+||..||..|-.+ .-.||.|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4457899999999876665554459999999999999865 1249999843
No 79
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.24 E-value=0.0041 Score=37.17 Aligned_cols=40 Identities=30% Similarity=0.934 Sum_probs=25.6
Q ss_pred ccccCccccCCCceEEcCCCCC-----cccHHhHHHHHcC--CCCCccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNH-----SFHAQCVDAWLLT--NPNCPIC 121 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H-----~fh~~Ci~~wl~~--~~~CP~C 121 (192)
|-||++.-..... .+.| |+- ..|..|+..|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~-li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6789988655542 3345 653 6799999999974 5569887
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.22 E-value=0.0056 Score=49.96 Aligned_cols=57 Identities=19% Similarity=0.395 Sum_probs=44.2
Q ss_pred CCCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCCC
Q 040080 74 GSSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRFG 131 (192)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 131 (192)
......|||....|........+-.|||+|...++..- .....||+|-.++...+..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCEE
Confidence 35667899999999666555555449999999999995 3356799999998866543
No 81
>PHA03096 p28-like protein; Provisional
Probab=96.21 E-value=0.0023 Score=52.76 Aligned_cols=46 Identities=22% Similarity=0.559 Sum_probs=32.7
Q ss_pred CcccccCccccCC----CceEEcCCCCCcccHHhHHHHHcC---CCCCccccc
Q 040080 78 IECAVCLDKFNKG----DKCRLLPICNHSFHAQCVDAWLLT---NPNCPICRS 123 (192)
Q Consensus 78 ~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~ 123 (192)
..|.||++..... ..-..++.|.|.||..|+..|... ..+||.||.
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 6799999976532 122346779999999999999854 234555544
No 82
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.87 E-value=0.0044 Score=51.67 Aligned_cols=53 Identities=21% Similarity=0.458 Sum_probs=37.7
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCC
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRR 129 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 129 (192)
++-|+.|++.+...+.-..--+||-..|.-|...--.. +..||-||+......
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 44499999998766543333239988888887664333 678999999776554
No 83
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0061 Score=46.38 Aligned_cols=32 Identities=28% Similarity=0.807 Sum_probs=25.8
Q ss_pred CCCCcccHHhHHHHHcC----C-------CCCcccccccccCC
Q 040080 98 ICNHSFHAQCVDAWLLT----N-------PNCPICRSTANSRR 129 (192)
Q Consensus 98 ~C~H~fh~~Ci~~wl~~----~-------~~CP~Cr~~~~~~~ 129 (192)
+||.-||.-|+..||+. . ..||.|-.++..+.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 39999999999999964 1 24999998886553
No 84
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.46 E-value=0.00075 Score=57.02 Aligned_cols=52 Identities=23% Similarity=0.553 Sum_probs=43.1
Q ss_pred CCcccccCccccCC-CceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 77 PIECAVCLDKFNKG-DKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 77 ~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
...|+||...++.. +.+..+. |||.+|..|+.+|+.+...||.|+..+....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 45699999988654 4555566 9999999999999999888999999886544
No 85
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=95.44 E-value=0.037 Score=31.25 Aligned_cols=29 Identities=24% Similarity=0.314 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~~~~~ 31 (192)
++||.++++.++.+++.++.+.|.+++.+
T Consensus 6 IaIIv~V~vg~~iiii~~~~YaCcykk~~ 34 (38)
T PF02439_consen 6 IAIIVAVVVGMAIIIICMFYYACCYKKHR 34 (38)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 57778887777777777777766665443
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.28 E-value=0.009 Score=55.20 Aligned_cols=43 Identities=23% Similarity=0.662 Sum_probs=32.7
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
...|..|-..++.+ ..... |||.||..|+. .+...||-|+...
T Consensus 840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence 35799999988655 23334 99999999998 3556799998833
No 87
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.03 E-value=0.021 Score=46.99 Aligned_cols=43 Identities=28% Similarity=0.768 Sum_probs=33.8
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHc-CCCCCccccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRS 123 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~ 123 (192)
..|+.|..-+.++ ..++.|+|.||..||..-|. ....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799998877554 34567999999999987664 4677999976
No 88
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.00 E-value=0.011 Score=36.29 Aligned_cols=44 Identities=27% Similarity=0.619 Sum_probs=31.0
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.|-.|... +..-..+| |||+.+..|..-+ +-+-||.|-+++...
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 35555544 23335678 9999999998764 445699999988654
No 89
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.69 E-value=0.022 Score=47.08 Aligned_cols=48 Identities=27% Similarity=0.672 Sum_probs=36.9
Q ss_pred CcccccCccccCCC--ceEEcCCCCCcccHHhHHHHHcCC-CCCccccccc
Q 040080 78 IECAVCLDKFNKGD--KCRLLPICNHSFHAQCVDAWLLTN-PNCPICRSTA 125 (192)
Q Consensus 78 ~~C~IC~~~~~~~~--~~~~~~~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~~ 125 (192)
..|-||-++|...+ .+.....|||.|+..|+..-+... ..||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999998663 333333399999999999877663 4599999985
No 90
>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=94.61 E-value=0.033 Score=41.70 Aligned_cols=34 Identities=24% Similarity=0.716 Sum_probs=22.0
Q ss_pred CCcccccCccccCCCceEEcC-----------CCCC-cccHHhHHHHHc
Q 040080 77 PIECAVCLDKFNKGDKCRLLP-----------ICNH-SFHAQCVDAWLL 113 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~-----------~C~H-~fh~~Ci~~wl~ 113 (192)
+..|+|||+.-.+. .+|- .|+- .-|..|++++-+
T Consensus 2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 45799999985443 3322 1443 368899998753
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.37 E-value=0.015 Score=53.53 Aligned_cols=48 Identities=27% Similarity=0.733 Sum_probs=37.6
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC--CCCCcccccccccCCC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT--NPNCPICRSTANSRRF 130 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~ 130 (192)
..|.||++ .+.+...+ |+|.||..|+..-+.. ...||.||..+..+..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 77999999 34455666 9999999999987755 2359999998876553
No 92
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.33 E-value=0.03 Score=47.60 Aligned_cols=30 Identities=23% Similarity=0.728 Sum_probs=22.8
Q ss_pred CCCcccHHhHHHHHcCC-------------CCCcccccccccC
Q 040080 99 CNHSFHAQCVDAWLLTN-------------PNCPICRSTANSR 128 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~-------------~~CP~Cr~~~~~~ 128 (192)
|.-++|.+|+-+|+.++ ..||+||+.+...
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 44567899999998542 3599999998654
No 93
>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=94.23 E-value=0.041 Score=45.03 Aligned_cols=53 Identities=23% Similarity=0.540 Sum_probs=38.2
Q ss_pred cccccCcc-ccCCCceEEcCCCCCcccHHhHHHHHcC-CCCCcccccccccCCCC
Q 040080 79 ECAVCLDK-FNKGDKCRLLPICNHSFHAQCVDAWLLT-NPNCPICRSTANSRRFG 131 (192)
Q Consensus 79 ~C~IC~~~-~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 131 (192)
.|++|... |-+++.......|+|..|.+|++.-+.. ...||.|-..+....+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 49999875 4445443333349999999999998866 45699998877655543
No 94
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.20 E-value=0.082 Score=32.43 Aligned_cols=45 Identities=29% Similarity=0.715 Sum_probs=35.2
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcc--cccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPI--CRST 124 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~--Cr~~ 124 (192)
....|++|-+.|.+++.+.+-|.||-.+|+.|.+. ...|-. |..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 34569999999998888888888999999999654 455654 5443
No 95
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.14 E-value=0.037 Score=40.19 Aligned_cols=54 Identities=20% Similarity=0.458 Sum_probs=37.1
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC---CCCCcccccccccCC
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT---NPNCPICRSTANSRR 129 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~ 129 (192)
.-.+|.||.+.-.+..=+.--..||-..|..|....++. +..||+|++++....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 356799999975433211111239999999998765543 677999999987643
No 96
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.00 E-value=0.032 Score=45.70 Aligned_cols=46 Identities=24% Similarity=0.704 Sum_probs=37.2
Q ss_pred CCcccccCccccCCC-ceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 77 PIECAVCLDKFNKGD-KCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
...||||.+.+.... .+..++ |||..|..|+......+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 445999999765543 444567 9999999999998877888999988
No 97
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.83 E-value=0.043 Score=45.63 Aligned_cols=47 Identities=19% Similarity=0.482 Sum_probs=34.9
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
.+-.+||||.+.+..+ +..-. =||+.|..|=.+ ..+.||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCccc--ceecC-CCcEehhhhhhh---hcccCCcccccccc
Confidence 4566899999999776 22222 479999998653 56779999999874
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=93.82 E-value=0.033 Score=51.10 Aligned_cols=39 Identities=28% Similarity=0.609 Sum_probs=27.7
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPI 120 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~ 120 (192)
|+||--.+.. ....... |+|+.|.+|...|+.....||.
T Consensus 1031 C~~C~l~V~g-ss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVRG-SSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEeec-cchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 5555444322 2223344 9999999999999999999996
No 99
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.75 E-value=0.032 Score=51.97 Aligned_cols=36 Identities=22% Similarity=0.532 Sum_probs=28.2
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHH
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWL 112 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 112 (192)
..+..|.+|...+... .-.+.| |||.||++|+..-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 4467899999988665 445567 99999999997654
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.70 E-value=0.051 Score=46.35 Aligned_cols=48 Identities=19% Similarity=0.425 Sum_probs=39.4
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCC---CCccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNP---NCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~---~CP~Cr~ 123 (192)
...+.|||-.+.-...++...+. |||+...+-+..-.++.. .||.|=.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 45678999998887777878888 999999999999776644 4999933
No 101
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=93.41 E-value=0.08 Score=38.52 Aligned_cols=13 Identities=31% Similarity=0.526 Sum_probs=5.6
Q ss_pred HHHHHHHHHhhcc
Q 040080 21 FIHVCIVARTFRA 33 (192)
Q Consensus 21 ~~~~~~~~~~~r~ 33 (192)
+++++..+|++|+
T Consensus 17 ~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 17 FLFYCHNRRRRRR 29 (130)
T ss_pred HHHHHHHHHHhhc
Confidence 3333444444444
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.08 E-value=0.043 Score=43.27 Aligned_cols=40 Identities=38% Similarity=0.822 Sum_probs=31.1
Q ss_pred ccccCccccCCCceEEcCCCCCc-ccHHhHHHHHcCCCCCccccccccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
|-.|.+. +..+..+| |.|. +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence 8888776 66788899 9998 99999654 3459999986643
No 103
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.05 E-value=0.031 Score=53.98 Aligned_cols=46 Identities=33% Similarity=0.837 Sum_probs=37.9
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
.....|.||++.+.+...+ .. |||.+|..|+..|+..+..||.|+.
T Consensus 1151 ~~~~~c~ic~dil~~~~~I--~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGI--AG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred hcccchHHHHHHHHhcCCe--ee-echhHhhhHHHHHHHHhccCcchhh
Confidence 4456899999998754332 23 9999999999999999999999984
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.04 E-value=0.025 Score=50.92 Aligned_cols=44 Identities=25% Similarity=0.590 Sum_probs=33.3
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
-..|.||+..|....-..+..+|||..|..|+..- .+.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 34699999888766555555569999999999885 357898 544
No 105
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.95 E-value=0.043 Score=45.37 Aligned_cols=43 Identities=26% Similarity=0.658 Sum_probs=29.1
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
.|--|--.+. ..-+.+| |.|+||.+|-.. ...+.||.|--.+.
T Consensus 92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 4666654432 2335678 999999999765 33567999976553
No 106
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=92.49 E-value=0.053 Score=43.31 Aligned_cols=55 Identities=27% Similarity=0.603 Sum_probs=38.9
Q ss_pred CCCcccccCcc-ccCCC-ceEEcCCCCCcccHHhHHHHHcCC-CCCc--ccccccccCCC
Q 040080 76 SPIECAVCLDK-FNKGD-KCRLLPICNHSFHAQCVDAWLLTN-PNCP--ICRSTANSRRF 130 (192)
Q Consensus 76 ~~~~C~IC~~~-~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~~-~~CP--~Cr~~~~~~~~ 130 (192)
.+..||||..+ |.+++ .+.+-|.|-|..|.+|++.-+... ..|| -|-.-+....+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf 68 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKF 68 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcc
Confidence 34579999986 33443 333446699999999999998775 4599 68775544443
No 107
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=92.44 E-value=0.058 Score=32.03 Aligned_cols=44 Identities=25% Similarity=0.649 Sum_probs=24.8
Q ss_pred cccccCccccCCCceEEcCCCC-CcccHHhHHHHHcCCCCCcccccccccC
Q 040080 79 ECAVCLDKFNKGDKCRLLPICN-HSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~-H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.|--|+-... . ... |. |..|..|+...+.....||+|..+++.+
T Consensus 4 nCKsCWf~~k---~--Li~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANK---G--LIK-CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--S---S--EEE--SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCC---C--eee-ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4666775532 2 223 65 9999999999999899999999988653
No 108
>PF15050 SCIMP: SCIMP protein
Probab=91.84 E-value=0.37 Score=34.36 Aligned_cols=33 Identities=18% Similarity=0.373 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcc
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIVARTFRAGLI 36 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~~~~~r~~~~ 36 (192)
|=||+++.++++++++-++ .+|.++|.+|++..
T Consensus 8 FWiiLAVaII~vS~~lglI-lyCvcR~~lRqGkk 40 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLI-LYCVCRWQLRQGKK 40 (133)
T ss_pred hHHHHHHHHHHHHHHHHHH-HHHHHHHHHHcccc
Confidence 3467777766665555444 45777787776644
No 109
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.63 E-value=0.085 Score=42.54 Aligned_cols=51 Identities=20% Similarity=0.572 Sum_probs=34.7
Q ss_pred CCCCCcccccCccccCCCce-EEcCCCC-----CcccHHhHHHHHcCC--------CCCccccccc
Q 040080 74 GSSPIECAVCLDKFNKGDKC-RLLPICN-----HSFHAQCVDAWLLTN--------PNCPICRSTA 125 (192)
Q Consensus 74 ~~~~~~C~IC~~~~~~~~~~-~~~~~C~-----H~fh~~Ci~~wl~~~--------~~CP~Cr~~~ 125 (192)
...+..|=||+..=++.... -+.| |. |..|..|+..|+..+ -+||-|++..
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 35567799999874433211 2234 53 789999999999542 1399999864
No 110
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.38 E-value=0.19 Score=46.66 Aligned_cols=53 Identities=21% Similarity=0.550 Sum_probs=39.6
Q ss_pred CCCCcccccCccccCCCceEEcCCCCC-----cccHHhHHHHHcCCC--CCcccccccccCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNH-----SFHAQCVDAWLLTNP--NCPICRSTANSRR 129 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~fh~~Ci~~wl~~~~--~CP~Cr~~~~~~~ 129 (192)
.+...|-||..+-..+++.. .| |.. ..|.+|+.+|+.-+. .|-+|+.++..++
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 45578999998865555433 45 653 489999999998644 4999999987665
No 111
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.59 E-value=0.092 Score=48.00 Aligned_cols=61 Identities=31% Similarity=0.768 Sum_probs=42.9
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC---CCCcccccccccCCCCCCCCcccchhh
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN---PNCPICRSTANSRRFGEESSRFSDIDV 142 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 142 (192)
..+|+||+..+..+ ..+. |.|.|+..|+..-+... ..||+|+..+..+.... ..+.++...
