Query 043163
Match_columns 172
No_of_seqs 154 out of 1920
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 13:31:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043163.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043163hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.9 1.9E-21 4.2E-26 157.7 9.7 78 53-131 204-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 4.4E-18 9.5E-23 99.9 1.7 44 78-122 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 1.3E-14 2.9E-19 113.3 4.8 73 54-126 148-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 2.1E-14 4.7E-19 93.0 3.8 45 77-122 19-73 (73)
5 COG5540 RING-finger-containing 99.4 3.5E-14 7.6E-19 112.4 2.9 49 78-127 324-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.4 9.6E-13 2.1E-17 106.9 9.5 53 74-127 284-346 (491)
7 PLN03208 E3 ubiquitin-protein 99.3 2.5E-12 5.5E-17 96.9 6.9 62 74-139 15-92 (193)
8 KOG0823 Predicted E3 ubiquitin 99.3 1.4E-12 3.1E-17 100.0 5.2 67 74-144 44-113 (230)
9 KOG0317 Predicted E3 ubiquitin 99.3 1.5E-12 3.3E-17 102.6 5.3 52 75-130 237-288 (293)
10 PF12861 zf-Apc11: Anaphase-pr 99.3 2E-12 4.3E-17 85.0 3.3 53 75-127 19-83 (85)
11 PF13920 zf-C3HC4_3: Zinc fing 99.3 2.6E-12 5.6E-17 77.2 3.2 46 77-126 2-48 (50)
12 PF13923 zf-C3HC4_2: Zinc fing 99.2 5.4E-12 1.2E-16 71.9 2.9 39 80-121 1-39 (39)
13 cd00162 RING RING-finger (Real 99.2 6.1E-12 1.3E-16 72.9 3.2 44 79-125 1-45 (45)
14 COG5194 APC11 Component of SCF 99.2 1.7E-11 3.6E-16 78.8 2.3 51 78-128 21-83 (88)
15 PF14634 zf-RING_5: zinc-RING 99.1 4.1E-11 8.8E-16 70.1 3.2 44 79-123 1-44 (44)
16 PHA02926 zinc finger-like prot 99.1 2.7E-11 5.9E-16 92.6 3.1 54 74-127 167-231 (242)
17 KOG0320 Predicted E3 ubiquitin 99.1 2.4E-11 5.2E-16 89.7 2.0 52 75-128 129-180 (187)
18 PF15227 zf-C3HC4_4: zinc fing 99.1 1.2E-10 2.6E-15 67.4 3.1 38 80-121 1-42 (42)
19 PF00097 zf-C3HC4: Zinc finger 99.1 1.4E-10 2.9E-15 66.7 3.1 39 80-121 1-41 (41)
20 KOG0802 E3 ubiquitin ligase [P 99.0 8.7E-11 1.9E-15 102.4 2.1 53 75-128 289-343 (543)
21 smart00184 RING Ring finger. E 99.0 4.3E-10 9.2E-15 62.8 2.8 38 80-121 1-39 (39)
22 smart00504 Ubox Modified RING 99.0 5.1E-10 1.1E-14 70.1 3.4 50 78-131 2-51 (63)
23 KOG1493 Anaphase-promoting com 98.9 1.4E-10 3.1E-15 73.9 -0.3 52 76-127 19-82 (84)
24 KOG2930 SCF ubiquitin ligase, 98.9 4.1E-10 8.9E-15 75.9 1.2 55 75-129 44-111 (114)
25 TIGR00599 rad18 DNA repair pro 98.9 1.6E-09 3.4E-14 90.5 3.5 50 74-127 23-72 (397)
26 KOG1734 Predicted RING-contain 98.8 1.3E-09 2.7E-14 85.5 0.5 57 75-132 222-287 (328)
27 COG5574 PEX10 RING-finger-cont 98.8 2.6E-09 5.6E-14 83.6 2.0 51 75-129 213-265 (271)
28 KOG0828 Predicted E3 ubiquitin 98.7 2.4E-08 5.1E-13 84.1 5.9 49 77-126 571-634 (636)
29 smart00744 RINGv The RING-vari 98.7 1.4E-08 3.1E-13 60.6 2.6 42 79-122 1-49 (49)
30 PF13445 zf-RING_UBOX: RING-ty 98.6 2.4E-08 5.3E-13 57.8 2.8 38 80-119 1-43 (43)
31 KOG0804 Cytoplasmic Zn-finger 98.6 2.1E-08 4.7E-13 83.5 2.2 50 74-126 172-222 (493)
32 PF11793 FANCL_C: FANCL C-term 98.6 1.4E-08 3.1E-13 65.1 0.3 51 77-127 2-67 (70)
33 KOG2164 Predicted E3 ubiquitin 98.5 4.1E-08 8.8E-13 83.2 2.2 58 77-138 186-248 (513)
34 KOG0287 Postreplication repair 98.5 3E-08 6.4E-13 80.2 1.3 53 75-131 21-73 (442)
35 PF04564 U-box: U-box domain; 98.4 2E-07 4.4E-12 60.2 3.7 51 76-130 3-54 (73)
36 TIGR00570 cdk7 CDK-activating 98.4 1.7E-07 3.6E-12 75.8 3.5 51 78-129 4-57 (309)
37 COG5219 Uncharacterized conser 98.4 5E-08 1.1E-12 87.6 0.5 53 74-126 1466-1523(1525)
38 COG5432 RAD18 RING-finger-cont 98.4 1.3E-07 2.7E-12 75.2 2.1 55 74-132 22-76 (391)
39 KOG4265 Predicted E3 ubiquitin 98.4 1.5E-07 3.2E-12 76.7 2.4 49 75-127 288-337 (349)
40 KOG2177 Predicted E3 ubiquitin 98.3 2.3E-07 4.9E-12 73.7 1.8 45 74-122 10-54 (386)
41 KOG4172 Predicted E3 ubiquitin 98.3 1.4E-07 3E-12 56.5 -0.0 46 78-127 8-55 (62)
42 PF14835 zf-RING_6: zf-RING of 98.3 1.6E-07 3.4E-12 58.5 0.0 49 78-131 8-56 (65)
43 KOG0827 Predicted E3 ubiquitin 98.3 3.5E-07 7.6E-12 75.2 1.9 45 78-122 5-52 (465)
44 KOG0825 PHD Zn-finger protein 98.1 5.5E-07 1.2E-11 79.7 0.3 59 77-136 123-181 (1134)
45 KOG0311 Predicted E3 ubiquitin 98.1 2.7E-07 5.8E-12 75.1 -2.6 51 74-127 40-91 (381)
46 KOG1645 RING-finger-containing 98.1 2.1E-06 4.5E-11 71.2 2.4 50 78-127 5-57 (463)
47 KOG4445 Uncharacterized conser 98.0 1.4E-06 3E-11 69.6 0.4 51 77-128 115-188 (368)
48 KOG1785 Tyrosine kinase negati 98.0 5E-06 1.1E-10 68.9 3.1 48 78-129 370-419 (563)
49 KOG1039 Predicted E3 ubiquitin 97.9 6.7E-06 1.4E-10 67.7 2.0 51 75-125 159-220 (344)
50 KOG3970 Predicted E3 ubiquitin 97.8 1.8E-05 3.9E-10 61.0 2.8 50 77-128 50-107 (299)
51 KOG0978 E3 ubiquitin ligase in 97.8 6.1E-06 1.3E-10 73.1 0.3 49 78-130 644-693 (698)
52 KOG0824 Predicted E3 ubiquitin 97.7 1.5E-05 3.2E-10 63.8 1.5 48 77-128 7-55 (324)
53 PF11789 zf-Nse: Zinc-finger o 97.7 2.9E-05 6.4E-10 47.7 2.4 41 77-120 11-53 (57)
54 KOG1941 Acetylcholine receptor 97.7 2.1E-05 4.5E-10 65.1 2.1 51 75-126 363-416 (518)
55 PF05883 Baculo_RING: Baculovi 97.6 2.4E-05 5.1E-10 55.9 0.9 36 77-113 26-67 (134)
56 KOG0297 TNF receptor-associate 97.5 4.3E-05 9.4E-10 64.4 1.7 55 74-131 18-72 (391)
57 KOG1952 Transcription factor N 97.5 7.3E-05 1.6E-09 67.1 2.7 65 75-139 189-263 (950)
58 KOG4159 Predicted E3 ubiquitin 97.5 6E-05 1.3E-09 63.3 2.1 50 74-127 81-130 (398)
59 KOG1571 Predicted E3 ubiquitin 97.4 1.4E-05 3E-10 65.5 -2.3 46 74-126 302-347 (355)
60 KOG3039 Uncharacterized conser 97.3 0.00025 5.3E-09 55.5 3.7 56 78-133 222-277 (303)
61 KOG4692 Predicted E3 ubiquitin 97.3 0.00037 8.1E-09 57.2 4.3 60 74-137 419-478 (489)
62 KOG1428 Inhibitor of type V ad 97.1 0.00031 6.8E-09 66.4 2.6 52 74-126 3483-3544(3738)
63 KOG0801 Predicted E3 ubiquitin 97.0 0.00019 4E-09 52.8 0.5 29 76-105 176-204 (205)
64 PF14570 zf-RING_4: RING/Ubox 97.0 0.00053 1.1E-08 40.4 2.3 44 80-124 1-46 (48)
65 PF12906 RINGv: RING-variant d 97.0 0.00048 1E-08 40.5 2.1 40 80-121 1-47 (47)
66 PHA02825 LAP/PHD finger-like p 97.0 0.00089 1.9E-08 49.1 3.8 55 75-133 6-66 (162)
67 PHA02862 5L protein; Provision 96.9 0.00073 1.6E-08 48.7 2.8 47 78-129 3-56 (156)
68 COG5152 Uncharacterized conser 96.9 0.00036 7.8E-09 53.0 1.0 43 78-124 197-239 (259)
69 PF10367 Vps39_2: Vacuolar sor 96.8 0.0005 1.1E-08 47.1 1.0 33 75-109 76-108 (109)
70 COG5222 Uncharacterized conser 96.7 0.0013 2.8E-08 52.9 3.0 46 78-126 275-322 (427)
71 KOG2879 Predicted E3 ubiquitin 96.7 0.0016 3.6E-08 51.7 3.3 50 74-126 236-287 (298)
72 KOG1814 Predicted E3 ubiquitin 96.7 0.00077 1.7E-08 56.3 1.4 38 75-113 182-219 (445)
73 PHA03096 p28-like protein; Pro 96.6 0.00096 2.1E-08 53.9 1.5 48 78-125 179-236 (284)
74 KOG2660 Locus-specific chromos 96.6 0.00038 8.2E-09 56.5 -0.9 50 75-127 13-62 (331)
75 KOG1002 Nucleotide excision re 96.5 0.00081 1.8E-08 57.9 0.6 50 75-128 534-588 (791)
76 PF08746 zf-RING-like: RING-li 96.5 0.0018 3.8E-08 37.4 1.7 41 80-121 1-43 (43)
77 KOG0826 Predicted E3 ubiquitin 96.5 0.0051 1.1E-07 50.1 4.9 55 75-132 298-352 (357)
78 KOG4275 Predicted E3 ubiquitin 96.5 0.00057 1.2E-08 54.7 -0.6 43 77-127 300-343 (350)
79 KOG0827 Predicted E3 ubiquitin 96.3 0.0002 4.4E-09 59.3 -4.3 53 77-130 196-249 (465)
80 PF04641 Rtf2: Rtf2 RING-finge 96.1 0.007 1.5E-07 48.3 3.9 57 74-131 110-166 (260)
81 KOG1813 Predicted E3 ubiquitin 96.1 0.002 4.4E-08 51.6 0.8 45 78-126 242-286 (313)
82 KOG3268 Predicted E3 ubiquitin 96.1 0.003 6.5E-08 47.3 1.5 30 98-127 189-229 (234)
83 COG5236 Uncharacterized conser 96.1 0.0095 2.1E-07 49.0 4.4 51 74-128 58-110 (493)
84 KOG4739 Uncharacterized protei 96.0 0.0024 5.2E-08 49.9 0.8 46 80-129 6-51 (233)
85 COG5175 MOT2 Transcriptional r 96.0 0.0046 9.9E-08 50.7 2.3 55 75-130 12-68 (480)
86 PF14446 Prok-RING_1: Prokaryo 95.9 0.0082 1.8E-07 36.2 2.6 33 78-110 6-38 (54)
87 KOG4185 Predicted E3 ubiquitin 95.8 0.0056 1.2E-07 49.6 2.1 46 78-124 4-53 (296)
88 KOG2114 Vacuolar assembly/sort 95.5 0.0069 1.5E-07 54.9 1.6 43 75-123 838-880 (933)
89 KOG1940 Zn-finger protein [Gen 95.4 0.0078 1.7E-07 48.3 1.7 44 79-123 160-204 (276)
90 PF14447 Prok-RING_4: Prokaryo 95.3 0.0076 1.7E-07 36.4 1.0 43 79-127 9-51 (55)
91 KOG0309 Conserved WD40 repeat- 95.3 0.0088 1.9E-07 53.7 1.8 39 80-120 1031-1069(1081)
92 PF10272 Tmpp129: Putative tra 94.9 0.037 8E-07 46.1 4.1 28 99-126 311-351 (358)
93 KOG1001 Helicase-like transcri 94.8 0.01 2.3E-07 53.3 0.9 50 78-132 455-506 (674)
94 PF12273 RCR: Chitin synthesis 94.3 0.061 1.3E-06 38.4 3.7 13 5-17 3-15 (130)
95 KOG2034 Vacuolar sorting prote 94.1 0.023 5.1E-07 51.8 1.3 37 74-112 814-850 (911)
96 PF03854 zf-P11: P-11 zinc fin 93.9 0.046 9.9E-07 32.0 1.8 29 99-127 18-47 (50)
97 KOG3800 Predicted E3 ubiquitin 93.3 0.075 1.6E-06 42.7 2.8 48 79-127 2-52 (300)
98 KOG3053 Uncharacterized conser 93.2 0.045 9.9E-07 43.3 1.5 53 75-128 18-84 (293)
99 KOG0298 DEAD box-containing he 93.1 0.028 6E-07 53.2 0.1 43 78-123 1154-1196(1394)
100 KOG3002 Zn finger protein [Gen 93.0 0.064 1.4E-06 43.8 2.1 47 75-127 46-92 (299)
101 PF15050 SCIMP: SCIMP protein 93.0 0.18 3.9E-06 35.4 3.9 30 2-31 7-36 (133)
102 KOG1100 Predicted E3 ubiquitin 92.9 0.049 1.1E-06 42.1 1.2 39 80-126 161-200 (207)
103 KOG2932 E3 ubiquitin ligase in 92.8 0.044 9.5E-07 44.5 0.9 44 78-126 91-134 (389)
104 KOG2817 Predicted E3 ubiquitin 92.8 0.084 1.8E-06 44.2 2.5 49 74-123 331-382 (394)
105 KOG3899 Uncharacterized conser 92.3 0.063 1.4E-06 43.3 1.2 31 99-129 325-368 (381)
106 PF07800 DUF1644: Protein of u 92.3 0.14 3.1E-06 37.7 2.9 34 77-112 2-46 (162)
107 COG5220 TFB3 Cdk activating ki 92.2 0.05 1.1E-06 42.7 0.5 52 76-127 9-65 (314)
108 PF05290 Baculo_IE-1: Baculovi 91.6 0.11 2.4E-06 37.1 1.6 51 76-126 79-132 (140)
109 KOG3161 Predicted E3 ubiquitin 91.6 0.054 1.2E-06 48.0 0.0 43 77-123 11-54 (861)
110 KOG1812 Predicted E3 ubiquitin 90.5 0.094 2E-06 44.3 0.4 38 76-114 145-183 (384)
111 KOG1609 Protein involved in mR 90.3 0.19 4.1E-06 40.7 2.1 50 77-127 78-135 (323)
112 PF01102 Glycophorin_A: Glycop 90.1 0.61 1.3E-05 33.0 4.2 18 6-23 66-83 (122)
113 KOG0802 E3 ubiquitin ligase [P 89.3 0.24 5.2E-06 43.7 2.1 48 75-130 477-524 (543)
114 KOG0269 WD40 repeat-containing 88.9 0.38 8.2E-06 43.6 3.0 40 79-120 781-820 (839)
115 PF10571 UPF0547: Uncharacteri 88.6 0.24 5.2E-06 25.3 1.0 23 79-103 2-24 (26)
116 KOG4367 Predicted Zn-finger pr 88.6 0.21 4.5E-06 42.6 1.1 35 75-113 2-36 (699)
117 KOG4362 Transcriptional regula 88.4 0.13 2.8E-06 46.1 -0.2 53 76-132 20-75 (684)
118 COG5183 SSM4 Protein involved 88.4 0.4 8.6E-06 43.9 2.8 52 77-129 12-69 (1175)
119 PF07406 NICE-3: NICE-3 protei 87.3 1.3 2.8E-05 33.7 4.7 33 2-34 10-42 (186)
120 COG5109 Uncharacterized conser 86.2 1.4 3E-05 36.2 4.5 48 74-122 333-383 (396)
121 PF15102 TMEM154: TMEM154 prot 86.0 0.58 1.3E-05 34.1 2.0 9 106-114 128-136 (146)
122 smart00249 PHD PHD zinc finger 85.6 0.67 1.5E-05 25.9 1.9 30 80-110 2-31 (47)
123 PF02891 zf-MIZ: MIZ/SP-RING z 85.5 1 2.3E-05 26.6 2.7 43 78-124 3-50 (50)
124 KOG3113 Uncharacterized conser 85.1 0.85 1.8E-05 36.2 2.7 57 77-135 111-167 (293)
125 PF00628 PHD: PHD-finger; Int 84.2 0.68 1.5E-05 27.0 1.5 43 80-123 2-50 (51)
126 PF07975 C1_4: TFIIH C1-like d 84.1 0.9 1.9E-05 27.1 1.9 42 80-122 2-50 (51)
127 KOG3005 GIY-YIG type nuclease 83.7 0.66 1.4E-05 37.1 1.6 50 78-127 183-244 (276)
128 PF13901 DUF4206: Domain of un 82.5 0.91 2E-05 34.9 1.9 40 77-122 152-196 (202)
129 PF05393 Hum_adeno_E3A: Human 81.9 3.1 6.7E-05 27.6 3.9 18 4-21 34-51 (94)
130 KOG2066 Vacuolar assembly/sort 81.4 0.56 1.2E-05 42.7 0.5 45 75-121 782-830 (846)
131 KOG1829 Uncharacterized conser 81.2 0.51 1.1E-05 41.8 0.2 40 78-121 512-556 (580)