T Consensus 21 ~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E-s~r~sq~vq 84 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE-SPRFSQLSK 84 (684)
T ss_pred hccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc-cchHHHHHH
Confidence 45799999998776 3455 99999999998766543 45999998776655433 434444433
No 112
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.41 E-value=0.31 Score=39.34 Aligned_cols=55 Identities=15% Similarity=0.262 Sum_probs=40.3
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRFG 131 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 131 (192)
...+.|+|---+|........+-.|||+|-..-+.+- ...+|++|.+.+...+..
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI 163 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence 3456799988887655444445459999999888873 467899999988766533
No 113
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=89.24 E-value=0.66 Score=33.45 Aligned_cols=15 Identities=33% Similarity=0.459 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIG 17 (192)
Q Consensus 3 ~~iil~~~~~~~~i~ 17 (192)
.+||+++++.+++++
T Consensus 67 ~~Ii~gv~aGvIg~I 81 (122)
T PF01102_consen 67 IGIIFGVMAGVIGII 81 (122)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHH
Confidence 455555555554433
No 114
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.04 E-value=0.21 Score=41.09 Aligned_cols=31 Identities=23% Similarity=0.655 Sum_probs=24.5
Q ss_pred CCCcccHHhHHHHHcC-------------CCCCcccccccccCC
Q 040080 99 CNHSFHAQCVDAWLLT-------------NPNCPICRSTANSRR 129 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~~~ 129 (192)
|...+|.+|+.+|+.. +.+||+||+.+...+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 6677899999988742 356999999987754
No 115
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=88.40 E-value=0.61 Score=28.08 Aligned_cols=43 Identities=21% Similarity=0.566 Sum_probs=19.4
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC-----CCCCcccccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT-----NPNCPICRST 124 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~ 124 (192)
..|+|....+.. .++... |.|.-+.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 358888888744 556666 99984422 3445533 2249999864
No 116
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=88.29 E-value=0.41 Score=44.17 Aligned_cols=40 Identities=20% Similarity=0.507 Sum_probs=29.4
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPI 120 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~ 120 (192)
.|.+|-..+.. ....-+.|||.-|.+|+.+|+..+..||.
T Consensus 781 ~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 57777765422 11223459999999999999999888876
No 117
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.52 E-value=0.35 Score=43.63 Aligned_cols=50 Identities=30% Similarity=0.831 Sum_probs=39.6
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCCCCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRRFGE 132 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 132 (192)
.....|.||+..+ ..+..+ |. |..|+..|+..+..||+|+..+.......
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~ 526 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS 526 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence 4567899999997 334555 77 99999999999999999999887654333
No 118
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=87.29 E-value=1.1 Score=32.38 Aligned_cols=29 Identities=21% Similarity=0.267 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIVARTFR 32 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~~~~~r 32 (192)
+|++.++.+++|+++++++++|+.+|+++
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45666666777777777666555544433
No 119
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.53 E-value=0.53 Score=43.77 Aligned_cols=52 Identities=8% Similarity=0.133 Sum_probs=35.9
Q ss_pred CCCCcccccCccccCC---CceEEcCCCCCcccHHhHHHHHcC------CCCCcccccccc
Q 040080 75 SSPIECAVCLDKFNKG---DKCRLLPICNHSFHAQCVDAWLLT------NPNCPICRSTAN 126 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~---~~~~~~~~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~~~ 126 (192)
.....|.+|+-++..+ ..+-.+.+|+|.||..||..|... +-.|++|..-|.
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 3445688888887762 222223349999999999999854 334888887653
No 120
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.59 E-value=0.38 Score=41.55 Aligned_cols=39 Identities=26% Similarity=0.578 Sum_probs=27.4
Q ss_pred CCCCcccccCccccCC-CceEEcCCCCCcccHHhHHHHHcC
Q 040080 75 SSPIECAVCLDKFNKG-DKCRLLPICNHSFHAQCVDAWLLT 114 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~ 114 (192)
....+|.||+...... ....... |+|.||..|..+.+..
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhh
Confidence 3466899999444333 3333344 9999999999998864
No 121
>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=83.99 E-value=3.5 Score=29.16 Aligned_cols=18 Identities=17% Similarity=0.253 Sum_probs=13.4
Q ss_pred HcCCCCCcccccccccCC
Q 040080 112 LLTNPNCPICRSTANSRR 129 (192)
Q Consensus 112 l~~~~~CP~Cr~~~~~~~ 129 (192)
+.+...|+.|++++.-++
T Consensus 82 LGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLDP 99 (114)
T ss_pred hchhhccCcCCCcCccCc
Confidence 444557999999997654
No 122
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=83.93 E-value=1.4 Score=36.82 Aligned_cols=52 Identities=23% Similarity=0.540 Sum_probs=35.1
Q ss_pred CCCCcccccCcccc---------------CC-CceEEcCCCCCcccHHhHHHHHcC---------CCCCccccccccc
Q 040080 75 SSPIECAVCLDKFN---------------KG-DKCRLLPICNHSFHAQCVDAWLLT---------NPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~---------------~~-~~~~~~~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 127 (192)
....+|++|+..-. .+ -.-...| |||+--.+-..-|... +..||.|-+.+..
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 45678999997521 00 0112356 9999888888888754 3459999887754
No 123
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.91 E-value=0.56 Score=38.79 Aligned_cols=51 Identities=24% Similarity=0.611 Sum_probs=35.6
Q ss_pred CCcccccCccccCCCc-eEEcCCCC-----CcccHHhHHHHHcC--CCCCcccccccccC
Q 040080 77 PIECAVCLDKFNKGDK-CRLLPICN-----HSFHAQCVDAWLLT--NPNCPICRSTANSR 128 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~-~~~~~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 128 (192)
+..|-||..+...... ....| |. +..|..|+..|+.. +..|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4679999997654321 23344 65 45799999999984 45699998866443
No 124
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=83.69 E-value=0.39 Score=43.38 Aligned_cols=45 Identities=27% Similarity=0.728 Sum_probs=27.5
Q ss_pred CCCCcccccCcc-----ccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 75 SSPIECAVCLDK-----FNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~-----~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
...+.|.+|... |......+... |+++||..|+.. .+.-||-|-+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCchHH
Confidence 345678888331 11111222334 999999999665 3444999955
No 125
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=83.59 E-value=0.58 Score=40.70 Aligned_cols=36 Identities=25% Similarity=0.695 Sum_probs=28.5
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT 114 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 114 (192)
+++..|+||-.-|..+ +++| |+|.+|..|-..-+.+
T Consensus 2 eeelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP---IILP-CSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCc---eEee-cccHHHHHHHHhhccc
Confidence 3466799999988665 6788 9999999998865543
No 126
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=82.06 E-value=1.1 Score=35.21 Aligned_cols=42 Identities=29% Similarity=0.741 Sum_probs=28.8
Q ss_pred CCCcccccCcc-----ccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 76 SPIECAVCLDK-----FNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 76 ~~~~C~IC~~~-----~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
.++.|-+|-.. |+. +.+..-+.|+-+||..|... ..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 35778888753 222 23444556999999999662 66999954
No 127
>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=81.97 E-value=0.8 Score=23.69 Aligned_cols=23 Identities=22% Similarity=0.647 Sum_probs=12.4
Q ss_pred cccccCccccCCCceEEcCCCCCcc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSF 103 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~f 103 (192)
.||-|...+.. ....-|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 36666666522 233344577766
No 128
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=81.54 E-value=0.82 Score=35.96 Aligned_cols=48 Identities=23% Similarity=0.529 Sum_probs=35.8
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
.-..|.+|..-.-.+ +....||-.+|..|+..++.+...||.|.--++
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~ 227 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT 227 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence 345799999875443 222338888999999999999888999955443
No 129
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=81.10 E-value=1 Score=32.61 Aligned_cols=8 Identities=0% Similarity=-0.052 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 040080 22 IHVCIVAR 29 (192)
Q Consensus 22 ~~~~~~~~ 29 (192)
+++.+..+
T Consensus 15 ~~~~~~~~ 22 (130)
T PF12273_consen 15 FLFLFYCH 22 (130)
T ss_pred HHHHHHHH
Confidence 33333333
No 130
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.13 E-value=2.4 Score=30.03 Aligned_cols=46 Identities=22% Similarity=0.382 Sum_probs=33.1
Q ss_pred CCcccccCccccCC----------CceEEcCCCCCcccHHhHHHHHcCCCCCcccc
Q 040080 77 PIECAVCLDKFNKG----------DKCRLLPICNHSFHAQCVDAWLLTNPNCPICR 122 (192)
Q Consensus 77 ~~~C~IC~~~~~~~----------~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 122 (192)
...|--|+..|... .....-+.|++.|+.+|-.-+-+.=..||-|-
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 34599999988542 11122455999999999888777666799995
No 131
>PF15102 TMEM154: TMEM154 protein family
Probab=79.88 E-value=0.49 Score=35.09 Aligned_cols=10 Identities=20% Similarity=0.654 Sum_probs=6.2
Q ss_pred HHhHHHHHcC
Q 040080 105 AQCVDAWLLT 114 (192)
Q Consensus 105 ~~Ci~~wl~~ 114 (192)
-.=+++|+.+
T Consensus 127 meeldkwm~s 136 (146)
T PF15102_consen 127 MEELDKWMNS 136 (146)
T ss_pred HHHHHhHHHh
Confidence 3447777754
No 132
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.36 E-value=0.88 Score=39.29 Aligned_cols=44 Identities=25% Similarity=0.585 Sum_probs=32.5
Q ss_pred CCcccccCccccCCCceE--EcCCCCCcccHHhHHHHHcCCCCCccc
Q 040080 77 PIECAVCLDKFNKGDKCR--LLPICNHSFHAQCVDAWLLTNPNCPIC 121 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~--~~~~C~H~fh~~Ci~~wl~~~~~CP~C 121 (192)
-..|+.|.-.+.-...+. .-. |||-||..|...|...+..|..|
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 567999988775444333 235 99999999999998877777554
No 133
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.29 E-value=1.3 Score=38.98 Aligned_cols=51 Identities=24% Similarity=0.690 Sum_probs=36.6
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC--------CCCcc--cccccccC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN--------PNCPI--CRSTANSR 128 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~--------~~CP~--Cr~~~~~~ 128 (192)
.....|-||.+.+.. .+..+. |||.|+..|...++.++ -+||. |++.+...
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~ 128 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGED 128 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCc
Confidence 446679999999865 445556 99999999999998652 13554 66655443
No 134
>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=78.75 E-value=1.8 Score=26.27 Aligned_cols=43 Identities=30% Similarity=0.549 Sum_probs=20.3
Q ss_pred ccccCccccCCC------ceEEcCCCCCcccHHhHHHHHcCCCCCcccc
Q 040080 80 CAVCLDKFNKGD------KCRLLPICNHSFHAQCVDAWLLTNPNCPICR 122 (192)
Q Consensus 80 C~IC~~~~~~~~------~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 122 (192)
|--|+..|.... ....-|.|++.|+.+|-.---++=..||-|-
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 2334466999999999543222234599883
No 135
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.61 E-value=2.2 Score=35.41 Aligned_cols=50 Identities=22% Similarity=0.534 Sum_probs=39.3
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
.....|-||...+..+.. ... |.|.|+..|...|....+.||.|+....+
T Consensus 103 ~~~~~~~~~~g~l~vpt~--~qg-~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTR--IQG-CWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEeccc--ccC-ceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 556679999988765422 223 99999999999999999999999986654
No 136
>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 PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=78.07 E-value=6 Score=25.99 Aligned_cols=28 Identities=14% Similarity=0.272 Sum_probs=13.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 1 MVMAIIISVIFLFLGIGALIFIHVCIVA 28 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~~l~~~~~~~~~ 28 (192)
|-+.+++..+++|+.+++.+++++.|+.
T Consensus 1 M~~~fl~~plivf~ifVap~WL~lHY~s 28 (75)
T PF06667_consen 1 MSFEFLFVPLIVFMIFVAPIWLILHYRS 28 (75)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444555555555555554443
No 138
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=77.76 E-value=1.4 Score=35.95 Aligned_cols=50 Identities=28% Similarity=0.557 Sum_probs=35.2
Q ss_pred CCCcccccCccccCCCceEE---cCCCCCcccHHhHHHHHcC---------CCCCccccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRL---LPICNHSFHAQCVDAWLLT---------NPNCPICRSTA 125 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~---~~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~ 125 (192)
...+|-+|..++...+..+. -+.|+-.+|..|+...+.. ...||.|++-+
T Consensus 181 ~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 181 LNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred cchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 34689999999954443333 2348899999999984422 34599999844
No 139
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=77.16 E-value=6.5 Score=20.67 Aligned_cols=17 Identities=24% Similarity=0.567 Sum_probs=10.3
Q ss_pred ChHHHHHHHHHHHHHHH
Q 040080 1 MVMAIIISVIFLFLGIG 17 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~ 17 (192)
|.+++|.+.+++++.++
T Consensus 1 Ms~~vi~g~llv~lLl~ 17 (29)
T PRK14750 1 MNFSIVCGALLVLLLLG 17 (29)
T ss_pred CcHHHHHHHHHHHHHHH
Confidence 66777777765554333
No 140
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=77.08 E-value=1.8 Score=36.21 Aligned_cols=46 Identities=20% Similarity=0.419 Sum_probs=34.8
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC---CCCccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN---PNCPIC 121 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~---~~CP~C 121 (192)
..-+.||+-.+.-...+....+. |||+.-..-++...++. -.||.|
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred cceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 44578999877766666667777 99999999999865543 239999
No 141
>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=75.58 E-value=1.7 Score=25.77 Aligned_cols=43 Identities=33% Similarity=0.658 Sum_probs=28.1
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHc------CCCCCccccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL------TNPNCPICRS 123 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~------~~~~CP~Cr~ 123 (192)
|.||......+..+.--. |+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~-C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDS-CNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBST-TSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCC-CChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 888988444444444344 999999999865332 1335888864
No 142
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=73.19 E-value=12 Score=21.19 Aligned_cols=28 Identities=11% Similarity=0.305 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 040080 6 IISVIFLFLGIGALIFIHVCIVARTFRAG 34 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~~~~r~~ 34 (192)
+..++.++++++++++..++|. .+.|+.
T Consensus 6 IaIIv~V~vg~~iiii~~~~Ya-Ccykk~ 33 (38)
T PF02439_consen 6 IAIIVAVVVGMAIIIICMFYYA-CCYKKH 33 (38)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH-HHHccc
Confidence 3444455555555555554444 444443
No 143
>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=73.16 E-value=4.5 Score=24.92 Aligned_cols=46 Identities=26% Similarity=0.649 Sum_probs=31.6
Q ss_pred cccccCccccCCCceEEcCCCCC--cccHHhHHHHHcCCCCCcccccccccC
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNH--SFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H--~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.|-.|-.++.....-..+ |.+ .||..|.+.-| +..||.|--.+..+
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 366677776655422222 553 59999999966 67899998877654
No 144
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=72.65 E-value=3.2 Score=34.84 Aligned_cols=47 Identities=21% Similarity=0.426 Sum_probs=33.1
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
....|-.|.++.......+.-. |.|.||.+|-.---.+=..||.|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCC
Confidence 3445999977776665555555 9999999996653333445999963
No 145
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=72.43 E-value=3.1 Score=34.97 Aligned_cols=49 Identities=22% Similarity=0.564 Sum_probs=35.4
Q ss_pred CCcccccCccccCCC-ceEEcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 77 PIECAVCLDKFNKGD-KCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
...|+||.+.....+ ...-.| |++..|..|+..-...+.+||.||.+..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccc
Confidence 467999999774332 222234 8888888888887777889999996553
No 146
>PRK09458 pspB phage shock protein B; Provisional
Probab=72.22 E-value=5.9 Score=25.96 Aligned_cols=28 Identities=14% Similarity=0.179 Sum_probs=14.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 1 MVMAIIISVIFLFLGIGALIFIHVCIVA 28 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~~l~~~~~~~~~ 28 (192)
|.+.++++-+++|+.+++-+++.+.|..