132 PF01102 Glycophorin_A: Glycop 80.4 1.9 4.2E-05 30.5 2.8 21 4-24 67-87 (122)
133 KOG4718 Non-SMC (structural ma 80.1 1.1 2.3E-05 34.7 1.5 44 77-123 181-224 (235)
134 PF13719 zinc_ribbon_5: zinc-r 79.4 1.3 2.8E-05 24.4 1.4 26 79-104 4-36 (37)
135 smart00132 LIM Zinc-binding do 78.5 2.3 5E-05 22.7 2.3 37 80-126 2-38 (39)
136 KOG0825 PHD Zn-finger protein 77.8 1.4 2.9E-05 40.5 1.7 50 77-126 96-154 (1134)
137 PRK01844 hypothetical protein; 77.4 4.7 0.0001 25.7 3.7 28 6-33 7-34 (72)
138 KOG1812 Predicted E3 ubiquitin 77.4 1.1 2.4E-05 37.8 1.1 44 78-121 307-351 (384)
139 PF08114 PMP1_2: ATPase proteo 77.2 7 0.00015 22.1 3.9 21 6-26 13-33 (43)
140 KOG1815 Predicted E3 ubiquitin 76.0 1.7 3.6E-05 37.5 1.8 37 75-114 68-104 (444)
141 PF01363 FYVE: FYVE zinc finge 76.0 1.5 3.3E-05 27.3 1.2 37 76-112 8-44 (69)
142 PF08374 Protocadherin: Protoc 75.0 2.6 5.6E-05 32.7 2.4 16 124-139 180-195 (221)
143 PHA02902 putative IMV membrane 74.8 11 0.00023 23.5 4.6 8 56-63 54-61 (70)
144 PF12877 DUF3827: Domain of un 73.7 3.8 8.1E-05 36.8 3.3 23 1-23 267-289 (684)
145 PF00412 LIM: LIM domain; Int 73.5 2.9 6.2E-05 24.7 1.9 39 80-128 1-39 (58)
146 COG3763 Uncharacterized protei 72.8 6.3 0.00014 25.0 3.3 29 4-32 5-33 (71)
147 KOG2068 MOT2 transcription fac 72.5 5.8 0.00012 32.7 3.9 46 78-124 250-296 (327)
148 KOG3842 Adaptor protein Pellin 70.8 4.8 0.0001 33.1 3.1 53 74-127 338-415 (429)
149 PF08374 Protocadherin: Protoc 70.4 2.4 5.3E-05 32.8 1.3 12 2-13 35-46 (221)
150 PRK00523 hypothetical protein; 68.4 12 0.00026 23.9 3.9 24 9-32 11-34 (72)
151 cd00065 FYVE FYVE domain; Zinc 67.1 4.6 0.0001 23.9 1.8 35 78-112 3-37 (57)
152 KOG3039 Uncharacterized conser 67.0 3.5 7.6E-05 32.7 1.6 36 74-113 40-75 (303)
153 PF06844 DUF1244: Protein of u 66.2 3.4 7.3E-05 25.9 1.1 11 103-113 12-22 (68)
154 TIGR00622 ssl1 transcription f 66.1 6.3 0.00014 27.5 2.5 45 78-122 56-110 (112)
155 PF07191 zinc-ribbons_6: zinc- 64.7 0.61 1.3E-05 29.7 -2.5 46 78-134 2-47 (70)
156 PF07649 C1_3: C1-like domain; 64.3 6.7 0.00014 20.2 1.9 29 79-108 2-30 (30)
157 PLN02436 cellulose synthase A 63.9 9.1 0.0002 36.5 3.9 49 78-126 37-89 (1094)
158 KOG1245 Chromatin remodeling c 63.9 2.6 5.7E-05 41.4 0.4 51 75-126 1106-1160(1404)
159 PLN02189 cellulose synthase 63.7 9.3 0.0002 36.3 3.9 49 78-126 35-87 (1040)
160 PF14311 DUF4379: Domain of un 63.4 5.8 0.00013 23.6 1.8 27 94-121 29-55 (55)
161 PF13717 zinc_ribbon_4: zinc-r 63.4 4.3 9.4E-05 22.2 1.1 26 79-104 4-36 (36)
162 PF06679 DUF1180: Protein of u 63.0 12 0.00027 27.8 3.7 24 8-31 98-121 (163)
163 TIGR00686 phnA alkylphosphonat 63.0 4 8.7E-05 28.2 1.1 26 79-104 4-30 (109)
164 PF04710 Pellino: Pellino; In 62.9 2.4 5.3E-05 35.8 0.0 28 92-123 303-336 (416)
165 PF06667 PspB: Phage shock pro 62.3 17 0.00036 23.5 3.8 9 15-23 15-23 (75)
166 PF03229 Alpha_GJ: Alphavirus 61.7 14 0.00031 25.8 3.6 30 6-35 89-118 (126)
167 PF14169 YdjO: Cold-inducible 61.5 3.8 8.2E-05 25.2 0.7 14 115-128 39-52 (59)
168 smart00064 FYVE Protein presen 61.4 7 0.00015 24.1 1.9 36 78-113 11-46 (68)
169 PF08274 PhnA_Zn_Ribbon: PhnA 61.2 3.2 6.8E-05 21.9 0.3 25 79-103 4-29 (30)
170 PF10577 UPF0560: Uncharacteri 60.7 11 0.00025 34.7 3.8 27 8-34 277-303 (807)
171 smart00647 IBR In Between Ring 60.4 2.8 6.1E-05 25.3 -0.0 21 91-111 38-58 (64)
172 KOG1094 Discoidin domain recep 60.1 17 0.00037 32.9 4.6 30 2-31 389-418 (807)
173 PF04423 Rad50_zn_hook: Rad50 59.4 2.8 6.2E-05 24.9 -0.1 13 117-129 22-34 (54)
174 KOG0956 PHD finger protein AF1 59.0 3.8 8.2E-05 37.1 0.5 48 79-127 119-183 (900)
175 PF14654 Epiglycanin_C: Mucin, 58.8 19 0.00041 24.4 3.7 27 4-30 18-44 (106)
176 PRK10220 hypothetical protein; 58.8 6.8 0.00015 27.1 1.6 25 79-103 5-30 (111)
177 PRK14762 membrane protein; Pro 58.7 10 0.00022 19.0 1.8 15 5-19 7-21 (27)
178 smart00531 TFIIE Transcription 58.7 10 0.00022 27.5 2.7 38 93-130 99-138 (147)
179 PF05434 Tmemb_9: TMEM9; Inte 58.1 32 0.00069 25.2 5.0 19 5-23 59-77 (149)
180 PRK05978 hypothetical protein; 57.7 7.6 0.00017 28.4 1.8 23 101-128 43-65 (148)
181 PF07282 OrfB_Zn_ribbon: Putat 56.8 9.2 0.0002 23.7 1.9 36 76-111 27-64 (69)
182 PF14979 TMEM52: Transmembrane 56.7 32 0.0007 25.1 4.8 28 5-32 22-50 (154)
183 PF15176 LRR19-TM: Leucine-ric 56.6 27 0.00058 23.8 4.2 24 5-28 19-42 (102)
184 PF06906 DUF1272: Protein of u 56.1 24 0.00053 21.4 3.5 45 78-127 6-53 (57)
185 KOG1815 Predicted E3 ubiquitin 56.0 3.6 7.9E-05 35.4 -0.1 36 78-114 227-267 (444)
186 PF03672 UPF0154: Uncharacteri 54.8 28 0.0006 21.8 3.7 20 13-32 7-26 (64)
187 PF05624 LSR: Lipolysis stimul 53.7 15 0.00032 21.3 2.2 14 3-16 2-15 (49)
188 KOG1729 FYVE finger containing 53.4 2.5 5.5E-05 34.4 -1.4 35 79-114 216-250 (288)
189 KOG2071 mRNA cleavage and poly 53.2 9.7 0.00021 33.8 2.1 35 75-111 511-556 (579)
190 KOG1538 Uncharacterized conser 53.0 5.3 0.00011 36.3 0.4 37 90-126 1041-1077(1081)
191 PF10497 zf-4CXXC_R1: Zinc-fin 52.8 23 0.00049 24.3 3.5 24 100-123 37-69 (105)
192 KOG2041 WD40 repeat protein [G 52.6 9.5 0.00021 35.1 1.9 48 75-126 1129-1185(1189)
193 KOG2807 RNA polymerase II tran 52.3 12 0.00025 31.1 2.2 46 77-123 330-375 (378)
194 PF11023 DUF2614: Protein of u 50.3 15 0.00033 25.5 2.2 20 113-132 83-102 (114)
195 PLN02400 cellulose synthase 50.2 17 0.00037 34.8 3.2 49 78-126 37-89 (1085)
196 PF01034 Syndecan: Syndecan do 49.8 4.8 0.0001 25.1 -0.2 15 9-23 17-31 (64)
197 KOG3579 Predicted E3 ubiquitin 49.0 9.9 0.00021 30.9 1.3 38 77-115 268-306 (352)
198 COG1592 Rubrerythrin [Energy p 48.9 12 0.00027 27.9 1.8 24 93-123 134-157 (166)
199 PF15298 AJAP1_PANP_C: AJAP1/P 48.9 18 0.00039 27.7 2.7 8 23-30 120-127 (205)
200 PF05502 Dynactin_p62: Dynacti 48.5 14 0.00031 32.3 2.4 39 78-128 27-65 (483)
201 PF02318 FYVE_2: FYVE-type zin 48.4 9.4 0.0002 26.6 1.0 47 76-123 53-102 (118)