T Consensus 1 m~~~fl~~PliiF~ifVaPiWL~LHY~s 28 (75)
T PRK09458 1 MSALFLAIPLTIFVLFVAPIWLWLHYRS 28 (75)
T ss_pred CcchHHHHhHHHHHHHHHHHHHHHhhcc
Confidence 4444445555555555566665555443
No 147
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=72.10 E-value=2.4 Score=32.39 Aligned_cols=12 Identities=42% Similarity=0.587 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGI 16 (192)
Q Consensus 5 iil~~~~~~~~i 16 (192)
|++++++++++|
T Consensus 80 iivgvi~~Vi~I 91 (179)
T PF13908_consen 80 IIVGVICGVIAI 91 (179)
T ss_pred eeeehhhHHHHH
Confidence 344443333333
No 148
>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=71.64 E-value=2.3 Score=27.09 Aligned_cols=12 Identities=25% Similarity=0.863 Sum_probs=8.8
Q ss_pred ccHHhHHHHHcC
Q 040080 103 FHAQCVDAWLLT 114 (192)
Q Consensus 103 fh~~Ci~~wl~~ 114 (192)
||..|+..|+..
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999999999853
No 149
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=71.43 E-value=11 Score=24.71 Aligned_cols=22 Identities=9% Similarity=0.182 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~ 27 (192)
+++-+++|+.+++.++++..|.
T Consensus 6 l~~Pliif~ifVap~wl~lHY~ 27 (75)
T TIGR02976 6 LAIPLIIFVIFVAPLWLILHYR 27 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444455555554444
No 150
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=70.98 E-value=3.3 Score=32.95 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=5.7
Q ss_pred hHHHHHHHHHHH
Q 040080 2 VMAIIISVIFLF 13 (192)
Q Consensus 2 ~~~iil~~~~~~ 13 (192)
+|.|+|++++++
T Consensus 15 iLNiaI~IV~lL 26 (217)
T PF07423_consen 15 ILNIAIGIVSLL 26 (217)
T ss_pred hHHHHHHHHHHH
Confidence 445555554433
No 151
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.84 E-value=1.6 Score=40.63 Aligned_cols=43 Identities=26% Similarity=0.584 Sum_probs=30.5
Q ss_pred CCcccccCccccCC----CceEEcCCCCCcccHHhHHHHHcCCCCCccc
Q 040080 77 PIECAVCLDKFNKG----DKCRLLPICNHSFHAQCVDAWLLTNPNCPIC 121 (192)
Q Consensus 77 ~~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 121 (192)
+..|.-|.+..... ..+...- |||+||..|+..-..+++ |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 34699999876532 3555666 999999999987766554 5444
No 152
>PHA02902 putative IMV membrane protein; Provisional
Probab=70.51 E-value=18 Score=22.95 Aligned_cols=15 Identities=20% Similarity=0.383 Sum_probs=7.1
Q ss_pred CCCCCCCCHHHHhcC
Q 040080 49 SIGSTSMSRDDVEKL 63 (192)
Q Consensus 49 ~~~~~~~~~~~i~~l 63 (192)
..-...++.+.++.+
T Consensus 48 ~~F~D~lTpDQirAl 62 (70)
T PHA02902 48 PLFKDSLTPDQIKAL 62 (70)
T ss_pred chhhccCCHHHHHHH
Confidence 333444555555443
No 153
>PLN02400 cellulose synthase
Probab=70.14 E-value=7.1 Score=38.01 Aligned_cols=52 Identities=19% Similarity=0.395 Sum_probs=33.5
Q ss_pred CCCcccccCccccC---CCceEEcCCCCCcccHHhHHH-HHcCCCCCccccccccc
Q 040080 76 SPIECAVCLDKFNK---GDKCRLLPICNHSFHAQCVDA-WLLTNPNCPICRSTANS 127 (192)
Q Consensus 76 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~~ 127 (192)
....|.||-+++.. ++.-...-.|+--.|..|.+- .-..++.||-|++....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 34579999998743 222222223777799999842 11226779999998763
No 154
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=70.06 E-value=6.9 Score=29.70 Aligned_cols=23 Identities=22% Similarity=0.480 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q 040080 11 FLFLGIGALIFIHVCIVARTFRA 33 (192)
Q Consensus 11 ~~~~~i~~l~~~~~~~~~~~~r~ 33 (192)
++++++.+++++++.++.++.|+
T Consensus 99 ~Vl~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Confidence 34444444444444445444443
No 155
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=69.38 E-value=9.3 Score=25.22 Aligned_cols=53 Identities=19% Similarity=0.374 Sum_probs=19.7
Q ss_pred CCCCcccccCccccC---CCceEEcCCCCCcccHHhHHHHHc-CCCCCccccccccc
Q 040080 75 SSPIECAVCLDKFNK---GDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRSTANS 127 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 127 (192)
.....|.||-+.+.. ++.-..--.|+--.|..|..-=.+ .++.||-|+++...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 345679999998742 222111122777789999875443 36779999987754
No 156
>PRK00523 hypothetical protein; Provisional
Probab=69.32 E-value=19 Score=23.37 Aligned_cols=19 Identities=21% Similarity=0.265 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFI 22 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~ 22 (192)
.|+++++.+++++++-+|+
T Consensus 7 ~I~l~i~~li~G~~~Gffi 25 (72)
T PRK00523 7 ALGLGIPLLIVGGIIGYFV 25 (72)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444443333
No 157
>PLN02189 cellulose synthase
Probab=69.02 E-value=8.1 Score=37.47 Aligned_cols=52 Identities=21% Similarity=0.457 Sum_probs=34.5
Q ss_pred CCCcccccCcccc---CCCceEEcCCCCCcccHHhHHHHHc-CCCCCccccccccc
Q 040080 76 SPIECAVCLDKFN---KGDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRSTANS 127 (192)
Q Consensus 76 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 127 (192)
....|.||-+++. .++.-.....|+--.|..|.+-=.+ .++.||-|++....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 4557999999875 2333222333777799999943222 26779999998763
No 158
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=68.88 E-value=12 Score=25.09 Aligned_cols=27 Identities=11% Similarity=0.289 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIVART 30 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~~~~ 30 (192)
+|+++..+.+.++++++|+++.+..|.
T Consensus 37 sIVI~FWv~LA~FV~~lF~iL~~ms~s 63 (90)
T PF15183_consen 37 SIVIAFWVSLAAFVVFLFLILLYMSWS 63 (90)
T ss_pred eeehhHHHHHHHHHHHHHHHHHHHhcc
Confidence 455666666667777777666666554
No 159
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=68.42 E-value=2.8 Score=32.05 Aligned_cols=17 Identities=24% Similarity=0.358 Sum_probs=8.4
Q ss_pred hHHHHHHHHHHHHHHHH
Q 040080 2 VMAIIISVIFLFLGIGA 18 (192)
Q Consensus 2 ~~~iil~~~~~~~~i~~ 18 (192)
+++||++++++++++++
T Consensus 81 ivgvi~~Vi~Iv~~Iv~ 97 (179)
T PF13908_consen 81 IVGVICGVIAIVVLIVC 97 (179)
T ss_pred eeehhhHHHHHHHhHhh
Confidence 34555555555433333
No 160
>PHA03049 IMV membrane protein; Provisional
Probab=68.12 E-value=8.5 Score=24.50 Aligned_cols=13 Identities=23% Similarity=0.309 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHH
Q 040080 10 IFLFLGIGALIFI 22 (192)
Q Consensus 10 ~~~~~~i~~l~~~ 22 (192)
++++++++.+++.
T Consensus 8 ~iICVaIi~lIvY 20 (68)
T PHA03049 8 VIICVVIIGLIVY 20 (68)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444443
No 161
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=68.05 E-value=1.7 Score=36.08 Aligned_cols=24 Identities=21% Similarity=0.246 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
++|.+++++++.+++.+++++||+
T Consensus 148 T~IpaVVI~~iLLIA~iIa~icyr 171 (290)
T PF05454_consen 148 TFIPAVVIAAILLIAGIIACICYR 171 (290)
T ss_dssp ------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344444444444444444444444
No 162
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=68.00 E-value=15 Score=19.27 Aligned_cols=19 Identities=37% Similarity=0.663 Sum_probs=10.7
Q ss_pred ChHHHHHHHHHHHHHHHHH
Q 040080 1 MVMAIIISVIFLFLGIGAL 19 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~~l 19 (192)
|...+|.+++++++.+.-+
T Consensus 1 Ms~~vi~G~ilv~lLlgYL 19 (29)
T PRK14748 1 MSAGVITGVLLVFLLLGYL 19 (29)
T ss_pred CcHHHHHHHHHHHHHHHHH
Confidence 5666777766555444333
No 163
>PRK01844 hypothetical protein; Provisional
Probab=66.57 E-value=17 Score=23.62 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~ 23 (192)
+.|++.++.+++|+++-+|+.
T Consensus 5 ~~I~l~I~~li~G~~~Gff~a 25 (72)
T PRK01844 5 LGILVGVVALVAGVALGFFIA 25 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 164
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=66.14 E-value=13 Score=23.82 Aligned_cols=10 Identities=30% Similarity=0.477 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 040080 12 LFLGIGALIF 21 (192)
Q Consensus 12 ~~~~i~~l~~ 21 (192)
++++++.+++
T Consensus 10 ICVaii~lIl 19 (68)
T PF05961_consen 10 ICVAIIGLIL 19 (68)
T ss_pred HHHHHHHHHH
Confidence 3433333333
No 165
>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=66.09 E-value=6.6 Score=21.15 Aligned_cols=36 Identities=22% Similarity=0.545 Sum_probs=22.4
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccc
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
|+.|...+....... .. =+..||..| -.|..|..++
T Consensus 2 C~~C~~~i~~~~~~~-~~-~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVL-RA-LGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEE-Ee-CCccccccC--------CCCcccCCcC
Confidence 777888776552222 22 466788877 3477777665
No 166
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=65.89 E-value=2 Score=37.01 Aligned_cols=51 Identities=20% Similarity=0.541 Sum_probs=0.0
Q ss_pred CCCcccccCccccC-----C-----------CceEEcCCCCCcccHHhHHHHHcC---------CCCCccccccccc
Q 040080 76 SPIECAVCLDKFNK-----G-----------DKCRLLPICNHSFHAQCVDAWLLT---------NPNCPICRSTANS 127 (192)
Q Consensus 76 ~~~~C~IC~~~~~~-----~-----------~~~~~~~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 127 (192)
...+|++|+..-.- + -....-| |||+--.+...-|-.. +..||.|-.++..
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 36789999975210 0 1223457 9999988899999754 2459999888863
No 167
>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=65.07 E-value=5.8 Score=23.84 Aligned_cols=40 Identities=20% Similarity=0.425 Sum_probs=25.6
Q ss_pred ccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 80 CAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 80 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
|+-|...+.....+... -+..||..| -+|-.|+.++....
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCCCe
Confidence 56677777655443222 667788777 45888888776543
No 168
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=64.97 E-value=2.6 Score=29.30 Aligned_cols=13 Identities=23% Similarity=0.176 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q 040080 7 ISVIFLFLGIGAL 19 (192)
Q Consensus 7 l~~~~~~~~i~~l 19 (192)
++++.++..++++
T Consensus 66 i~lls~v~IlVil 78 (101)
T PF06024_consen 66 ISLLSFVCILVIL 78 (101)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 169
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.97 E-value=3.9 Score=33.70 Aligned_cols=41 Identities=17% Similarity=0.453 Sum_probs=29.1
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN 115 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~ 115 (192)
.....|.+|.+.+++..-+..-..=.|.||..|-++-.+.+
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 44578999999997764333222236999999999988763
No 170
>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=64.09 E-value=3.3 Score=26.21 Aligned_cols=36 Identities=17% Similarity=0.390 Sum_probs=17.4
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHH
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWL 112 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 112 (192)
...|.+|...|..-..--.-..||++|+..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 456999999995433222233499999999976543
No 171
>PLN02436 cellulose synthase A
Probab=63.94 E-value=11 Score=36.62 Aligned_cols=52 Identities=21% Similarity=0.469 Sum_probs=34.2
Q ss_pred CCCcccccCcccc---CCCceEEcCCCCCcccHHhHHHHHc-CCCCCccccccccc
Q 040080 76 SPIECAVCLDKFN---KGDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRSTANS 127 (192)
Q Consensus 76 ~~~~C~IC~~~~~---~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 127 (192)
....|.||-+++. +++.-.....|+--.|..|.+-=.+ .++.||-|++....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 3457999999863 3333222233777799999943222 26779999998763
No 172
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=62.59 E-value=5.1 Score=22.33 Aligned_cols=13 Identities=31% Similarity=0.790 Sum_probs=8.4
Q ss_pred cccccCccccCCC
Q 040080 79 ECAVCLDKFNKGD 91 (192)
Q Consensus 79 ~C~IC~~~~~~~~ 91 (192)
.|+-|...|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 4777777776443
No 173
>PRK01844 hypothetical protein; Provisional
Probab=59.88 E-value=16 Score=23.74 Aligned_cols=31 Identities=13% Similarity=0.134 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCc
Q 040080 5 IIISVIFLFLGIGALIFIHVCIVARTFRAGL 35 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~~~~~~~~r~~~ 35 (192)
+.++++++++++++-++..+++.++......
T Consensus 3 ~~~~I~l~I~~li~G~~~Gff~ark~~~k~l 33 (72)
T PRK01844 3 IWLGILVGVVALVAGVALGFFIARKYMMNYL 33 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666655666666655554443
No 174
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=59.36 E-value=3.8 Score=32.41 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
.|+++++..+++++++||+.+..+
T Consensus 38 ~I~iaiVAG~~tVILVI~i~v~vR 61 (221)
T PF08374_consen 38 KIMIAIVAGIMTVILVIFIVVLVR 61 (221)
T ss_pred eeeeeeecchhhhHHHHHHHHHHH
Confidence 345555555555555555554443
No 175
>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=59.17 E-value=8.3 Score=23.19 Aligned_cols=36 Identities=17% Similarity=0.367 Sum_probs=23.7
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL 113 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 113 (192)
..|.+|-..|.....-..-..||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 458888887754322222234999999999876543
No 176
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=58.94 E-value=30 Score=19.32 Aligned_cols=31 Identities=6% Similarity=0.105 Sum_probs=12.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040080 1 MVMAIIISVIFLFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~~l~~~~~~~~~~~~ 31 (192)
|+=.+..++++.++.+.++-++...+.++++
T Consensus 1 MvEplL~GiVlGli~vtl~Glfv~Ay~QY~R 31 (37)
T PF02529_consen 1 MVEPLLSGIVLGLIPVTLAGLFVAAYLQYRR 31 (37)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred CCchhhhhHHHHhHHHHHHHHHHHHHHHHhc
Confidence 3333444554444444444444434444443
No 177
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=58.16 E-value=5.8 Score=22.77 Aligned_cols=7 Identities=14% Similarity=-0.106 Sum_probs=3.2
Q ss_pred HHHHhhc
Q 040080 26 IVARTFR 32 (192)
Q Consensus 26 ~~~~~~r 32 (192)
|++|.-|
T Consensus 30 YRKw~aR 36 (43)
T PF08114_consen 30 YRKWQAR 36 (43)
T ss_pred HHHHHHH
Confidence 4455433
No 178
>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=57.69 E-value=0.93 Score=29.33 Aligned_cols=41 Identities=17% Similarity=0.405 Sum_probs=22.2
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
..||.|..++... =+|.+|..|-.. +.....||-|..++..
T Consensus 2 ~~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHHHH
Confidence 3599998876433 366677777665 3446679999988754
No 179
>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=57.36 E-value=5.7 Score=21.50 Aligned_cols=20 Identities=20% Similarity=0.650 Sum_probs=12.4
Q ss_pred CCCcccHHhHHHHHcCCCCCcccccc
Q 040080 99 CNHSFHAQCVDAWLLTNPNCPICRST 124 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 124 (192)
|||++-..- ....||+|.++
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCEECCCc------CCCcCcCCCCc
Confidence 777754332 34479999763
No 180
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=57.11 E-value=20 Score=28.37 Aligned_cols=19 Identities=37% Similarity=0.455 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~ 23 (192)
|||++++++-.+++|.-+.
T Consensus 135 IIIAVLfLICT~LfLSTVV 153 (227)
T PF05399_consen 135 IIIAVLFLICTLLFLSTVV 153 (227)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444333
No 181
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=57.06 E-value=6.7 Score=31.84 Aligned_cols=40 Identities=13% Similarity=0.259 Sum_probs=29.6
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCC--Ccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPN--CPI 120 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~--CP~ 120 (192)
..|||-...+.++ ++ ...|||+|-.+-|...+....+ ||+
T Consensus 177 ~rdPis~~~I~nP--vi-SkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VI-SKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhch--hh-hcCcCcchhhhhHHHHhccCceeeccc
Confidence 4599887777655 33 3349999999999998876443 887
No 182
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=56.67 E-value=32 Score=23.86 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~ 24 (192)
++++++..+++.+||++.+
T Consensus 20 LVGVv~~al~~SlLIalaa 38 (102)
T PF15176_consen 20 LVGVVVTALVTSLLIALAA 38 (102)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433
No 183
>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=56.56 E-value=3.5 Score=24.96 Aligned_cols=13 Identities=23% Similarity=0.782 Sum_probs=7.0
Q ss_pred CCCcccccccccC
Q 040080 116 PNCPICRSTANSR 128 (192)
Q Consensus 116 ~~CP~Cr~~~~~~ 128 (192)
..||+|.+++...
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3799999998764
No 184
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=55.81 E-value=6.4 Score=21.86 Aligned_cols=13 Identities=31% Similarity=0.795 Sum_probs=8.7
Q ss_pred cccccCccccCCC
Q 040080 79 ECAVCLDKFNKGD 91 (192)
Q Consensus 79 ~C~IC~~~~~~~~ 91 (192)
+|+=|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5777777776443
No 185
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=55.21 E-value=35 Score=18.97 Aligned_cols=27 Identities=4% Similarity=0.091 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040080 5 IIISVIFLFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~~~~~~~~ 31 (192)
...++++.++-+.++-++...+.++++
T Consensus 5 lL~GiVLGlipvTl~GlfvaAylQYrR 31 (37)
T CHL00008 5 LLFGIVLGLIPITLAGLFVTAYLQYRR 31 (37)
T ss_pred hhhhHHHHhHHHHHHHHHHHHHHHHhh
Confidence 334444444444333333334444443
No 186
>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 PHA02681 ORF089 virion membrane protein; Provisional
Probab=54.30 E-value=53 Score=21.97 Aligned_cols=20 Identities=20% Similarity=0.194 Sum_probs=13.0
Q ss_pred ccCCCCCCCCHHHHhcCCce
Q 040080 47 RSSIGSTSMSRDDVEKLPCY 66 (192)
Q Consensus 47 ~~~~~~~~~~~~~i~~l~~~ 66 (192)
....-...++.+.++.+..+
T Consensus 44 ~ds~F~D~lTpDQVrAlHRl 63 (92)
T PHA02681 44 GASSFEDKMTDDQVRAFHAL 63 (92)
T ss_pred CCchhhccCCHHHHHHHHHH
Confidence 44455667778887777654
No 188
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=54.02 E-value=21 Score=34.86 Aligned_cols=51 Identities=22% Similarity=0.517 Sum_probs=33.5
Q ss_pred CCCcccccCccccC---CCceEEcCCCCCcccHHhHHH-HHcCCCCCcccccccc
Q 040080 76 SPIECAVCLDKFNK---GDKCRLLPICNHSFHAQCVDA-WLLTNPNCPICRSTAN 126 (192)
Q Consensus 76 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~ 126 (192)
....|.||-+++.. ++.-.....|+--.|..|.+= .-+.++.||-|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34579999998743 222222223777799999942 2223677999999876
No 189
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=53.59 E-value=39 Score=22.43 Aligned_cols=25 Identities=16% Similarity=0.230 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 040080 6 IISVIFLFLGIGALIFIHVCIVART 30 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~~~ 30 (192)
++|..++|+.+.+++++...+.+..
T Consensus 12 v~GM~~VF~fL~lLi~~i~~~~~~~ 36 (82)
T TIGR01195 12 VLGMGIVFLFLSLLIYAVRGMGKVV 36 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555444444333
No 190
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=53.31 E-value=6 Score=39.79 Aligned_cols=50 Identities=26% Similarity=0.446 Sum_probs=37.6
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC----CCCCcccccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT----NPNCPICRSTAN 126 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~----~~~CP~Cr~~~~ 126 (192)
....|.+|.........+.... |.-.||..|+++-+.. .-.||-||..-.
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 3557999999876654444444 8889999999998866 335999998663
No 191
>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=53.18 E-value=1.5 Score=36.25 Aligned_cols=46 Identities=20% Similarity=0.283 Sum_probs=20.9
Q ss_pred CCCCcccccCccccCCCceEEcCC----CCCcccHHhHHHHHcCCCCCccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPI----CNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~----C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
.....||||-..-... .+... =.|.+|.-|-..|-.....||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred ccCCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3346799998864222 11110 2356888899999877888999965
No 192
>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=52.70 E-value=12 Score=19.54 Aligned_cols=29 Identities=21% Similarity=0.583 Sum_probs=9.7
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhH
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCV 108 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci 108 (192)
.|.+|......+ ....-+.|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~-~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGG-WFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCC-ceEECccCCCccChhcC
Confidence 478888876552 22333349999999885
No 193
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=51.91 E-value=6.8 Score=24.47 Aligned_cols=13 Identities=46% Similarity=1.127 Sum_probs=10.5
Q ss_pred CCCCccccccccc
Q 040080 115 NPNCPICRSTANS 127 (192)
Q Consensus 115 ~~~CP~Cr~~~~~ 127 (192)
..+||+|..++..
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4679999998854
No 194
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=51.66 E-value=63 Score=20.80 Aligned_cols=19 Identities=32% Similarity=0.405 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~ 24 (192)
++++.++|++++++++++.
T Consensus 9 i~Gm~iVF~~L~lL~~~i~ 27 (79)
T PF04277_consen 9 IIGMGIVFLVLILLILVIS 27 (79)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 195
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=51.23 E-value=42 Score=18.67 Aligned_cols=25 Identities=0% Similarity=0.001 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 040080 6 IISVIFLFLGIGALIFIHVCIVART 30 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~~~ 30 (192)
..++++.++-+.++-++...+.+++
T Consensus 6 L~GiVLGlipiTl~GlfvaAylQYr 30 (37)
T PRK00665 6 LCGIVLGLIPVTLAGLFVAAWNQYK 30 (37)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHh
Confidence 3344444443333333333344443
No 196
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=50.70 E-value=2.5 Score=29.96 Aligned_cols=13 Identities=23% Similarity=0.355 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHH
Q 040080 15 GIGALIFIHVCIV 27 (192)
Q Consensus 15 ~i~~l~~~~~~~~ 27 (192)
.+++|+++..||+
T Consensus 35 ILgiLLliGCWYc 47 (118)
T PF14991_consen 35 ILGILLLIGCWYC 47 (118)
T ss_dssp -------------
T ss_pred HHHHHHHHhheee
Confidence 3333333333333
No 197
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=50.52 E-value=33 Score=20.76 Aligned_cols=16 Identities=31% Similarity=0.324 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 040080 7 ISVIFLFLGIGALIFI 22 (192)
Q Consensus 7 l~~~~~~~~i~~l~~~ 22 (192)
+.-+.+++++++++++
T Consensus 7 LIpiSl~l~~~~l~~f 22 (51)
T TIGR00847 7 LIPISLLLGGVGLVAF 22 (51)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333334333333333
No 198
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=50.39 E-value=83 Score=30.92 Aligned_cols=52 Identities=21% Similarity=0.451 Sum_probs=34.1
Q ss_pred CCCcccccCccccC---CCceEEcCCCCCcccHHhHHHHHc-CCCCCccccccccc
Q 040080 76 SPIECAVCLDKFNK---GDKCRLLPICNHSFHAQCVDAWLL-TNPNCPICRSTANS 127 (192)
Q Consensus 76 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 127 (192)
....|.||-+++.. ++.-.....|+--.|..|.+-=.+ .++.||.|++....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 45679999998743 332222223777799999943222 26779999998763
No 199
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=50.23 E-value=11 Score=29.23 Aligned_cols=10 Identities=10% Similarity=0.345 Sum_probs=6.0
Q ss_pred ccHHhHHHHH
Q 040080 103 FHAQCVDAWL 112 (192)
Q Consensus 103 fh~~Ci~~wl 112 (192)
...+-+..||
T Consensus 124 ~~G~~~R~~L 133 (186)
T PF07406_consen 124 LPGENFRSYL 133 (186)
T ss_pred cccccHHHHH
Confidence 4445566776
No 200
>PLN02195 cellulose synthase A
Probab=50.13 E-value=22 Score=34.45 Aligned_cols=51 Identities=16% Similarity=0.348 Sum_probs=33.7
Q ss_pred CCCcccccCccccC---CCceEEcCCCCCcccHHhHHHHH-cCCCCCcccccccc
Q 040080 76 SPIECAVCLDKFNK---GDKCRLLPICNHSFHAQCVDAWL-LTNPNCPICRSTAN 126 (192)
Q Consensus 76 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 126 (192)
....|.||-+.+.. ++.-.....|+--.|..|.+-=. ..++.||.|++...
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 44579999997643 23222223388889999984211 12667999999887
No 201
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=49.97 E-value=11 Score=31.71 Aligned_cols=45 Identities=9% Similarity=-0.003 Sum_probs=30.9
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCc-ccHHhHHHHHcCCCCCccccccc
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHS-FHAQCVDAWLLTNPNCPICRSTA 125 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~ 125 (192)
-...+|..|-+-.... ...+ |+|. |+..|-. +.-..+||+|....
T Consensus 341 ~s~~~~~~~~~~~~st---~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLST---IWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhhcccccccCceeee---Eeec-CCcccChhhhhh--cccCCccccccccc
Confidence 3456788877654332 4456 9987 9999977 34577899997643
No 202
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=49.34 E-value=41 Score=23.35 Aligned_cols=33 Identities=9% Similarity=-0.012 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 040080 2 VMAIIISVIFLFLGIGALIFIHVCIVARTFRAG 34 (192)
Q Consensus 2 ~~~iil~~~~~~~~i~~l~~~~~~~~~~~~r~~ 34 (192)
+++++++++++-+.|++++=..+|+..+...++
T Consensus 20 LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H 52 (102)
T PF15176_consen 20 LVGVVVTALVTSLLIALAAKCPVWYKYLASYRH 52 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccc
Confidence 467777777777777777766666655544333
No 203
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=49.10 E-value=51 Score=26.46 Aligned_cols=28 Identities=18% Similarity=0.381 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 040080 5 IIISVIFLFLGIGALIFIHVCIVARTFR 32 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~~~~~~~~r 32 (192)
||+-+++.++++.+++|..+-+++-++.
T Consensus 189 vilpvvIaliVitl~vf~LvgLyr~C~k 216 (259)
T PF07010_consen 189 VILPVVIALIVITLSVFTLVGLYRMCWK 216 (259)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3444444444444444444444444433
No 204
>PRK12705 hypothetical protein; Provisional
Probab=49.09 E-value=29 Score=31.24 Aligned_cols=27 Identities=15% Similarity=0.417 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIVAR 29 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~~~ 29 (192)
++++++++++++++++..++.+++.++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (508)
T PRK12705 3 MSILLVILLLLIGLLLGVLVVLLKKRQ 29 (508)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566677777777766666665554444
No 205
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=49.04 E-value=28 Score=23.22 Aligned_cols=10 Identities=10% Similarity=-0.007 Sum_probs=4.1
Q ss_pred CCCCCCCCHH
Q 040080 49 SIGSTSMSRD 58 (192)
Q Consensus 49 ~~~~~~~~~~ 58 (192)
++.+.+-..+
T Consensus 54 GnES~Gd~Ee 63 (81)
T PF00558_consen 54 GNESDGDEEE 63 (81)
T ss_dssp HCTTTTCCHH
T ss_pred CCCCCCcHHH
Confidence 3444444443
No 206
>PF00737 PsbH: Photosystem II 10 kDa phosphoprotein; InterPro: IPR001056 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight phosphoprotein PsbH found in PSII. The phosphorylation site of PsbH is located in the N terminus, where reversible phosphorylation is light-dependent and redox-controlled. PsbH is necessary for the photoprotection of PSII, being required for: (1) the rapid degradation of photodamaged D1 core protein to prevent further oxidative damage to the PSII core, and (2) the insertion of newly synthesised D1 protein into the thylakoid membrane []. PsbH may also regulate the transfer of electrons from D2 (Qa) to D1 (Qb) in the reaction core.; GO: 0042301 phosphate ion binding, 0015979 photosynthesis, 0050821 protein stabilization, 0009523 photosystem II, 0016020 membrane; PDB: 3PRR_H 2AXT_h 3BZ2_H 3BZ1_H 4FBY_W 3PRQ_H 3KZI_H 1S5L_h 3A0H_H 3ARC_H ....
Probab=48.35 E-value=35 Score=20.64 Aligned_cols=12 Identities=25% Similarity=0.717 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFL 14 (192)
Q Consensus 3 ~~iil~~~~~~~ 14 (192)
|+++.+++++|+
T Consensus 28 M~~~m~lf~vfl 39 (52)
T PF00737_consen 28 MGVFMALFAVFL 39 (52)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 344444444333
No 207
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.31 E-value=17 Score=25.11 Aligned_cols=34 Identities=26% Similarity=0.648 Sum_probs=22.1
Q ss_pred CCCcccccCccccCCCceEEcCCCCCcccHHhHHH
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDA 110 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~ 110 (192)
....|.||......-..+.. +.|...||..|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~-~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSH-PGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCC-CCCCcCCCHHHHHH
Confidence 35679999998322212222 23888999999865
No 208
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.14 E-value=9.2 Score=26.01 Aligned_cols=12 Identities=25% Similarity=0.866 Sum_probs=10.9
Q ss_pred ccHHhHHHHHcC
Q 040080 103 FHAQCVDAWLLT 114 (192)
Q Consensus 103 fh~~Ci~~wl~~ 114 (192)
||..|+..|+..