202 PLN02638 cellulose synthase A 47.8 24 0.00052 33.8 3.8 49 78-126 18-70 (1079)
203 PF12259 DUF3609: Protein of u 47.7 32 0.00069 29.0 4.2 22 10-31 306-327 (361)
204 PF07204 Orthoreo_P10: Orthore 47.5 13 0.00028 25.0 1.5 16 4-19 42-57 (98)
205 PF06750 DiS_P_DiS: Bacterial 47.1 18 0.00038 24.2 2.2 38 78-128 34-71 (92)
206 PF02038 ATP1G1_PLM_MAT8: ATP1 47.0 32 0.00069 20.4 2.9 16 9-24 19-34 (50)
207 COG4847 Uncharacterized protei 46.7 23 0.0005 23.9 2.6 35 78-114 7-41 (103)
208 PRK06266 transcription initiat 46.4 22 0.00048 26.7 2.8 18 112-129 133-150 (178)
209 PF14584 DUF4446: Protein of u 46.4 32 0.00068 25.2 3.6 23 73-96 93-115 (151)
210 PF11669 WBP-1: WW domain-bind 46.2 55 0.0012 22.2 4.6 9 15-23 34-42 (102)
211 COG4741 Predicted secreted end 46.2 45 0.00098 24.6 4.2 18 3-20 2-19 (175)
212 PF04216 FdhE: Protein involve 45.9 2.3 5.1E-05 34.4 -2.7 45 78-123 173-219 (290)
213 KOG3799 Rab3 effector RIM1 and 45.8 6.8 0.00015 28.2 -0.0 68 74-144 62-134 (169)
214 PF14569 zf-UDP: Zinc-binding 45.5 29 0.00062 22.6 2.8 49 78-126 10-62 (80)
215 PF05191 ADK_lid: Adenylate ki 45.0 10 0.00022 20.7 0.6 31 95-127 3-33 (36)
216 PF09943 DUF2175: Uncharacteri 44.5 20 0.00044 24.5 2.1 33 79-113 4-36 (101)
217 PF10669 Phage_Gp23: Protein g 44.3 39 0.00084 23.0 3.4 15 9-23 20-34 (121)
218 PF04689 S1FA: DNA binding pro 44.0 42 0.0009 20.9 3.2 21 4-24 15-35 (69)
219 PF03107 C1_2: C1 domain; Int 43.8 16 0.00034 18.9 1.2 29 79-108 2-30 (30)
220 PF15353 HECA: Headcase protei 43.6 15 0.00033 25.2 1.4 13 99-111 40-52 (107)
221 PF13832 zf-HC5HC2H_2: PHD-zin 43.4 19 0.00042 24.3 2.0 32 77-111 55-88 (110)
222 PF09723 Zn-ribbon_8: Zinc rib 43.3 5.2 0.00011 22.6 -0.8 25 98-123 10-34 (42)
223 TIGR00373 conserved hypothetic 42.8 26 0.00056 25.8 2.7 19 112-130 125-143 (158)
224 KOG0824 Predicted E3 ubiquitin 41.0 9 0.0002 31.3 0.0 49 74-125 102-150 (324)
225 KOG2231 Predicted E3 ubiquitin 40.7 38 0.00082 30.9 3.8 45 79-127 2-53 (669)
226 KOG2979 Protein involved in DN 40.6 15 0.00032 29.4 1.1 41 78-121 177-219 (262)
227 PRK11088 rrmA 23S rRNA methylt 40.6 19 0.00041 28.6 1.8 25 78-103 3-27 (272)
228 COG2824 PhnA Uncharacterized Z 40.2 15 0.00033 25.3 1.0 12 79-90 5-16 (112)
229 PF06937 EURL: EURL protein; 38.5 24 0.00053 28.4 2.1 42 78-119 31-74 (285)
230 KOG1356 Putative transcription 38.2 15 0.00031 34.2 0.9 49 76-126 228-282 (889)
231 PF12072 DUF3552: Domain of un 38.1 52 0.0011 25.1 3.8 18 6-23 3-20 (201)
232 COG5627 MMS21 DNA repair prote 38.0 15 0.00032 29.0 0.8 40 78-120 190-231 (275)
233 COG3492 Uncharacterized protei 37.9 15 0.00033 24.5 0.7 12 103-114 43-54 (104)
234 PRK11827 hypothetical protein; 37.6 9 0.0002 23.6 -0.4 19 109-127 2-20 (60)
235 PRK14714 DNA polymerase II lar 37.5 19 0.00041 35.1 1.5 13 116-128 693-705 (1337)
236 KOG0957 PHD finger protein [Ge 36.7 18 0.00038 31.9 1.1 61 79-139 121-194 (707)
237 KOG4007 Uncharacterized conser 36.2 62 0.0014 24.9 3.8 27 4-30 137-163 (229)
238 PF07010 Endomucin: Endomucin; 35.6 1.3E+02 0.0028 23.8 5.6 26 9-34 192-217 (259)
239 PF11174 DUF2970: Protein of u 35.4 80 0.0017 19.0 3.6 22 4-25 32-53 (56)
240 COG3190 FliO Flagellar biogene 34.9 49 0.0011 23.9 3.0 15 7-21 28-42 (137)
241 PRK01741 cell division protein 34.9 1.2E+02 0.0025 25.4 5.5 22 2-23 2-23 (332)
242 PF09237 GAGA: GAGA factor; I 34.9 10 0.00022 22.7 -0.4 12 117-128 26-37 (54)
243 KOG0955 PHD finger protein BR1 34.9 27 0.00059 33.5 2.1 36 74-109 216-252 (1051)
244 PF13771 zf-HC5HC2H: PHD-like 34.7 28 0.00061 22.5 1.7 32 78-110 37-68 (90)
245 PRK11677 hypothetical protein; 34.6 57 0.0012 23.5 3.3 19 6-24 3-21 (134)
246 PF03119 DNA_ligase_ZBD: NAD-d 34.2 17 0.00036 18.7 0.4 11 117-127 1-11 (28)
247 PF11446 DUF2897: Protein of u 34.2 72 0.0016 19.2 3.2 10 15-24 14-23 (55)
248 PF15069 FAM163: FAM163 family 33.7 47 0.001 24.1 2.7 6 116-121 92-97 (143)
249 PF05715 zf-piccolo: Piccolo Z 33.6 28 0.00061 21.4 1.3 13 115-127 2-14 (61)
250 PF15616 TerY-C: TerY-C metal 33.5 21 0.00045 25.6 0.9 44 74-127 74-117 (131)
251 PRK08455 fliL flagellar basal 33.4 55 0.0012 24.7 3.2 19 4-22 20-38 (182)
252 KOG3352 Cytochrome c oxidase, 33.4 23 0.00049 26.0 1.1 6 80-86 114-119 (153)
253 KOG4323 Polycomb-like PHD Zn-f 32.5 37 0.0008 29.6 2.4 49 76-124 167-224 (464)
254 PLN02248 cellulose synthase-li 32.4 66 0.0014 31.2 4.1 34 93-127 145-178 (1135)
255 KOG4185 Predicted E3 ubiquitin 32.3 7 0.00015 31.5 -1.9 49 77-125 207-266 (296)
256 KOG1701 Focal adhesion adaptor 31.7 33 0.00072 29.5 1.9 48 79-135 396-448 (468)
257 COG4647 AcxC Acetone carboxyla 31.3 26 0.00057 25.1 1.1 22 80-105 60-81 (165)
258 PF13913 zf-C2HC_2: zinc-finge 31.1 9.8 0.00021 18.9 -0.8 14 117-130 4-17 (25)
259 PF15048 OSTbeta: Organic solu 31.0 73 0.0016 22.6 3.2 23 5-27 36-58 (125)
260 PF13453 zf-TFIIB: Transcripti 30.8 21 0.00046 19.8 0.5 12 117-128 1-12 (41)
261 COG2835 Uncharacterized conser 30.5 20 0.00044 22.0 0.4 11 117-127 10-20 (60)
262 PRK04023 DNA polymerase II lar 30.5 22 0.00049 33.9 0.8 22 76-101 625-646 (1121)
263 smart00734 ZnF_Rad18 Rad18-lik 30.5 22 0.00047 17.9 0.4 10 117-126 3-12 (26)
264 TIGR01562 FdhE formate dehydro 30.4 12 0.00026 30.7 -0.8 45 78-123 185-232 (305)
265 COG0675 Transposase and inacti 30.2 38 0.00082 27.1 2.0 32 75-109 307-338 (364)
266 PF11084 DUF2621: Protein of u 30.1 71 0.0015 22.9 3.1 20 10-29 15-34 (141)
267 COG0777 AccD Acetyl-CoA carbox 30.1 44 0.00095 27.1 2.3 31 92-125 27-57 (294)
268 COG4736 CcoQ Cbb3-type cytochr 29.9 73 0.0016 19.6 2.8 20 12-31 14-33 (60)
269 PF15048 OSTbeta: Organic solu 29.2 1.1E+02 0.0025 21.6 4.0 32 2-33 36-67 (125)
270 PF11027 DUF2615: Protein of u 29.2 1.7E+02 0.0037 20.0 4.8 16 7-22 56-71 (103)
271 COG1545 Predicted nucleic-acid 28.9 36 0.00079 24.5 1.5 23 95-125 31-53 (140)