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999964
No 209
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=45.91 E-value=16 Score=28.72 Aligned_cols=22 Identities=9% Similarity=-0.013 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHhhccCccc
Q 040080 16 IGALIFIHVCIVARTFRAGLIR 37 (192)
Q Consensus 16 i~~l~~~~~~~~~~~~r~~~~~ 37 (192)
++++++++..|+.|.||.+.+.
T Consensus 112 lLla~~~~~~Y~~~~Rrs~~~~ 133 (202)
T PF06365_consen 112 LLLAILLGAGYCCHQRRSWSKK 133 (202)
T ss_pred HHHHHHHHHHHHhhhhccCCcc
Confidence 4455556666777777766443
No 210
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.84 E-value=21 Score=28.95 Aligned_cols=36 Identities=14% Similarity=0.243 Sum_probs=28.2
Q ss_pred CCCCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcC
Q 040080 75 SSPIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLT 114 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 114 (192)
.+-..|+.||..+..+ .+.+ =||+|+..||-+++..
T Consensus 41 K~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYILA 76 (303)
T ss_pred CCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHHH
Confidence 3345799999998665 4556 8999999999998754
No 211
>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=45.15 E-value=21 Score=24.30 Aligned_cols=38 Identities=24% Similarity=0.520 Sum_probs=28.7
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
...|+-|...+.--+ ..| +-.|+..+..|..|++++..
T Consensus 33 rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCCh
Confidence 345888887765442 344 77899999999999998864
No 212
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=44.96 E-value=44 Score=22.61 Aligned_cols=19 Identities=16% Similarity=0.023 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 040080 12 LFLGIGALIFIHVCIVART 30 (192)
Q Consensus 12 ~~~~i~~l~~~~~~~~~~~ 30 (192)
++++++++++.++++..++
T Consensus 9 ~~~~v~~~i~~y~~~k~~k 27 (87)
T PF10883_consen 9 GVGAVVALILAYLWWKVKK 27 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555444
No 213
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=44.91 E-value=6.7 Score=24.02 Aligned_cols=19 Identities=32% Similarity=0.681 Sum_probs=14.5
Q ss_pred eEEcCCCCCcccHHhHHHH
Q 040080 93 CRLLPICNHSFHAQCVDAW 111 (192)
Q Consensus 93 ~~~~~~C~H~fh~~Ci~~w 111 (192)
...-+.|+|.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3344349999999998888
No 214
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=44.08 E-value=40 Score=26.23 Aligned_cols=19 Identities=37% Similarity=0.716 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~ 23 (192)
|+++++++++|+++-+++.
T Consensus 3 ii~~i~~~~vG~~~G~~~~ 21 (201)
T PF12072_consen 3 IIIAIVALIVGIGIGYLVR 21 (201)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555444443
No 215
>PF15050 SCIMP: SCIMP protein
Probab=43.96 E-value=41 Score=24.18 Aligned_cols=25 Identities=16% Similarity=0.279 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 2 VMAIIISVIFLFLGIGALIFIHVCI 26 (192)
Q Consensus 2 ~~~iil~~~~~~~~i~~l~~~~~~~ 26 (192)
++++.+.++.+.+|+++..+....+
T Consensus 11 iLAVaII~vS~~lglIlyCvcR~~l 35 (133)
T PF15050_consen 11 ILAVAIILVSVVLGLILYCVCRWQL 35 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666666666666766655554333
No 216
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=42.68 E-value=50 Score=18.24 Aligned_cols=10 Identities=20% Similarity=0.756 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 040080 5 IIISVIFLFL 14 (192)
Q Consensus 5 iil~~~~~~~ 14 (192)
++...+++++
T Consensus 8 fiAt~Lfi~i 17 (35)
T PRK04989 8 FVASLLFVLV 17 (35)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 217
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=42.67 E-value=16 Score=24.21 Aligned_cols=33 Identities=27% Similarity=0.653 Sum_probs=22.6
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHH
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDA 110 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~ 110 (192)
...|.+|.........+.... |.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~-C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPG-CSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCC-CCcEEChHHHcc
Confidence 456999998743333333334 999999999765
No 218
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=42.47 E-value=44 Score=31.68 Aligned_cols=24 Identities=17% Similarity=0.220 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
++||..++.-+++++++++.+.++
T Consensus 272 T~fLl~ILG~~~livl~lL~vLl~ 295 (807)
T PF10577_consen 272 TVFLLAILGGTALIVLILLCVLLC 295 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356555555444444444444333
No 219
>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=42.18 E-value=36 Score=23.72 Aligned_cols=24 Identities=29% Similarity=0.612 Sum_probs=18.4
Q ss_pred CCcccHHhHHHHHcC---------CCCCccccc
Q 040080 100 NHSFHAQCVDAWLLT---------NPNCPICRS 123 (192)
Q Consensus 100 ~H~fh~~Ci~~wl~~---------~~~CP~Cr~ 123 (192)
.=.||..||..++.. +-.||.||-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999888743 234999986
No 220
>PLN02248 cellulose synthase-like protein
Probab=41.61 E-value=25 Score=34.60 Aligned_cols=33 Identities=15% Similarity=0.406 Sum_probs=27.8
Q ss_pred CCCcccHHhHHHHHcCCCCCcccccccccCCCC
Q 040080 99 CNHSFHAQCVDAWLLTNPNCPICRSTANSRRFG 131 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 131 (192)
|++..|.+|...-++....||-|+.+....+..
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKVTDLD 182 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCcccccccccc
Confidence 888899999999998888999999988554433
No 221
>PF15099 PIRT: Phosphoinositide-interacting protein family
Probab=40.94 E-value=16 Score=26.40 Aligned_cols=22 Identities=27% Similarity=0.428 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~ 27 (192)
+++.+++.+|+.++++-.+|..
T Consensus 82 ~~G~vlLs~GLmlL~~~alcW~ 103 (129)
T PF15099_consen 82 IFGPVLLSLGLMLLACSALCWK 103 (129)
T ss_pred hehHHHHHHHHHHHHhhhheeh
Confidence 4555666666666666544433
No 222
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=39.41 E-value=5.2 Score=33.19 Aligned_cols=37 Identities=27% Similarity=0.664 Sum_probs=25.8
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCC
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTN 115 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~ 115 (192)
.+|.+|++.|..+....... |.-+||..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 37999998887543334444 55588888888887653
No 223
>CHL00080 psbM photosystem II protein M
Probab=39.34 E-value=59 Score=17.83 Aligned_cols=15 Identities=20% Similarity=0.459 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGA 18 (192)
Q Consensus 4 ~iil~~~~~~~~i~~ 18 (192)
+++...+++++-.++
T Consensus 7 gfiAt~LFi~iPt~F 21 (34)
T CHL00080 7 AFIATALFILVPTAF 21 (34)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444333333333
No 224
>CHL00066 psbH photosystem II protein H
Probab=39.29 E-value=48 Score=21.52 Aligned_cols=11 Identities=18% Similarity=0.606 Sum_probs=4.5
Q ss_pred HHHHHHHHHHH
Q 040080 3 MAIIISVIFLF 13 (192)
Q Consensus 3 ~~iil~~~~~~ 13 (192)
|+++.+++++|
T Consensus 43 Mgv~m~lf~vf 53 (73)
T CHL00066 43 MGVAMALFAVF 53 (73)
T ss_pred HHHHHHHHHHH
Confidence 44444443333
No 225
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=39.20 E-value=55 Score=23.39 Aligned_cols=26 Identities=27% Similarity=0.386 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 2 VMAIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 2 ~~~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
|+.+++++++++++++++......+.
T Consensus 2 ~~~~~~~~i~l~~g~~~~~~~~~~~~ 27 (148)
T PF12158_consen 2 VFLLLFGIIFLLIGLVLLIGGIFLYW 27 (148)
T ss_pred eEhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666665554443
No 226
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=38.65 E-value=55 Score=23.25 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
+|+++++++++|++++++-.+.+.
T Consensus 43 ~I~la~~Lli~G~~li~~g~l~~~ 66 (115)
T PF05915_consen 43 SIALAVFLLIFGTVLIIIGLLLFF 66 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 466677777777776666555444
No 227
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=38.47 E-value=67 Score=17.51 Aligned_cols=11 Identities=18% Similarity=0.739 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 040080 4 AIIISVIFLFL 14 (192)
Q Consensus 4 ~iil~~~~~~~ 14 (192)
+.+...+++++
T Consensus 7 ~fiAt~Lfi~i 17 (33)
T TIGR03038 7 GFIATLLFILV 17 (33)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 228
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=38.41 E-value=50 Score=21.45 Aligned_cols=11 Identities=18% Similarity=0.606 Sum_probs=4.5
Q ss_pred HHHHHHHHHHH
Q 040080 3 MAIIISVIFLF 13 (192)
Q Consensus 3 ~~iil~~~~~~ 13 (192)
|+++.+++++|
T Consensus 43 Mg~~m~lf~vf 53 (73)
T PLN00055 43 MGVAMALFAVF 53 (73)
T ss_pred HHHHHHHHHHH
Confidence 44444443333
No 229
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.19 E-value=32 Score=31.97 Aligned_cols=52 Identities=27% Similarity=0.602 Sum_probs=36.4
Q ss_pred cccccCccccCCCceEEcCCCCC-cccHHhHHHHHcC------CCCCcccccccccCCCCCCC
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNH-SFHAQCVDAWLLT------NPNCPICRSTANSRRFGEES 134 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~~~~~~ 134 (192)
.|+||-..+.- .. ...||| ..+..|....... .+.||+||..+.....+...
T Consensus 2 ~c~ic~~s~~~---~~-~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~~~~ 60 (669)
T KOG2231|consen 2 SCAICAFSPDF---VG-RGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNGDSS 60 (669)
T ss_pred CcceeecCccc---cc-cccccccccchhhhhhhhhhcccccccccCcccccceeeecccccc
Confidence 49999887532 23 334999 6999999876532 34589999988776655543
No 230
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=38.03 E-value=15 Score=22.02 Aligned_cols=12 Identities=25% Similarity=0.733 Sum_probs=8.4
Q ss_pred CCcccccCcccc
Q 040080 77 PIECAVCLDKFN 88 (192)
Q Consensus 77 ~~~C~IC~~~~~ 88 (192)
.+.||.|-..+.
T Consensus 2 ~f~CP~C~~~~~ 13 (54)
T PF05605_consen 2 SFTCPYCGKGFS 13 (54)
T ss_pred CcCCCCCCCccC
Confidence 356999888553
No 231
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=37.45 E-value=66 Score=22.24 Aligned_cols=23 Identities=13% Similarity=0.440 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIVA 28 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~ 28 (192)
.|+++.+++++.+++.+++|.+.
T Consensus 22 LItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 22 LITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Confidence 34444555555566666666654
No 232
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=37.12 E-value=57 Score=20.52 Aligned_cols=10 Identities=20% Similarity=0.630 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 040080 3 MAIIISVIFL 12 (192)
Q Consensus 3 ~~iil~~~~~ 12 (192)
|+++.+++++
T Consensus 31 Mgv~m~Lf~v 40 (64)
T PRK02624 31 MAVFMVLFLV 40 (64)
T ss_pred HHHHHHHHHH
Confidence 3444443333
No 233
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=37.09 E-value=81 Score=20.80 Aligned_cols=21 Identities=19% Similarity=0.564 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 040080 11 FLFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 11 ~~~~~i~~l~~~~~~~~~~~~ 31 (192)
+...++..++++++....++.
T Consensus 54 ~~~~AfsgLL~lHLvv~~~r~ 74 (77)
T PF12292_consen 54 FFCFAFSGLLFLHLVVFPWRR 74 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444455555554444443
No 234
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=36.91 E-value=48 Score=24.69 Aligned_cols=20 Identities=20% Similarity=0.351 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 040080 12 LFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 12 ~~~~i~~l~~~~~~~~~~~~ 31 (192)
++++|++++++++....|+.
T Consensus 34 ILiaIvVliiiiivli~lcs 53 (189)
T PF05568_consen 34 ILIAIVVLIIIIIVLIYLCS 53 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444443
No 235
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.56 E-value=9.1 Score=28.06 Aligned_cols=43 Identities=33% Similarity=0.796 Sum_probs=24.4
Q ss_pred CCCCcccccCc-cccCCCceEEcCCCCCc-------ccHHhHHHHH-cCCC---CCccccccc
Q 040080 75 SSPIECAVCLD-KFNKGDKCRLLPICNHS-------FHAQCVDAWL-LTNP---NCPICRSTA 125 (192)
Q Consensus 75 ~~~~~C~IC~~-~~~~~~~~~~~~~C~H~-------fh~~Ci~~wl-~~~~---~CP~Cr~~~ 125 (192)
.++..|.||+. .|.++ |||. ||..|--.-- ++++ .|-+|+...
T Consensus 63 ~ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred CcCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 45678999987 45444 6664 4444433211 2233 388888753
No 236
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=36.51 E-value=18 Score=33.34 Aligned_cols=28 Identities=32% Similarity=0.879 Sum_probs=21.7
Q ss_pred CCCCcccHHhHHHHHcC-----CCCCccccccc
Q 040080 98 ICNHSFHAQCVDAWLLT-----NPNCPICRSTA 125 (192)
Q Consensus 98 ~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~~ 125 (192)
.|+-.+|..|+..|+.. ...||-||.-.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 39999999999999864 23588887643
No 237
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=36.43 E-value=21 Score=28.26 Aligned_cols=25 Identities=20% Similarity=0.490 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 2 VMAIIISVIFLFLGIGALIFIHVCI 26 (192)
Q Consensus 2 ~~~iil~~~~~~~~i~~l~~~~~~~ 26 (192)
+++|+.+++.++++|+++.++..|.
T Consensus 40 ~iaiVAG~~tVILVI~i~v~vR~CR 64 (221)
T PF08374_consen 40 MIAIVAGIMTVILVIFIVVLVRYCR 64 (221)
T ss_pred eeeeecchhhhHHHHHHHHHHHHHh
Confidence 4566666666666666666665454
No 238
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.41 E-value=68 Score=26.10 Aligned_cols=6 Identities=0% Similarity=-0.081 Sum_probs=2.2
Q ss_pred HHHHhh
Q 040080 26 IVARTF 31 (192)
Q Consensus 26 ~~~~~~ 31 (192)
+.+|+.
T Consensus 21 ~l~~r~ 26 (299)
T KOG3054|consen 21 FLWKRR 26 (299)
T ss_pred HHHHhh
Confidence 333433
No 239
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=36.24 E-value=35 Score=27.37 Aligned_cols=27 Identities=26% Similarity=0.655 Sum_probs=18.8
Q ss_pred ccHHhHHHHHcCCCCCcccccccccCC
Q 040080 103 FHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 103 fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
-|.+|-..--++-..||+|++.-..++
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCC
Confidence 556666665556678999998665544
No 240
>PRK05978 hypothetical protein; Provisional
Probab=36.16 E-value=24 Score=26.36 Aligned_cols=24 Identities=25% Similarity=0.520 Sum_probs=19.0
Q ss_pred CcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 101 HSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 101 H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
+.|+ .+++.+..||.|-.++...+
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cccc-----cccccCCCccccCCccccCC
Confidence 6675 67788999999999887654
No 241
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.05 E-value=11 Score=33.15 Aligned_cols=37 Identities=24% Similarity=0.488 Sum_probs=26.9
Q ss_pred CcccccCccccCCCceEE----cCCCCCcccHHhHHHHHcC
Q 040080 78 IECAVCLDKFNKGDKCRL----LPICNHSFHAQCVDAWLLT 114 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~----~~~C~H~fh~~Ci~~wl~~ 114 (192)
..||.|...++....... ...|+|.||..|+..|-..
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 349999998876653221 1239999999999999765
No 242
>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=35.96 E-value=28 Score=24.61 Aligned_cols=47 Identities=21% Similarity=0.461 Sum_probs=28.5
Q ss_pred CCCcccccCcccc--CCCceEEcCCCCCcccHHhHHHHHcCCC--CCcccccc
Q 040080 76 SPIECAVCLDKFN--KGDKCRLLPICNHSFHAQCVDAWLLTNP--NCPICRST 124 (192)
Q Consensus 76 ~~~~C~IC~~~~~--~~~~~~~~~~C~H~fh~~Ci~~wl~~~~--~CP~Cr~~ 124 (192)
+...|.+|...|. .+....... |+|.+|..|-.. ..+.. .|-+|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~-C~~~VC~~C~~~-~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVD-CKHRVCKKCGVY-SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETT-TTEEEETTSEEE-TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCc-CCccccCccCCc-CCCCCCEEChhhHHH
Confidence 4568999998764 223444444 999999999655 11122 28888653
No 243
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=35.79 E-value=1.1e+02 Score=20.44 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~ 27 (192)
++++.++|+.+.+|++..+++-
T Consensus 15 vlGmg~VflfL~iLi~~~~~m~ 36 (84)
T COG3630 15 VLGMGFVFLFLSILIYAMRGMG 36 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555554444433
No 244
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.38 E-value=40 Score=21.95 Aligned_cols=28 Identities=29% Similarity=0.616 Sum_probs=21.7
Q ss_pred CCcccHHhHHHHHcCCCCCcccccccccCC
Q 040080 100 NHSFHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 100 ~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
.|.||.+|...-| +..||.|--.+..+.
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~RP 55 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVARP 55 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhcCc
Confidence 3779999998743 678999988776554
No 245
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=35.35 E-value=61 Score=26.01 Aligned_cols=24 Identities=17% Similarity=0.236 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
-++|+++++.+.+++|+.+|...+
T Consensus 192 pvvIaliVitl~vf~LvgLyr~C~ 215 (259)
T PF07010_consen 192 PVVIALIVITLSVFTLVGLYRMCW 215 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444444444444444443333
No 246
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=35.26 E-value=43 Score=29.09 Aligned_cols=19 Identities=42% Similarity=0.576 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIF 21 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~ 21 (192)
.+|+|++++-++.|++|+|
T Consensus 13 ~aiiiSv~LHvlLi~lLi~ 31 (387)
T PRK09510 13 RAIIISVVLHIILFALLIW 31 (387)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4566666655555554443
No 247
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=34.95 E-value=8.6 Score=32.20 Aligned_cols=47 Identities=15% Similarity=0.266 Sum_probs=29.0
Q ss_pred CCcccccCccccCCCceEEc--C-CCCCcccHHhHHHHHcCCCCCcccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLL--P-ICNHSFHAQCVDAWLLTNPNCPICRST 124 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~--~-~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 124 (192)
...||+|-..-... .+... . .=.+.+|.-|-..|-.....||.|-..
T Consensus 184 ~~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 44799998863211 01110 0 012457777888998778889999763
No 248
>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=34.50 E-value=27 Score=28.01 Aligned_cols=27 Identities=26% Similarity=0.639 Sum_probs=18.7
Q ss_pred ccHHhHHHHHcCCCCCcccccccccCC
Q 040080 103 FHAQCVDAWLLTNPNCPICRSTANSRR 129 (192)
Q Consensus 103 fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 129 (192)
-|.+|-..--++-..||+|++.=..+.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCC
Confidence 566777765556678999998654443
No 249
>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=34.15 E-value=19 Score=27.06 Aligned_cols=45 Identities=20% Similarity=0.450 Sum_probs=27.5
Q ss_pred cccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 81 AVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 81 ~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
.||+.--...+....-|.=.+.||.+|-.+-.. .||.|..++.-.
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 356554333333333343456799999887543 499999988554
No 250
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=34.14 E-value=8.8 Score=21.99 Aligned_cols=24 Identities=29% Similarity=0.489 Sum_probs=13.6
Q ss_pred CCCcccHHhHHHHHcCCCCCccccc
Q 040080 99 CNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
|||.|-...-..= .....||.|..
T Consensus 11 Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 11 CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 8887754321110 12345999987
No 251
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.94 E-value=21 Score=32.49 Aligned_cols=36 Identities=22% Similarity=0.557 Sum_probs=24.1
Q ss_pred CCCCcccccCccccCC----------CceEEcCCCCCcccHHhHHHH
Q 040080 75 SSPIECAVCLDKFNKG----------DKCRLLPICNHSFHAQCVDAW 111 (192)
Q Consensus 75 ~~~~~C~IC~~~~~~~----------~~~~~~~~C~H~fh~~Ci~~w 111 (192)
.....|+||.++|+.- ...+.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchH
Confidence 4466799999998632 0112232 4889999998764
No 252
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=33.77 E-value=1.2e+02 Score=19.10 Aligned_cols=16 Identities=25% Similarity=0.802 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIF 21 (192)
Q Consensus 6 il~~~~~~~~i~~l~~ 21 (192)
+++++++.++++++++
T Consensus 47 ~~~~~~~~~~~~~~~~ 62 (73)
T PF02656_consen 47 VLGLLLIVLGLLTLIY 62 (73)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444333
No 253
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=33.64 E-value=1.3e+02 Score=19.25 Aligned_cols=23 Identities=22% Similarity=0.213 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
+.+.++.+.+++++|+++++.+.
T Consensus 5 l~i~i~Gm~iVF~~L~lL~~~i~ 27 (79)
T PF04277_consen 5 LQIMIIGMGIVFLVLILLILVIS 27 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433333
No 254
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.07 E-value=32 Score=28.47 Aligned_cols=9 Identities=33% Similarity=1.161 Sum_probs=6.5
Q ss_pred CCCcccccc
Q 040080 116 PNCPICRST 124 (192)
Q Consensus 116 ~~CP~Cr~~ 124 (192)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 468888764
No 255
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=32.90 E-value=90 Score=17.17 Aligned_cols=19 Identities=5% Similarity=0.445 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIF 21 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~ 21 (192)
++++++++++++.+...+.
T Consensus 11 ~Gl~~g~~l~~~~~tG~~~ 29 (37)
T PF13706_consen 11 LGLILGLLLFVIFLTGAVM 29 (37)
T ss_pred HHHHHHHHHHHHHHHhHHH
Confidence 4555555555544444433
No 256
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=32.54 E-value=28 Score=20.98 Aligned_cols=22 Identities=32% Similarity=0.833 Sum_probs=12.1
Q ss_pred CCCcccHHhHHHHHcCCCCCccc
Q 040080 99 CNHSFHAQCVDAWLLTNPNCPIC 121 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~~~CP~C 121 (192)
|||.|-.. +..-......||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 77765432 22222345669988
No 257
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=32.46 E-value=31 Score=23.75 Aligned_cols=29 Identities=21% Similarity=0.419 Sum_probs=19.3
Q ss_pred CCCcccHHhHHHHHcCCCCCcccccccccC
Q 040080 99 CNHSFHAQCVDAWLLTNPNCPICRSTANSR 128 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 128 (192)
||+--|.-=+.++.. -..||.|+.++.+.
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCcc
Confidence 666666555666533 34599999988764
No 258
>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=32.27 E-value=40 Score=19.79 Aligned_cols=34 Identities=24% Similarity=0.425 Sum_probs=23.5
Q ss_pred CCCcccccCccc--cCCCceEEcCCCCCcccHHhHHH
Q 040080 76 SPIECAVCLDKF--NKGDKCRLLPICNHSFHAQCVDA 110 (192)
Q Consensus 76 ~~~~C~IC~~~~--~~~~~~~~~~~C~H~fh~~Ci~~ 110 (192)
....|.+|...+ .......-.. |+-..|.+|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 456799999988 3444555555 999999999765
No 259
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=32.23 E-value=22 Score=22.24 Aligned_cols=12 Identities=42% Similarity=1.135 Sum_probs=9.4
Q ss_pred CCCCcccccccc
Q 040080 115 NPNCPICRSTAN 126 (192)
Q Consensus 115 ~~~CP~Cr~~~~ 126 (192)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 457999999873
No 260
>PRK11677 hypothetical protein; Provisional
Probab=31.77 E-value=60 Score=23.79 Aligned_cols=19 Identities=21% Similarity=0.011 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~ 23 (192)
++++++.+++|+++-+++.
T Consensus 3 W~~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444433
No 261
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=31.69 E-value=1.4e+02 Score=22.35 Aligned_cols=21 Identities=24% Similarity=0.437 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040080 8 SVIFLFLGIGALIFIHVCIVA 28 (192)
Q Consensus 8 ~~~~~~~~i~~l~~~~~~~~~ 28 (192)
+.++-+++|.+++|+.+.+.+
T Consensus 83 ~~imPlYtiGI~~f~lY~l~K 103 (152)
T PF15361_consen 83 GQIMPLYTIGIVLFILYTLFK 103 (152)
T ss_pred hhHhHHHHHHHHHHHHHHHHH
Confidence 455556777776666655554
No 262
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=31.21 E-value=16 Score=32.22 Aligned_cols=14 Identities=21% Similarity=0.197 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhc
Q 040080 19 LIFIHVCIVARTFR 32 (192)
Q Consensus 19 l~~~~~~~~~~~~r 32 (192)
++++..+.++++.+
T Consensus 372 v~vc~~~rrrR~~~ 385 (439)
T PF02480_consen 372 VWVCLRCRRRRRQR 385 (439)
T ss_dssp --------------
T ss_pred hheeeeehhccccc
Confidence 33344455544433
No 263
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=31.01 E-value=46 Score=19.72 Aligned_cols=6 Identities=17% Similarity=0.434 Sum_probs=2.2
Q ss_pred HHHHHH
Q 040080 4 AIIISV 9 (192)
Q Consensus 4 ~iil~~ 9 (192)
++|...
T Consensus 7 gfiAta 12 (50)
T PRK14094 7 GFVASL 12 (50)
T ss_pred HHHHHH
Confidence 333333
No 264
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=30.88 E-value=20 Score=26.79 Aligned_cols=9 Identities=33% Similarity=0.589 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 040080 5 IIISVIFLF 13 (192)
Q Consensus 5 iil~~~~~~ 13 (192)
|.+++.+++
T Consensus 12 i~igi~Ll~ 20 (158)
T PF11770_consen 12 ISIGISLLL 20 (158)
T ss_pred HHHHHHHHH
Confidence 344443333
No 265
>PHA02849 putative transmembrane protein; Provisional
Probab=30.70 E-value=1.1e+02 Score=20.15 Aligned_cols=9 Identities=22% Similarity=0.169 Sum_probs=3.7
Q ss_pred hcCCceEee
Q 040080 61 EKLPCYEYL 69 (192)
Q Consensus 61 ~~l~~~~~~ 69 (192)
..|..+-|.
T Consensus 64 ~~Ld~VYYT 72 (82)
T PHA02849 64 THLNNVYYT 72 (82)
T ss_pred HHhcCEEec
Confidence 334444443
No 266
>PF15018 InaF-motif: TRP-interacting helix
Probab=30.54 E-value=72 Score=18.04 Aligned_cols=12 Identities=8% Similarity=0.213 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLG 15 (192)
Q Consensus 4 ~iil~~~~~~~~ 15 (192)
++++-++.+.++
T Consensus 9 tV~~Yl~~VSl~ 20 (38)
T PF15018_consen 9 TVVAYLFSVSLA 20 (38)
T ss_pred HHHHHHHHHHHH
Confidence 344444333333
No 267
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.27 E-value=8.2 Score=31.76 Aligned_cols=49 Identities=22% Similarity=0.554 Sum_probs=35.7
Q ss_pred CCcccccCccccC--CCceEEcCC--------CCCcccHHhHHHHHcCC-CCCccccccc
Q 040080 77 PIECAVCLDKFNK--GDKCRLLPI--------CNHSFHAQCVDAWLLTN-PNCPICRSTA 125 (192)
Q Consensus 77 ~~~C~IC~~~~~~--~~~~~~~~~--------C~H~fh~~Ci~~wl~~~-~~CP~Cr~~~ 125 (192)
...|.||...|.. ...+..... |||..+..|+..-+... ..||.|+...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 3569999999873 223333333 99999999999987653 4699998753
No 268
>PHA02657 hypothetical protein; Provisional
Probab=29.98 E-value=1.2e+02 Score=20.48 Aligned_cols=15 Identities=13% Similarity=0.240 Sum_probs=6.8
Q ss_pred HHHHhcCCceEeecc
Q 040080 57 RDDVEKLPCYEYLAK 71 (192)
Q Consensus 57 ~~~i~~l~~~~~~~~ 71 (192)
+.....|..+-|..+
T Consensus 72 RRsF~qLD~VYYTdD 86 (95)
T PHA02657 72 KTHFTRLDGVYYTDE 86 (95)
T ss_pred HHHHHhhcceEEcCC
Confidence 333444555555443
No 269
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=29.27 E-value=93 Score=28.35 Aligned_cols=11 Identities=18% Similarity=0.694 Sum_probs=4.5
Q ss_pred hHHHHHHHHHH
Q 040080 2 VMAIIISVIFL 12 (192)
Q Consensus 2 ~~~iil~~~~~ 12 (192)
++.++++++++
T Consensus 2 ~~~~ii~i~ii 12 (569)
T PRK04778 2 MIYLIIAIVVI 12 (569)
T ss_pred hhhHHHHHHHH
Confidence 34444444333
No 270
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=29.23 E-value=86 Score=23.79 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 040080 7 ISVIFLFLGIGALIFIHVCIVARTF 31 (192)
Q Consensus 7 l~~~~~~~~i~~l~~~~~~~~~~~~ 31 (192)
+.+++.+.+++++.|++..++.+++
T Consensus 98 ~~Vl~g~s~l~i~yfvir~~R~r~~ 122 (163)
T PF06679_consen 98 LYVLVGLSALAILYFVIRTFRLRRR 122 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3455555566666666666665554
No 271
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=29.16 E-value=1.6e+02 Score=21.32 Aligned_cols=12 Identities=42% Similarity=0.567 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 040080 18 ALIFIHVCIVAR 29 (192)
Q Consensus 18 ~l~~~~~~~~~~ 29 (192)
++++...|+.+|
T Consensus 30 ~lI~~~aWLlkR 41 (124)
T PRK11486 30 ALILAAAWLVKR 41 (124)
T ss_pred HHHHHHHHHHHH
Confidence 333333344433
No 272
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=28.68 E-value=26 Score=27.35 Aligned_cols=22 Identities=14% Similarity=0.401 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~ 27 (192)
-+++++++++++.-+++=.|+.
T Consensus 105 TvSlImViaAliTtlvlK~C~~ 126 (205)
T PF15298_consen 105 TVSLIMVIAALITTLVLKNCCA 126 (205)
T ss_pred eeehhHHHHHhhhhhhhhhhhh
Confidence 3444444444433333333433
No 273
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=28.18 E-value=43 Score=31.62 Aligned_cols=28 Identities=29% Similarity=0.670 Sum_probs=19.0
Q ss_pred cCCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 96 LPICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 96 ~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
.|.|.|.-|..=|.. .+.||+|......