272 PF10146 zf-C4H2: Zinc finger- 28.8 38 0.00083 26.6 1.8 22 103-124 196-217 (230)
273 COG3190 FliO Flagellar biogene 28.5 2E+02 0.0044 20.7 5.2 26 7-32 24-49 (137)
274 PF13260 DUF4051: Protein of u 28.3 1.3E+02 0.0028 17.7 3.4 16 14-29 12-27 (54)
275 PRK11486 flagellar biosynthesi 28.1 1.2E+02 0.0025 21.6 3.9 16 10-25 21-36 (124)
276 PF06643 DUF1158: Protein of u 28.1 96 0.0021 19.9 3.1 27 7-33 51-79 (82)
277 PF15345 TMEM51: Transmembrane 28.0 1.2E+02 0.0025 24.0 4.2 14 12-25 68-81 (233)
278 PHA03030 hypothetical protein; 27.8 79 0.0017 21.7 2.9 8 28-35 20-27 (122)
279 PRK03564 formate dehydrogenase 27.7 22 0.00048 29.2 0.3 46 77-123 187-234 (309)
280 PRK01343 zinc-binding protein; 27.2 36 0.00079 20.7 1.1 10 117-126 11-20 (57)
281 KOG1140 N-end rule pathway, re 27.1 28 0.00062 35.0 0.9 16 98-113 1150-1165(1738)
282 PF02723 NS3_envE: Non-structu 26.9 89 0.0019 20.5 2.9 17 6-22 19-35 (82)
283 PF00130 C1_1: Phorbol esters/ 26.7 70 0.0015 18.3 2.3 34 76-110 10-45 (53)
284 smart00834 CxxC_CXXC_SSSS Puta 26.7 23 0.0005 19.2 0.1 26 98-124 10-35 (41)
285 PF04971 Lysis_S: Lysis protei 26.4 98 0.0021 19.5 2.9 15 7-21 36-50 (68)
286 TIGR02605 CxxC_CxxC_SSSS putat 26.4 31 0.00066 20.0 0.6 25 98-123 10-34 (52)
287 PF15050 SCIMP: SCIMP protein 26.1 1.3E+02 0.0028 21.3 3.8 33 6-38 8-40 (133)
288 COG3357 Predicted transcriptio 25.8 29 0.00063 23.3 0.5 27 98-128 63-89 (97)
289 smart00109 C1 Protein kinase C 25.7 59 0.0013 17.9 1.8 33 78-110 12-44 (49)
290 TIGR02098 MJ0042_CXXC MJ0042 f 25.6 61 0.0013 17.3 1.8 10 79-88 4-13 (38)
291 PF06679 DUF1180: Protein of u 25.3 1.1E+02 0.0024 22.8 3.5 21 8-28 101-121 (163)
292 PF14353 CpXC: CpXC protein 24.9 57 0.0012 22.7 1.9 11 116-126 39-49 (128)
293 PF03554 Herpes_UL73: UL73 vir 24.7 1.6E+02 0.0034 19.3 3.8 18 14-31 58-75 (82)
294 PF12127 YdfA_immunity: SigmaW 24.7 1.1E+02 0.0024 24.9 3.7 7 27-33 24-30 (316)
295 PRK13415 flagella biosynthesis 24.7 1.3E+02 0.0029 23.5 4.0 15 10-24 71-85 (219)
296 PF03833 PolC_DP2: DNA polymer 24.4 25 0.00054 32.9 0.0 49 92-141 654-706 (900)
297 PF01485 IBR: IBR domain; Int 24.3 9.6 0.00021 22.8 -1.9 33 79-111 20-58 (64)
298 PF09986 DUF2225: Uncharacteri 24.0 48 0.001 25.6 1.5 21 115-135 5-25 (214)
299 cd00350 rubredoxin_like Rubred 23.7 50 0.0011 17.4 1.1 20 98-123 6-25 (33)
300 PRK04778 septation ring format 23.5 1.1E+02 0.0023 27.3 3.8 16 9-24 5-20 (569)
301 PTZ00303 phosphatidylinositol 23.5 66 0.0014 30.2 2.4 35 78-112 461-500 (1374)
302 smart00659 RPOLCX RNA polymera 23.5 62 0.0013 18.4 1.5 28 98-130 7-34 (44)
303 PRK00418 DNA gyrase inhibitor; 23.4 34 0.00075 21.2 0.5 12 115-126 6-17 (62)
304 TIGR02736 cbb3_Q_epsi cytochro 23.4 1.8E+02 0.0039 17.6 3.5 9 15-23 10-18 (56)
305 PF03966 Trm112p: Trm112p-like 23.1 50 0.0011 20.4 1.2 6 80-85 10-15 (68)
306 PF06809 NPDC1: Neural prolife 23.1 44 0.00096 27.6 1.2 25 4-28 198-222 (341)
307 COG1622 CyoA Heme/copper-type 22.8 98 0.0021 24.6 3.1 10 107-116 215-224 (247)
308 PF11980 DUF3481: Domain of un 22.7 1.4E+02 0.0031 19.7 3.3 10 4-13 16-25 (87)
309 KOG1512 PHD Zn-finger protein 22.3 39 0.00086 27.6 0.7 30 79-109 316-345 (381)
310 PF14319 Zn_Tnp_IS91: Transpos 22.2 62 0.0014 22.3 1.6 32 77-114 42-77 (111)
311 KOG4451 Uncharacterized conser 22.1 57 0.0012 25.8 1.5 23 103-125 251-273 (286)
312 PRK14584 hmsS hemin storage sy 22.1 1E+02 0.0023 22.7 2.8 23 9-31 66-88 (153)
313 PF10083 DUF2321: Uncharacteri 22.0 37 0.00081 25.1 0.5 45 81-128 8-52 (158)
314 PF02480 Herpes_gE: Alphaherpe 21.9 30 0.00065 29.9 0.0 27 8-34 360-386 (439)
315 PHA03105 EEV glycoprotein; Pro 21.8 98 0.0021 23.0 2.6 18 4-21 5-22 (188)
316 PHA02849 putative transmembran 21.7 1.6E+02 0.0036 19.1 3.3 7 63-69 65-71 (82)
317 PF03408 Foamy_virus_ENV: Foam 21.5 1.8E+02 0.0039 27.4 4.7 29 4-32 64-92 (981)
318 cd00729 rubredoxin_SM Rubredox 21.1 57 0.0012 17.4 1.0 8 116-123 19-26 (34)
319 PF09435 DUF2015: Fungal prote 21.1 1.8E+02 0.0039 20.8 3.8 11 20-30 18-28 (128)
320 PF07227 DUF1423: Protein of u 20.9 71 0.0015 27.7 2.0 31 79-110 130-163 (446)
321 PLN02195 cellulose synthase A 20.9 1.2E+02 0.0026 29.1 3.6 51 76-126 5-59 (977)
322 PLN02915 cellulose synthase A 20.7 94 0.002 30.0 2.9 49 78-126 16-68 (1044)
323 PRK13665 hypothetical protein; 20.7 1.2E+02 0.0026 24.7 3.1 8 26-33 28-35 (316)
324 KOG3457 Sec61 protein transloc 20.5 1.6E+02 0.0034 19.5 3.1 18 9-26 66-83 (88)
325 PRK05585 yajC preprotein trans 20.4 1.5E+02 0.0032 20.3 3.2 6 103-108 89-94 (106)
326 cd04718 BAH_plant_2 BAH, or Br 20.4 21 0.00045 26.2 -1.1 25 103-127 2-30 (148)
327 PF11119 DUF2633: Protein of u 20.2 2.2E+02 0.0049 17.4 4.3 8 10-17 14-21 (59)
328 PRK09702 PTS system arbutin-sp 20.2 1.8E+02 0.0038 21.6 3.8 22 6-27 9-30 (161)
329 KOG3653 Transforming growth fa 20.1 3.7E+02 0.0081 23.8 6.1 14 103-116 289-303 (534)
330 PRK09710 lar restriction allev 20.1 25 0.00054 21.9 -0.6 15 151-165 45-59 (64)
331 KOG4577 Transcription factor L 20.0 21 0.00046 29.1 -1.2 31 79-111 94-124 (383)
332 PF09802 Sec66: Preprotein tra 20.0 1.6E+02 0.0036 22.4 3.6 26 7-32 7-32 (190)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=1.9e-21 Score=157.75 Aligned_cols=78 Identities=40% Similarity=0.891 Sum_probs=66.0
Q ss_pred CCCCCHHHHhhCCCeecccCCCCCc-cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCC-CCccccccccccccc
Q 043163 53 NKGLKKKILRTLPKQTFTSESVAKF-SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSH-SSCPSCRQILVVARC 130 (172)
Q Consensus 53 ~~~~~~~~i~~l~~~~~~~~~~~~~-~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~~~ 130 (172)
.+.+.++.++++|...|........ ..|+||||+|+++|++++|| |+|.||..||++||... ..||+||+++....-
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 5567789999999999987654333 48999999999999999999 99999999999999876 459999998875443
Q ss_pred c
Q 043163 131 Q 131 (172)
Q Consensus 131 ~ 131 (172)
.
T Consensus 283 ~ 283 (348)
T KOG4628|consen 283 S 283 (348)
T ss_pred C
Confidence 3
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=99.70 E-value=4.4e-18 Score=99.88 Aligned_cols=44 Identities=52% Similarity=1.294 Sum_probs=40.4
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCR 122 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 122 (172)
++|+||+++|..++.+..++ |+|.||.+||..|++.+.+||+||
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 36999999999999999999 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.51 E-value=1.3e-14 Score=113.25 Aligned_cols=73 Identities=32% Similarity=0.695 Sum_probs=55.2
Q ss_pred CCCCHHHHhhCCCeecccCC---CCCccccccccccccCCC----eeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 54 KGLKKKILRTLPKQTFTSES---VAKFSDCAICLTEFVNGD----EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 54 ~~~~~~~i~~l~~~~~~~~~---~~~~~~C~ICL~~~~~~~----~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
++..+..++.+|......+. ...+.+|+||++.+.++. .+.+++.|+|.||.+||.+|++.+.+||+||..+.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 34467777788877544332 345678999999986543 13345459999999999999999999999999876
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=99.49 E-value=2.1e-14 Score=93.05 Aligned_cols=45 Identities=42% Similarity=0.941 Sum_probs=35.5
Q ss_pred ccccccccccccC----------CCeeeecCCCCCcccHhhHHHHHcCCCCccccc
Q 043163 77 FSDCAICLTEFVN----------GDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCR 122 (172)
Q Consensus 77 ~~~C~ICL~~~~~----------~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 122 (172)
++.|+||+++|.+ +-.+...+ |||.||..||.+||+.+.+||+||
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 4459999999943 12344445 999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=3.5e-14 Score=112.40 Aligned_cols=49 Identities=47% Similarity=1.194 Sum_probs=45.4
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCcccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVV 127 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~ 127 (172)
-+|+|||+.|-++|++++|| |.|.||..|++.|+.. +..||+||..++.
T Consensus 324 veCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred ceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 57999999999999999999 9999999999999984 6789999998874
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=9.6e-13 Score=106.87 Aligned_cols=53 Identities=34% Similarity=0.888 Sum_probs=44.8
Q ss_pred CCCcccccccccc-ccCC---------CeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 74 VAKFSDCAICLTE-FVNG---------DEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~-~~~~---------~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
...+..|.||+|+ +..+ .+...|| |||+||-+|+..|+.++++||+||.++..
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 3556789999999 4443 4568888 99999999999999999999999999664
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.34 E-value=2.5e-12 Score=96.89 Aligned_cols=62 Identities=29% Similarity=0.512 Sum_probs=49.2
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC----------------CCCcccccccccccccccCCCCC
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS----------------HSSCPSCRQILVVARCQKCGGFP 137 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~l~~~~~~~~~~~~ 137 (172)
..++.+|+||++.+++ ..+++ |||.||+.||..|+.. +..||+||..+....+.+-+|..
T Consensus 15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg 90 (193)
T PLN03208 15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRG 90 (193)
T ss_pred CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccC
Confidence 3456789999999855 45566 9999999999999842 34799999999988887777665
Q ss_pred CC
Q 043163 138 AS 139 (172)
Q Consensus 138 ~~ 139 (172)
..
T Consensus 91 ~~ 92 (193)
T PLN03208 91 QK 92 (193)
T ss_pred CC
Confidence 43
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.4e-12 Score=100.00 Aligned_cols=67 Identities=28% Similarity=0.593 Sum_probs=54.4
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC---CCCcccccccccccccccCCCCCCCCCCCC
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS---HSSCPSCRQILVVARCQKCGGFPASSSSSS 144 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~~~~~~~~~~~~~~ 144 (172)
.....+|.||||.-++ .| ++. |||+||+-||.+|+.. ...||+||..+..+++..-+|.+.-.++..
T Consensus 44 ~~~~FdCNICLd~akd--PV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~ 113 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD--PV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDP 113 (230)
T ss_pred CCCceeeeeeccccCC--CE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCc
Confidence 4566789999998755 44 555 9999999999999976 346899999999999999999888544443
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=1.5e-12 Score=102.65 Aligned_cols=52 Identities=31% Similarity=0.758 Sum_probs=44.4
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARC 130 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~ 130 (172)
.....|.+||+...+ .-.+| |||+||+.||.+|...+..||+||..+...++
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 444679999998655 66788 99999999999999999999999998876543
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.29 E-value=2e-12 Score=85.02 Aligned_cols=53 Identities=40% Similarity=0.804 Sum_probs=41.7
Q ss_pred CCccccccccccccC--------C-CeeeecCCCCCcccHhhHHHHHcC---CCCcccccccccc
Q 043163 75 AKFSDCAICLTEFVN--------G-DEIRVLPQCGHGFHVACIDTWLGS---HSSCPSCRQILVV 127 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~--------~-~~~~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~ 127 (172)
..++.|.||...|+. + +...++..|+|.||.+||..|+.. +..||+||+.+..
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 446789999999874 2 334455569999999999999975 4679999998764
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=99.28 E-value=2.6e-12 Score=77.22 Aligned_cols=46 Identities=35% Similarity=0.821 Sum_probs=39.3
Q ss_pred ccccccccccccCCCeeeecCCCCCc-ccHhhHHHHHcCCCCccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHG-FHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
+..|.||++...+ +..+| |||. |+..|+..|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4579999998655 77888 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=99.24 E-value=5.4e-12 Score=71.91 Aligned_cols=39 Identities=44% Similarity=1.135 Sum_probs=33.4
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 121 (172)
|+||++.+.+ .+..++ |||.|+.+|+..|++.+..||+|
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 8999999866 557787 99999999999999999999998
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=99.24 E-value=6.1e-12 Score=72.92 Aligned_cols=44 Identities=50% Similarity=1.224 Sum_probs=37.3
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCcccccccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQIL 125 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l 125 (172)
+|+||++.+ .+.+...+ |+|.||..|+..|+.. +..||+||..+
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 34566666 9999999999999987 77899999764
No 14
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.15 E-value=1.7e-11 Score=78.81 Aligned_cols=51 Identities=39% Similarity=0.768 Sum_probs=40.2
Q ss_pred cccccccccccC-----------C-CeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 78 SDCAICLTEFVN-----------G-DEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 78 ~~C~ICL~~~~~-----------~-~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
+.|+||...|.. + +.......|+|.||.+||.+||..+..||++|+.+..+
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 567777776643 2 33444445999999999999999999999999998864
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.13 E-value=4.1e-11 Score=70.07 Aligned_cols=44 Identities=32% Similarity=0.857 Sum_probs=38.6
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
.|+||++.|.+....++++ |||+|+..|+..+......||+||+
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 4999999996666788887 9999999999999866778999984
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.13 E-value=2.7e-11 Score=92.56 Aligned_cols=54 Identities=30% Similarity=0.728 Sum_probs=40.9
Q ss_pred CCCccccccccccccC-----CCeeeecCCCCCcccHhhHHHHHcCC------CCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVN-----GDEIRVLPQCGHGFHVACIDTWLGSH------SSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~-----~~~~~~l~~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~l~~ 127 (172)
...+.+|+||||..-+ +....+|+.|+|.||..||..|...+ ..||+||..+..
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3556789999997632 22345666799999999999999753 359999997663
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=2.4e-11 Score=89.75 Aligned_cols=52 Identities=31% Similarity=0.717 Sum_probs=42.9
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
.....|+|||+.+.+ ++.+-..|||+||..||..-++....||+||+.|...