T Consensus 1159 C~~CkH~a~~~EIs~----y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1159 CPRCKHRAHQHEISK----YNCCPLCHSMESF 1186 (1189)
T ss_pred ccccccccccccccc----cccCccccChhhc
Confidence 345889887655443 5679999876543
No 274
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=28.16 E-value=43 Score=27.09 Aligned_cols=25 Identities=24% Similarity=0.662 Sum_probs=17.4
Q ss_pred CcccccCccccCCCceEEcCCCCCcc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSF 103 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~f 103 (192)
..||+|...+.....--..+ .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999987554433444 67877
No 275
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=27.59 E-value=19 Score=26.91 Aligned_cols=24 Identities=38% Similarity=0.942 Sum_probs=16.3
Q ss_pred CCCcccHHhHHHHHcCC-----------CCCccccccccc
Q 040080 99 CNHSFHAQCVDAWLLTN-----------PNCPICRSTANS 127 (192)
Q Consensus 99 C~H~fh~~Ci~~wl~~~-----------~~CP~Cr~~~~~ 127 (192)
+||.| +.||.+. -+||+|-..-..
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~ 44 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEVS 44 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeEe
Confidence 77876 6788652 359999764433
No 276
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=27.48 E-value=37 Score=30.14 Aligned_cols=49 Identities=18% Similarity=0.495 Sum_probs=30.8
Q ss_pred CCcccccCccc-cCCCceEEcCCCCCcccHHhHHHHHcC--------CCCCccccccc
Q 040080 77 PIECAVCLDKF-NKGDKCRLLPICNHSFHAQCVDAWLLT--------NPNCPICRSTA 125 (192)
Q Consensus 77 ~~~C~IC~~~~-~~~~~~~~~~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~~ 125 (192)
+..|.+|+.-. ...+.+..-..|+-.||..|-...... .--|=+|....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 44599999543 333444444448999999998764422 12388887644
No 277
>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=27.41 E-value=20 Score=21.76 Aligned_cols=11 Identities=36% Similarity=1.059 Sum_probs=5.5
Q ss_pred CCCcccccccc
Q 040080 116 PNCPICRSTAN 126 (192)
Q Consensus 116 ~~CP~Cr~~~~ 126 (192)
.+||+|.+.+.
T Consensus 25 atCP~C~a~~~ 35 (54)
T PF09237_consen 25 ATCPICGAVIR 35 (54)
T ss_dssp EE-TTT--EES
T ss_pred CCCCcchhhcc
Confidence 35999988664
No 278
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=27.33 E-value=1.1e+02 Score=22.76 Aligned_cols=35 Identities=17% Similarity=0.128 Sum_probs=23.9
Q ss_pred hcCCceEeeccCCCCCCCcccccCccccCCCceEEc
Q 040080 61 EKLPCYEYLAKSKGSSPIECAVCLDKFNKGDKCRLL 96 (192)
Q Consensus 61 ~~l~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~ 96 (192)
.++-.++|++-+...++...++++-+-. ++.+...
T Consensus 81 ~kvgvvRYnAF~dmGg~LSFslAlLD~~-~nGvVlt 115 (151)
T PF14584_consen 81 QKVGVVRYNAFEDMGGDLSFSLALLDDN-NNGVVLT 115 (151)
T ss_pred ceEEEEEccCcccccccceeeeEEEeCC-CCEEEEE
Confidence 4445578888888888888898887643 3344444
No 279
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=27.30 E-value=1.1e+02 Score=16.36 Aligned_cols=17 Identities=18% Similarity=0.550 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGAL 19 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l 19 (192)
++++++++++++++..+
T Consensus 12 ~g~~~~~~ll~~~lTG~ 28 (34)
T PF13172_consen 12 LGLIAAIFLLLLALTGA 28 (34)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444333
No 280
>PF12259 DUF3609: Protein of unknown function (DUF3609); InterPro: IPR022048 This domain family is found in eukaryotes and viruses, and is typically between 348 and 360 amino acids in length.
Probab=26.85 E-value=47 Score=28.56 Aligned_cols=14 Identities=21% Similarity=-0.088 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHH
Q 040080 15 GIGALIFIHVCIVA 28 (192)
Q Consensus 15 ~i~~l~~~~~~~~~ 28 (192)
.+++++.+.++++.
T Consensus 309 li~vl~~~~~~~~~ 322 (361)
T PF12259_consen 309 LIIVLISLAWLYRT 322 (361)
T ss_pred HHHHHHHHHhheee
Confidence 33445555544443
No 281
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.77 E-value=25 Score=29.49 Aligned_cols=47 Identities=15% Similarity=0.279 Sum_probs=29.4
Q ss_pred CCCcccccCccccCCCceEEc-C-CCCCcccHHhHHHHHcCCCCCccccc
Q 040080 76 SPIECAVCLDKFNKGDKCRLL-P-ICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~-~-~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
....||+|-..-... .+..- . .=.|.+|.-|-..|-.....||.|-.
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 356799998863221 01110 1 02255777888899877888999975
No 282
>PF15179 Myc_target_1: Myc target protein 1
Probab=26.48 E-value=1.4e+02 Score=23.12 Aligned_cols=20 Identities=15% Similarity=0.205 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~ 24 (192)
|+...+.+++|+++-.++++
T Consensus 22 IlaF~vSm~iGLviG~li~~ 41 (197)
T PF15179_consen 22 ILAFCVSMAIGLVIGALIWA 41 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555554444433
No 283
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=26.38 E-value=35 Score=27.53 Aligned_cols=46 Identities=22% Similarity=0.375 Sum_probs=31.5
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCC--Ccc--ccccc
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPN--CPI--CRSTA 125 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~--CP~--Cr~~~ 125 (192)
...|+|-+..+.-+ .+...|+|.|-.+-|...+....+ ||. |-+.+
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~ 238 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKE 238 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecchhhcchhe
Confidence 34699977765433 233349999999999999886444 775 54443
No 284
>PF13120 DUF3974: Domain of unknown function (DUF3974)
Probab=26.07 E-value=37 Score=23.40 Aligned_cols=16 Identities=13% Similarity=0.486 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 040080 7 ISVIFLFLGIGALIFI 22 (192)
Q Consensus 7 l~~~~~~~~i~~l~~~ 22 (192)
++.+++++++.+++++
T Consensus 10 l~g~llligftivvl~ 25 (126)
T PF13120_consen 10 LIGTLLLIGFTIVVLL 25 (126)
T ss_pred HHHHHHHHHHHHHhhh
Confidence 3333444444444433
No 285
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=25.78 E-value=21 Score=26.61 Aligned_cols=27 Identities=26% Similarity=0.527 Sum_probs=18.4
Q ss_pred ccHHhHHHHHcCC----CCCcccccccccCC
Q 040080 103 FHAQCVDAWLLTN----PNCPICRSTANSRR 129 (192)
Q Consensus 103 fh~~Ci~~wl~~~----~~CP~Cr~~~~~~~ 129 (192)
||..|+++=|..- -.||.|+..-....
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQS 32 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCc
Confidence 7888888766542 24999987654433
No 286
>PRK11827 hypothetical protein; Provisional
Probab=25.41 E-value=25 Score=22.04 Aligned_cols=41 Identities=24% Similarity=0.503 Sum_probs=21.0
Q ss_pred HHHcCCCCCcccccccccCCCC-CCCCcccchhhhhhcCCCC
Q 040080 110 AWLLTNPNCPICRSTANSRRFG-EESSRFSDIDVELREGVPT 150 (192)
Q Consensus 110 ~wl~~~~~CP~Cr~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 150 (192)
+||..--.||.|+.++...... ...-.......+.+.+.|.
T Consensus 3 ~~LLeILaCP~ckg~L~~~~~~~~Lic~~~~laYPI~dgIPV 44 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYNQEKQELICKLDNLAFPLRDGIPV 44 (60)
T ss_pred hHHHhheECCCCCCcCeEcCCCCeEECCccCeeccccCCccc
Confidence 4454455689998887653211 1122333444455555554
No 287
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=25.20 E-value=1.2e+02 Score=20.96 Aligned_cols=12 Identities=25% Similarity=0.697 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFL 14 (192)
Q Consensus 3 ~~iil~~~~~~~ 14 (192)
++|+++.+++|+
T Consensus 52 ~GIli~f~i~f~ 63 (103)
T PF06422_consen 52 FGILIAFWIFFI 63 (103)
T ss_pred HHHHHHHHHHHH
Confidence 344444444443
No 288
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=25.15 E-value=62 Score=22.51 Aligned_cols=33 Identities=15% Similarity=0.334 Sum_probs=25.9
Q ss_pred cccccCccccCCCceEEcCCCCCcccHHhHHHHHc
Q 040080 79 ECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLL 113 (192)
Q Consensus 79 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 113 (192)
.|.||-.++..++.-..+.. -..|..|+..=..
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 59999999988877777753 5589999987543
No 289
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=25.09 E-value=29 Score=32.43 Aligned_cols=32 Identities=28% Similarity=0.792 Sum_probs=22.8
Q ss_pred EcCCCCCcccHHhHHHHHcCCCCCcccccccc
Q 040080 95 LLPICNHSFHAQCVDAWLLTNPNCPICRSTAN 126 (192)
Q Consensus 95 ~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 126 (192)
..|.|.-+||.+=.+--..++.-||.||..-.
T Consensus 1046 ~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1046 MCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 34557777877766666666788999998643
No 290
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=25.08 E-value=1.5e+02 Score=23.16 Aligned_cols=27 Identities=11% Similarity=0.056 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIVAR 29 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~~~ 29 (192)
+++|..++..+++-+....++.++++.
T Consensus 125 ~GlItlll~a~vgGfamy~my~y~yr~ 151 (226)
T COG4858 125 YGLITLLLTAVVGGFAMYIMYYYAYRM 151 (226)
T ss_pred hhHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence 344444444444444444444444433
No 291
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=24.48 E-value=22 Score=29.17 Aligned_cols=28 Identities=29% Similarity=0.608 Sum_probs=19.1
Q ss_pred CC-CcccHHhHHHHHc--CCCCCcccccccc
Q 040080 99 CN-HSFHAQCVDAWLL--TNPNCPICRSTAN 126 (192)
Q Consensus 99 C~-H~fh~~Ci~~wl~--~~~~CP~Cr~~~~ 126 (192)
|. -+||..|+---.. .+-.||-|+....
T Consensus 240 C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 240 CPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred CCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 88 7899999854211 1234999988654
No 292
>COG5264 VTC1 Vacuolar transporter chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=24.23 E-value=1.8e+02 Score=20.99 Aligned_cols=24 Identities=13% Similarity=0.235 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
+.+.+.++.++++++.+.-...|.
T Consensus 60 g~~~a~vftivaif~~~ya~~lY~ 83 (126)
T COG5264 60 GMISAYVFTIVAIFCGFYALMLYL 83 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666665555555443333
No 293
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.93 E-value=68 Score=22.06 Aligned_cols=34 Identities=24% Similarity=0.422 Sum_probs=26.4
Q ss_pred CCcccccCccccCCCceEEcCCCCCcccHHhHHHHH
Q 040080 77 PIECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWL 112 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 112 (192)
...|.||-..+..++.-...+ .-..|.+|+..=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHH
Confidence 456999999999888777776 3347999998743
No 294
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=23.77 E-value=2.2e+02 Score=19.06 Aligned_cols=17 Identities=12% Similarity=0.333 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 040080 7 ISVIFLFLGIGALIFIH 23 (192)
Q Consensus 7 l~~~~~~~~i~~l~~~~ 23 (192)
+|..++|+.+++++++.
T Consensus 17 ~GM~~VF~fL~lLi~~~ 33 (85)
T PRK03814 17 TGMGVVFIFLTLLVYLV 33 (85)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444333444433
No 295
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=23.68 E-value=1.4e+02 Score=18.89 Aligned_cols=10 Identities=30% Similarity=0.404 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 040080 13 FLGIGALIFI 22 (192)
Q Consensus 13 ~~~i~~l~~~ 22 (192)
++|+++-+|+
T Consensus 8 i~G~~~Gff~ 17 (64)
T PF03672_consen 8 IVGAVIGFFI 17 (64)
T ss_pred HHHHHHHHHH
Confidence 3343333333
No 296
>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=23.63 E-value=33 Score=19.01 Aligned_cols=29 Identities=17% Similarity=0.408 Sum_probs=16.5
Q ss_pred CCCCCcccHHhHHHHHcCCCCCccccccccc
Q 040080 97 PICNHSFHAQCVDAWLLTNPNCPICRSTANS 127 (192)
Q Consensus 97 ~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 127 (192)
+.||++||..=--+ +....|..|..++..
T Consensus 5 ~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 5 PKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp TTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred CCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 34888888432111 224568888776643
No 297
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=23.56 E-value=19 Score=29.81 Aligned_cols=29 Identities=24% Similarity=0.475 Sum_probs=15.5
Q ss_pred CCcccHHhHHHHHcC----CCCCcccccccccC
Q 040080 100 NHSFHAQCVDAWLLT----NPNCPICRSTANSR 128 (192)
Q Consensus 100 ~H~fh~~Ci~~wl~~----~~~CP~Cr~~~~~~ 128 (192)
.|.||..|-.+-..+ ...||.|+....++
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR 142 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFPR 142 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCCC
Confidence 455666665553322 23377777665554
No 298
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=23.43 E-value=1.7e+02 Score=19.49 Aligned_cols=15 Identities=27% Similarity=0.359 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHH
Q 040080 7 ISVIFLFLGIGALIF 21 (192)
Q Consensus 7 l~~~~~~~~i~~l~~ 21 (192)
+|..++|+.+.++++
T Consensus 16 lGMg~VfvFL~lLI~ 30 (82)
T PRK02919 16 LGMGFVLAFLFLLIF 30 (82)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 299
>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=23.28 E-value=34 Score=17.39 Aligned_cols=9 Identities=33% Similarity=1.147 Sum_probs=7.2
Q ss_pred CCccccccc
Q 040080 117 NCPICRSTA 125 (192)
Q Consensus 117 ~CP~Cr~~~ 125 (192)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 599998776
No 300
>PF14927 Neurensin: Neurensin
Probab=22.76 E-value=1e+02 Score=22.76 Aligned_cols=22 Identities=32% Similarity=0.464 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~ 24 (192)
++++++++++++|++++..-+.