T Consensus 129 ~~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhh--ccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 334569999999966 5545334999999999999999999999999987754
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=1.2e-10 Score=67.38 Aligned_cols=38 Identities=42% Similarity=1.007 Sum_probs=29.1
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCC----CCcccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSH----SSCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~----~~CP~C 121 (172)
|+||++.|++ ...++ |||.|+..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 66787 99999999999999763 369987
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.06 E-value=1.4e-10 Score=66.67 Aligned_cols=39 Identities=44% Similarity=1.185 Sum_probs=33.7
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHc--CCCCcccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG--SHSSCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~C 121 (172)
|+||++.+.. ...+++ |||.|+..|+..|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999999866 456777 999999999999998 56679998
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=8.7e-11 Score=102.44 Aligned_cols=53 Identities=38% Similarity=0.911 Sum_probs=45.4
Q ss_pred CCccccccccccccCCCe--eeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDE--IRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~--~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
..+..|+||+|++..++. ...++ |+|+||..|+..|++.+.+||+||..+...
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 346789999999987654 78888 999999999999999999999999955543
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.97 E-value=4.3e-10 Score=62.84 Aligned_cols=38 Identities=50% Similarity=1.256 Sum_probs=32.3
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHc-CCCCcccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~C 121 (172)
|+||++.. .....++ |+|.||..|+..|+. .+..||+|
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 78999983 3477787 999999999999998 56679987
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=98.97 E-value=5.1e-10 Score=70.07 Aligned_cols=50 Identities=28% Similarity=0.431 Sum_probs=41.9
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQ 131 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 131 (172)
..|+||++.+++ ..+++ |||+|+..||..|++.+..||+|+..+....+.
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce
Confidence 469999999876 35667 999999999999999888999999988654443
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=1.4e-10 Score=73.93 Aligned_cols=52 Identities=37% Similarity=0.728 Sum_probs=40.1
Q ss_pred CccccccccccccC---------CCeeeecCCCCCcccHhhHHHHHcC---CCCcccccccccc
Q 043163 76 KFSDCAICLTEFVN---------GDEIRVLPQCGHGFHVACIDTWLGS---HSSCPSCRQILVV 127 (172)
Q Consensus 76 ~~~~C~ICL~~~~~---------~~~~~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~ 127 (172)
.++.|-||.-+|.. ++...++..|.|.||..||.+|+.. +..||+||+.+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 34479999888864 3445555569999999999999965 4569999998764
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=4.1e-10 Score=75.88 Aligned_cols=55 Identities=29% Similarity=0.677 Sum_probs=43.9
Q ss_pred CCccccccccccccC-------------CCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccc
Q 043163 75 AKFSDCAICLTEFVN-------------GDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVAR 129 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~-------------~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 129 (172)
...+.|+||...+.+ ++.......|+|.||..||.+||+.+..||+|.+....++
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR 111 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence 445679999876543 3455555679999999999999999999999999888654
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=98.86 E-value=1.6e-09 Score=90.50 Aligned_cols=50 Identities=28% Similarity=0.527 Sum_probs=42.2
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
+.....|+||++.|.. ..+++ |||.||..||..|+..+..||+||..+..
T Consensus 23 Le~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 4555689999999965 34677 99999999999999988899999997764
No 26
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=1.3e-09 Score=85.47 Aligned_cols=57 Identities=28% Similarity=0.555 Sum_probs=45.8
Q ss_pred CCccccccccccccCCC-------eeeecCCCCCcccHhhHHHHHc--CCCCccccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGD-------EIRVLPQCGHGFHVACIDTWLG--SHSSCPSCRQILVVARCQK 132 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~-------~~~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~~~~~~ 132 (172)
-++..|+||-..+.... ....|. |+|+||..||.-|.. ++++||.|+..+..+++-+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfs 287 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFS 287 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhhcc
Confidence 44567999998886544 677887 999999999999964 5788999999888766543
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=2.6e-09 Score=83.58 Aligned_cols=51 Identities=29% Similarity=0.654 Sum_probs=41.4
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHH-HHcCCCC-cccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDT-WLGSHSS-CPSCRQILVVAR 129 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~-Wl~~~~~-CP~CR~~l~~~~ 129 (172)
..+..|+||++.... ...++ |||+||..||.. |-..+.. ||+||+.....+
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 346679999998654 66676 999999999999 9877766 999999877554
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=2.4e-08 Score=84.15 Aligned_cols=49 Identities=37% Similarity=0.835 Sum_probs=38.3
Q ss_pred ccccccccccccC---C-----------CeeeecCCCCCcccHhhHHHHHcC-CCCccccccccc
Q 043163 77 FSDCAICLTEFVN---G-----------DEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILV 126 (172)
Q Consensus 77 ~~~C~ICL~~~~~---~-----------~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~ 126 (172)
...|+||+.+++- + ..-..+| |.|+||..|+..|+.. +-.||+||++|+
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3469999998753 1 1123456 9999999999999984 569999999986
No 29
>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=98.67 E-value=1.4e-08 Score=60.58 Aligned_cols=42 Identities=26% Similarity=0.747 Sum_probs=32.5
Q ss_pred ccccccccccCCCeeeecCCCC-----CcccHhhHHHHHcC--CCCccccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCG-----HGFHVACIDTWLGS--HSSCPSCR 122 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR 122 (172)
.|-||++ ...++...+.| |. |.+|.+|+..|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3899999 33444555788 85 99999999999955 45899995
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.64 E-value=2.4e-08 Score=57.83 Aligned_cols=38 Identities=37% Similarity=0.844 Sum_probs=22.5
Q ss_pred cccccccccC-CCeeeecCCCCCcccHhhHHHHHcC----CCCcc
Q 043163 80 CAICLTEFVN-GDEIRVLPQCGHGFHVACIDTWLGS----HSSCP 119 (172)
Q Consensus 80 C~ICL~~~~~-~~~~~~l~~C~H~FH~~Ci~~Wl~~----~~~CP 119 (172)
|+||++ |.. .....+|+ |||.|+.+|++.|+.. ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 755 44667898 9999999999999874 33576
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.59 E-value=2.1e-08 Score=83.51 Aligned_cols=50 Identities=32% Similarity=0.844 Sum_probs=40.0
Q ss_pred CCCccccccccccccCCC-eeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
..+..+||||||.+...- .++... |.|.||..|++.| ...+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 455678999999997654 334444 9999999999999 4678999998766
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.55 E-value=1.4e-08 Score=65.10 Aligned_cols=51 Identities=29% Similarity=0.729 Sum_probs=24.6
Q ss_pred ccccccccccccCCC-e-eeecC--CCCCcccHhhHHHHHcC----C-------CCcccccccccc
Q 043163 77 FSDCAICLTEFVNGD-E-IRVLP--QCGHGFHVACIDTWLGS----H-------SSCPSCRQILVV 127 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~-~-~~~l~--~C~H~FH~~Ci~~Wl~~----~-------~~CP~CR~~l~~ 127 (172)
+.+|.||++.+.+++ . ..+.+ .|++.||..|+.+||+. + .+||.|+.+|..
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 357999999876332 2 23332 69999999999999853 1 249999998864
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=4.1e-08 Score=83.17 Aligned_cols=58 Identities=26% Similarity=0.378 Sum_probs=42.2
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-----CCCcccccccccccccccCCCCCC
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-----HSSCPSCRQILVVARCQKCGGFPA 138 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~l~~~~~~~~~~~~~ 138 (172)
+..|||||++..- ...+. |||+||..||-.++.. ...||+||..+...++.......+
T Consensus 186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~ 248 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD 248 (513)
T ss_pred CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc
Confidence 5679999998633 33343 9999999999888754 356999999888755555444433
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.52 E-value=3e-08 Score=80.19 Aligned_cols=53 Identities=26% Similarity=0.661 Sum_probs=44.4
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQ 131 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 131 (172)
..-..|.||.|.|.. ..++| |+|-||.-||..+|..+.+||+|+..+.+.++.
T Consensus 21 D~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 334569999999965 55677 999999999999999999999999987765544
No 35
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.45 E-value=2e-07 Score=60.22 Aligned_cols=51 Identities=25% Similarity=0.376 Sum_probs=38.9
Q ss_pred CccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCccccccccccccc
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVVARC 130 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~ 130 (172)
....|+|+.+-+.+ ..+++ +||.|.+.+|..|+.. +..||+|+.++....+
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 45679999999976 55677 9999999999999998 8899999998886544
No 36
>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=98.43 E-value=1.7e-07 Score=75.77 Aligned_cols=51 Identities=27% Similarity=0.554 Sum_probs=38.5
Q ss_pred ccccccccc--ccCCCeeeecCCCCCcccHhhHHHHH-cCCCCcccccccccccc
Q 043163 78 SDCAICLTE--FVNGDEIRVLPQCGHGFHVACIDTWL-GSHSSCPSCRQILVVAR 129 (172)
Q Consensus 78 ~~C~ICL~~--~~~~~~~~~l~~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~l~~~~ 129 (172)
..||+|+.. +.+...+.+.+ |||.||..|++..+ .....||.|+..+....