T Consensus 46 V~~i~g~l~Ll~Gi~~l~vgY~ 67 (140)
T PF14927_consen 46 VGFISGLLLLLLGIVALTVGYL 67 (140)
T ss_pred HHHHHHHHHHHHHHHHHHhhcc
Confidence 3667777777777777766653
No 301
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=22.65 E-value=1e+02 Score=28.02 Aligned_cols=7 Identities=14% Similarity=0.354 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 040080 8 SVIFLFL 14 (192)
Q Consensus 8 ~~~~~~~ 14 (192)
.++++++
T Consensus 5 ~ii~i~i 11 (569)
T PRK04778 5 LIIAIVV 11 (569)
T ss_pred HHHHHHH
Confidence 3333333
No 302
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=22.56 E-value=29 Score=28.91 Aligned_cols=14 Identities=14% Similarity=0.064 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhc
Q 040080 19 LIFIHVCIVARTFR 32 (192)
Q Consensus 19 l~~~~~~~~~~~~r 32 (192)
|+...+.+.-++++
T Consensus 160 LIA~iIa~icyrrk 173 (290)
T PF05454_consen 160 LIAGIIACICYRRK 173 (290)
T ss_dssp --------------
T ss_pred HHHHHHHHHhhhhh
Confidence 33333344444433
No 303
>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=22.53 E-value=1.2e+02 Score=18.73 Aligned_cols=32 Identities=16% Similarity=0.388 Sum_probs=17.4
Q ss_pred CCCcccccCccccC--CCceEEcCCCCCcccHHh
Q 040080 76 SPIECAVCLDKFNK--GDKCRLLPICNHSFHAQC 107 (192)
Q Consensus 76 ~~~~C~IC~~~~~~--~~~~~~~~~C~H~fh~~C 107 (192)
....|+.|-..... ......-+.||+.+|.+-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHH
Confidence 34558887776554 223333344666666543
No 304
>PRK01343 zinc-binding protein; Provisional
Probab=22.42 E-value=42 Score=20.79 Aligned_cols=12 Identities=25% Similarity=0.761 Sum_probs=9.4
Q ss_pred CCCCcccccccc
Q 040080 115 NPNCPICRSTAN 126 (192)
Q Consensus 115 ~~~CP~Cr~~~~ 126 (192)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 356999999865
No 305
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=22.41 E-value=2.2e+02 Score=21.63 Aligned_cols=9 Identities=33% Similarity=1.139 Sum_probs=4.6
Q ss_pred CCccccccc
Q 040080 117 NCPICRSTA 125 (192)
Q Consensus 117 ~CP~Cr~~~ 125 (192)
.||.|+..+
T Consensus 85 wCp~C~~~l 93 (189)
T TIGR02661 85 SCPVCDKLF 93 (189)
T ss_pred CChhHHHHH
Confidence 355555543
No 306
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=22.40 E-value=38 Score=31.64 Aligned_cols=50 Identities=18% Similarity=0.463 Sum_probs=31.4
Q ss_pred CCcccccCccccCCC-------ceEEcCCCCCcccHHhHHHH----------HcCCCCCccccccccc
Q 040080 77 PIECAVCLDKFNKGD-------KCRLLPICNHSFHAQCVDAW----------LLTNPNCPICRSTANS 127 (192)
Q Consensus 77 ~~~C~IC~~~~~~~~-------~~~~~~~C~H~fh~~Ci~~w----------l~~~~~CP~Cr~~~~~ 127 (192)
...|-||-|.-.+.+ .+-... |.-.||..|-..- +.+-+.|.+|+..+..
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~-CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsK 183 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSG-CKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSK 183 (900)
T ss_pred cceeeeecccCCccccccccceeccccc-chhhhhhhHhhhhccceeccccccccceechhHHHHHHH
Confidence 456999999843322 112234 7788999998642 1123459999886643
No 307
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=22.35 E-value=1.1e+02 Score=21.80 Aligned_cols=17 Identities=18% Similarity=0.452 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 040080 11 FLFLGIGALIFIHVCIV 27 (192)
Q Consensus 11 ~~~~~i~~l~~~~~~~~ 27 (192)
.++++++++.|+++.+.
T Consensus 70 ~LivSLaLVsFvIFLii 86 (128)
T PF15145_consen 70 VLIVSLALVSFVIFLII 86 (128)
T ss_pred HHHHHHHHHHHHHHhee
Confidence 34445555555544443
No 308
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=22.12 E-value=38 Score=32.24 Aligned_cols=33 Identities=18% Similarity=0.447 Sum_probs=21.7
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHH
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWL 112 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 112 (192)
..|-.|....-+- .- .-+.|++.+|..|++.|.
T Consensus 230 ~mC~~C~~tlfn~-hw-~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 230 EMCDRCETTLFNI-HW-RCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred hhhhhhcccccce-eE-EccccCCeeeecchhhcc
Confidence 3466666543221 22 234499999999999996
No 309
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=21.99 E-value=68 Score=28.21 Aligned_cols=40 Identities=23% Similarity=0.586 Sum_probs=23.8
Q ss_pred CcccccCccccCCCceEEcCCCCCcccHHhHHHHHcCCCCCccccc
Q 040080 78 IECAVCLDKFNKGDKCRLLPICNHSFHAQCVDAWLLTNPNCPICRS 123 (192)
Q Consensus 78 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 123 (192)
..|+.-+..+..+.....-|.||-.||.+. +.+.||+|.-
T Consensus 365 ~ICa~s~tPIY~G~~~v~CP~cgA~y~~~~------kG~lC~vC~l 404 (422)
T PF06957_consen 365 DICAASYTPIYRGSPSVKCPYCGAKYHPEY------KGQLCPVCEL 404 (422)
T ss_dssp EEBTTT--EEETTS-EEE-TTT--EEEGGG------TTSB-TTTTT
T ss_pred eeeecccccccCCCCCeeCCCCCCccChhh------CCCCCCCCcc
Confidence 357777777777777777777888888654 4677999964
No 310
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=21.89 E-value=1e+02 Score=26.10 Aligned_cols=20 Identities=35% Similarity=0.443 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~ 23 (192)
+|||++++-++.|.+||+-.
T Consensus 14 AiiiS~vLH~iLfalLIwgS 33 (387)
T COG3064 14 AIIISAVLHIILFALLIWGS 33 (387)
T ss_pred HHhHHHHHHHHHHHHHHHhh
Confidence 56777777776666666544
No 311
>PHA02669 hypothetical protein; Provisional
Probab=21.87 E-value=1.6e+02 Score=22.37 Aligned_cols=11 Identities=45% Similarity=0.893 Sum_probs=5.0
Q ss_pred HHHHHHHHHHH
Q 040080 3 MAIIISVIFLF 13 (192)
Q Consensus 3 ~~iil~~~~~~ 13 (192)
++||++++.+-
T Consensus 7 i~iIvavi~LT 17 (210)
T PHA02669 7 IGIIVAVIYLT 17 (210)
T ss_pred hHHHHHHHHHH
Confidence 44454444443
No 312
>PF06643 DUF1158: Protein of unknown function (DUF1158); InterPro: IPR010590 This family consists of several enterobacterial YbdJ proteins. The function of this family is unknown
Probab=21.83 E-value=2.4e+02 Score=18.37 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIVAR 29 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~~~ 29 (192)
+++++-+.++++|.+=.+.+.+..++|
T Consensus 51 YTl~FClWFLlLGaiEy~viRfiwrRw 77 (82)
T PF06643_consen 51 YTLVFCLWFLLLGAIEYFVIRFIWRRW 77 (82)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 455666666666655555554444433
No 313
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=21.66 E-value=2.1e+02 Score=18.94 Aligned_cols=24 Identities=21% Similarity=0.207 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHVCIVAR 29 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~~ 29 (192)
..++++.=+.+.++|...+++..+
T Consensus 36 LaGiV~~D~vlTLLIv~~vy~car 59 (79)
T PF07213_consen 36 LAGIVAADAVLTLLIVLVVYYCAR 59 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Confidence 334443333333444444444433
No 314
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=21.33 E-value=53 Score=30.93 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
++|.++++.+++.+.+++++++.+.
T Consensus 714 ~~i~lgvv~~ivligl~llliwkll 738 (783)
T KOG1226|consen 714 LAIVLGVVAGIVLIGLALLLIWKLL 738 (783)
T ss_pred eeehHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666655555555555554433
No 315
>PF02936 COX4: Cytochrome c oxidase subunit IV; InterPro: IPR004203 Cytochrome c oxidase, a 13 sub-unit complex (1.9.3.1 from EC) is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit IV. The Dictyostelium discoideum (Slime mould) member of this family is called COX VI. The Saccharomyces cerevisiae protein YGX6_YEAST appears to be the yeast COX IV subunit.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3ABK_Q 3AG1_Q 3ASN_Q 1OCZ_D 2EIN_Q 2OCC_D 2YBB_O 3AG3_D 1OCO_Q 1V55_Q ....
Probab=21.27 E-value=1.5e+02 Score=21.85 Aligned_cols=19 Identities=32% Similarity=0.833 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040080 6 IISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~ 24 (192)
+++.+++++++.+++++.+
T Consensus 77 v~~~~~~~i~~s~~l~~~~ 95 (142)
T PF02936_consen 77 VFGGVFIFIGFSVLLFIWQ 95 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555543
No 316
>PF15353 HECA: Headcase protein family homologue
Probab=21.19 E-value=63 Score=22.67 Aligned_cols=14 Identities=21% Similarity=0.783 Sum_probs=12.3
Q ss_pred CCCcccHHhHHHHH
Q 040080 99 CNHSFHAQCVDAWL 112 (192)
Q Consensus 99 C~H~fh~~Ci~~wl 112 (192)
.++..|.+|.+.|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 57889999999994
No 317
>PHA03013 hypothetical protein; Provisional
Probab=21.08 E-value=96 Score=21.03 Aligned_cols=24 Identities=33% Similarity=0.476 Sum_probs=13.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHH
Q 040080 1 MVMAIIISVIFLFLGIGALIFIHV 24 (192)
Q Consensus 1 m~~~iil~~~~~~~~i~~l~~~~~ 24 (192)
|++.+++-++.++..++.++++++
T Consensus 1 ml~~~iiniii~i~fiisliiiyf 24 (109)
T PHA03013 1 MLFKFIINIIIIIAFIISLIIIYF 24 (109)
T ss_pred CeeehhhHHHHHHHHHHHHHHhhc
Confidence 566666665555555555555544
No 318
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=20.60 E-value=2.3e+02 Score=20.31 Aligned_cols=8 Identities=25% Similarity=0.227 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 040080 5 IIISVIFL 12 (192)
Q Consensus 5 iil~~~~~ 12 (192)
+|.++.++
T Consensus 89 VIGGLcaL 96 (126)
T PF03229_consen 89 VIGGLCAL 96 (126)
T ss_pred hhhHHHHH
Confidence 33333333
No 319
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=20.60 E-value=47 Score=27.40 Aligned_cols=6 Identities=50% Similarity=1.420 Sum_probs=3.9
Q ss_pred CCCccc
Q 040080 116 PNCPIC 121 (192)
Q Consensus 116 ~~CP~C 121 (192)
..||.|
T Consensus 270 ~~C~tC 275 (276)
T PF03850_consen 270 GICPTC 275 (276)
T ss_pred CCCCCC
Confidence 357777
No 320
>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=20.52 E-value=77 Score=26.07 Aligned_cols=45 Identities=22% Similarity=0.408 Sum_probs=25.5
Q ss_pred CCCcccccCccccCCCceEEcCCCC-CcccHHhHHHHHcC-CCCCcc
Q 040080 76 SPIECAVCLDKFNKGDKCRLLPICN-HSFHAQCVDAWLLT-NPNCPI 120 (192)
Q Consensus 76 ~~~~C~IC~~~~~~~~~~~~~~~C~-H~fh~~Ci~~wl~~-~~~CP~ 120 (192)
.-..|.||++--..+..-.-+.--. =.-|.+|..+|-.. ++.||-
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 3445888887643332111111011 14789999999644 777983
No 321
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=20.37 E-value=1e+02 Score=22.97 Aligned_cols=22 Identities=36% Similarity=0.792 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040080 5 IIISVIFLFLGIGALIFIHVCIV 27 (192)
Q Consensus 5 iil~~~~~~~~i~~l~~~~~~~~ 27 (192)
|++++++++ ++++.+++.+|+.
T Consensus 66 IVfgiVfim-gvva~i~icvCmc 87 (155)
T PF10873_consen 66 IVFGIVFIM-GVVAGIAICVCMC 87 (155)
T ss_pred eehhhHHHH-HHHHHHHHHHhhh
Confidence 444444333 3333333334443
No 322
>PF15378 DUF4605: Domain of unknown function (DUF4605)
Probab=20.35 E-value=2.3e+02 Score=17.69 Aligned_cols=21 Identities=38% Similarity=0.768 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040080 3 MAIIISVIFLFLGIGALIFIH 23 (192)
Q Consensus 3 ~~iil~~~~~~~~i~~l~~~~ 23 (192)
+.+++.+.++++++-.+.+..
T Consensus 29 ~~~~~~~lL~flG~~glllv~ 49 (60)
T PF15378_consen 29 MSIFFLVLLWFLGIRGLLLVG 49 (60)
T ss_pred HHHHHHHHHHHHhHHHHHHHH
Confidence 344555555555555544433
No 323
>PF14004 DUF4227: Protein of unknown function (DUF4227)
Probab=20.30 E-value=2.6e+02 Score=18.11 Aligned_cols=10 Identities=10% Similarity=0.049 Sum_probs=4.1
Q ss_pred ccccCCCCcc
Q 040080 35 LIRNNVGGAM 44 (192)
Q Consensus 35 ~~~~~~~~~~ 44 (192)
.+...+.+..
T Consensus 35 hrY~eP~G~A 44 (71)
T PF14004_consen 35 HRYDEPEGSA 44 (71)
T ss_pred CCCCCCCCce
Confidence 3344444444
No 324
>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=20.19 E-value=51 Score=29.48 Aligned_cols=12 Identities=25% Similarity=0.492 Sum_probs=7.5
Q ss_pred CcccccCccccC
Q 040080 78 IECAVCLDKFNK 89 (192)
Q Consensus 78 ~~C~IC~~~~~~ 89 (192)
.-|+-||+.+..
T Consensus 27 ~yCp~CL~~~p~ 38 (483)
T PF05502_consen 27 YYCPNCLFEVPS 38 (483)
T ss_pred eECccccccCCh
Confidence 347777776643
No 325
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=20.17 E-value=1e+02 Score=25.05 Aligned_cols=7 Identities=43% Similarity=0.463 Sum_probs=3.1
Q ss_pred HHHhcCC
Q 040080 58 DDVEKLP 64 (192)
Q Consensus 58 ~~i~~l~ 64 (192)
+....||
T Consensus 241 dfw~~lP 247 (268)
T PF09451_consen 241 DFWRSLP 247 (268)
T ss_pred hHHHhch
Confidence 3344444
No 326
>KOG1631 consensus Translocon-associated complex TRAP, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.16 E-value=2.1e+02 Score=23.08 Aligned_cols=26 Identities=8% Similarity=0.234 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040080 4 AIIISVIFLFLGIGALIFIHVCIVAR 29 (192)
Q Consensus 4 ~iil~~~~~~~~i~~l~~~~~~~~~~ 29 (192)
++|+.++++.++++++++...++...
T Consensus 184 TvFL~~lligl~llllv~~~q~L~~~ 209 (261)
T KOG1631|consen 184 TVFLYILLIGLSLLLLVLSQQFLSKL 209 (261)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35566666665555555555444433
No 327
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.08 E-value=1.4e+02 Score=22.14 Aligned_cols=29 Identities=28% Similarity=0.457 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 040080 6 IISVIFLFLGIGALIFIHVCIVARTFRAG 34 (192)
Q Consensus 6 il~~~~~~~~i~~l~~~~~~~~~~~~r~~ 34 (192)
++..+.+..++..+.++.+|+|.-..|+.
T Consensus 7 v~~~~vI~agiag~af~gYciYFd~KRrs 35 (143)
T KOG4056|consen 7 VLRTSVIAAGIAGLAFIGYCIYFDKKRRS 35 (143)
T ss_pred hhhhHHHHHHHHHHHHHHHHhhccccccc
Confidence 34445566677777777777765544433
No 328
>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=20.01 E-value=11 Score=22.97 Aligned_cols=15 Identities=33% Similarity=1.063 Sum_probs=11.7
Q ss_pred CCCCCcccHHhHHHH
Q 040080 97 PICNHSFHAQCVDAW 111 (192)
Q Consensus 97 ~~C~H~fh~~Ci~~w 111 (192)
+.|++.||..|-.+|
T Consensus 44 ~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 44 PSCGTEFCFKCGEPW 58 (64)
T ss_dssp TSCCSEECSSSTSES
T ss_pred CCCCCcCccccCccc
Confidence 348888988887777
Done!