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 469999994 33433445555 99999999999966 44568999999887654
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.43 E-value=5e-08 Score=87.58 Aligned_cols=53 Identities=28% Similarity=0.736 Sum_probs=40.6
Q ss_pred CCCccccccccccccC-CCe--eeecCCCCCcccHhhHHHHHcC--CCCccccccccc
Q 043163 74 VAKFSDCAICLTEFVN-GDE--IRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILV 126 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~-~~~--~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~ 126 (172)
..+.++|+||...+.. +.. -..+++|.|.||..|+..|++. +.+||+||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 5667899999987752 111 2334469999999999999976 568999998765
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.40 E-value=1.3e-07 Score=75.20 Aligned_cols=55 Identities=29% Similarity=0.587 Sum_probs=43.3
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQK 132 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 132 (172)
+.....|-||-+.|.. ...++ |||-||.-||...|.++..||+||.+.-+.++.+
T Consensus 22 LDs~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~ 76 (391)
T COG5432 22 LDSMLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRG 76 (391)
T ss_pred chhHHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHhhhccc
Confidence 3444579999999844 33444 9999999999999999999999998766554444
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.5e-07 Score=76.72 Aligned_cols=49 Identities=33% Similarity=0.654 Sum_probs=41.6
Q ss_pred CCccccccccccccCCCeeeecCCCCCc-ccHhhHHHHHcCCCCcccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHG-FHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
+...+|.|||.+-++ ..+|| |.|. .|.+|.+...-.+..||+||+++..
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 335689999999765 77899 9999 9999999977677889999998764
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=2.3e-07 Score=73.70 Aligned_cols=45 Identities=40% Similarity=0.848 Sum_probs=39.1
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCR 122 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 122 (172)
..+...|+||++.|... .+++ |+|.||..|+..++.....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 34567899999999875 7888 999999999999988666899999
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=1.4e-07 Score=56.48 Aligned_cols=46 Identities=30% Similarity=0.624 Sum_probs=34.9
Q ss_pred cccccccccccCCCeeeecCCCCCc-ccHhhHHHHHc-CCCCcccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHG-FHVACIDTWLG-SHSSCPSCRQILVV 127 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~-FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 127 (172)
++|.||+|.-.+ .+..+ |||. .+.+|-.+.++ .+..||+||+++-+
T Consensus 8 dECTICye~pvd--sVlYt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVD--SVLYT--CGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcch--HHHHH--cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 689999997533 34333 9999 99999665555 68899999998753
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.28 E-value=1.6e-07 Score=58.46 Aligned_cols=49 Identities=31% Similarity=0.680 Sum_probs=23.9
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQ 131 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 131 (172)
..|++|.+-+++ .+. +..|.|+|+..||..-+. ..||+|+.+...++++
T Consensus 8 LrCs~C~~~l~~--pv~-l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 8 LRCSICFDILKE--PVC-LGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred cCCcHHHHHhcC--Cce-eccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence 459999999865 343 445999999999988543 4599999988776553
No 43
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.5e-07 Score=75.20 Aligned_cols=45 Identities=33% Similarity=0.970 Sum_probs=35.0
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC---CCCccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS---HSSCPSCR 122 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR 122 (172)
..|.||-+-+.....+.-...|||+||..|+..|+.. +..||+||
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 4699995554444556555569999999999999976 35799999
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.13 E-value=5.5e-07 Score=79.70 Aligned_cols=59 Identities=20% Similarity=0.387 Sum_probs=47.5
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccccCCCC
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQKCGGF 136 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~ 136 (172)
...|++||..+.++...-..+ |+|.||.+||..|-+.-.+||+||..+..-.+..-.+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~ 181 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGI 181 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeeeccccc
Confidence 456999999887755555555 99999999999999999999999998887666555544
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=2.7e-07 Score=75.06 Aligned_cols=51 Identities=33% Similarity=0.611 Sum_probs=41.2
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~ 127 (172)
...+..|+|||+-++. -+.++.|.|.||.+||..-++. +..||.||+.+..
T Consensus 40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 4556679999999876 3344569999999999888765 6789999998874
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=2.1e-06 Score=71.16 Aligned_cols=50 Identities=38% Similarity=0.891 Sum_probs=38.3
Q ss_pred cccccccccccC-CCeeeecCCCCCcccHhhHHHHHcC--CCCcccccccccc
Q 043163 78 SDCAICLTEFVN-GDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILVV 127 (172)
Q Consensus 78 ~~C~ICL~~~~~-~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~ 127 (172)
..|+|||+.++. ++...+.+.|||.|-.+||+.||.. ...||.|...-..
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 479999999974 5554444559999999999999953 3469999765443
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.01 E-value=1.4e-06 Score=69.61 Aligned_cols=51 Identities=31% Similarity=0.787 Sum_probs=42.4
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-----------------------CCCccccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-----------------------HSSCPSCRQILVVA 128 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-----------------------~~~CP~CR~~l~~~ 128 (172)
.-.|.|||--|.+++...++. |-|.||..|+.++|.. +..||+||..|..+
T Consensus 115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 346999999999999999998 9999999999988630 12499999988754
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.98 E-value=5e-06 Score=68.87 Aligned_cols=48 Identities=29% Similarity=0.812 Sum_probs=38.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCcccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILVVAR 129 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~ 129 (172)
.-|-||-|. +..+.+.| |||+.|..|+..|-.. ...||.||..+-.-.
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 349999876 45688998 9999999999999744 567999999876433
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=6.7e-06 Score=67.74 Aligned_cols=51 Identities=31% Similarity=0.815 Sum_probs=38.8
Q ss_pred CCccccccccccccCCC----eeeecCCCCCcccHhhHHHHHc--C-----CCCcccccccc
Q 043163 75 AKFSDCAICLTEFVNGD----EIRVLPQCGHGFHVACIDTWLG--S-----HSSCPSCRQIL 125 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~----~~~~l~~C~H~FH~~Ci~~Wl~--~-----~~~CP~CR~~l 125 (172)
..+.+|.||++...+.. ...++|.|.|.||..||..|-. . .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 44678999999875422 2355677999999999999973 3 46799999853
No 50
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=1.8e-05 Score=60.99 Aligned_cols=50 Identities=30% Similarity=0.723 Sum_probs=42.1
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--------CCCccccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--------HSSCPSCRQILVVA 128 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~l~~~ 128 (172)
...|..|-..++.+|.++.. |-|+||++|+.+|-.+ ..+||-|...|..+
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 34699999999999999876 9999999999999632 45799999888744
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=6.1e-06 Score=73.09 Aligned_cols=49 Identities=24% Similarity=0.674 Sum_probs=38.9
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCccccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVVARC 130 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~ 130 (172)
..|++|-..+++ ..++. |+|+||..|+..-+.. +..||.|...+-..+.
T Consensus 644 LkCs~Cn~R~Kd---~vI~k-C~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 644 LKCSVCNTRWKD---AVITK-CGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred eeCCCccCchhh---HHHHh-cchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 469999988755 33444 9999999999998865 6789999988876544
No 52
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.5e-05 Score=63.79 Aligned_cols=48 Identities=25% Similarity=0.413 Sum_probs=37.6
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-CCCccccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVVA 128 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~ 128 (172)
..+|+||+.... ....++ |+|.||.-||.--..+ +.+|++||.++...
T Consensus 7 ~~eC~IC~nt~n---~Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGN---CPVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCC---cCcccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 357999998753 346676 9999999999876655 56799999988743
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.69 E-value=2.9e-05 Score=47.66 Aligned_cols=41 Identities=27% Similarity=0.618 Sum_probs=28.2
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPS 120 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~ 120 (172)
...|||.+..|++ .++-.. |+|.|-++.|..|+++ ...||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 4579999999965 676666 9999999999999944 456998
No 54
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.68 E-value=2.1e-05 Score=65.09 Aligned_cols=51 Identities=29% Similarity=0.729 Sum_probs=40.8
Q ss_pred CCccccccccccccC-CCeeeecCCCCCcccHhhHHHHHcC--CCCccccccccc
Q 043163 75 AKFSDCAICLTEFVN-GDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILV 126 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~-~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~ 126 (172)
..+..|..|-+.+.- ++.+..|| |.|+||..|+...+.+ ..+||.||+-..
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 344569999998864 45788898 9999999999999965 457999995444
No 55
>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=97.58 E-value=2.4e-05 Score=55.87 Aligned_cols=36 Identities=25% Similarity=0.573 Sum_probs=29.9
Q ss_pred ccccccccccccCCCeeeecCCCC------CcccHhhHHHHHc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCG------HGFHVACIDTWLG 113 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~------H~FH~~Ci~~Wl~ 113 (172)
..+|.||++.+.+++.++..+ |+ |+||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 457999999998866677776 76 9999999999943
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.50 E-value=4.3e-05 Score=64.40 Aligned_cols=55 Identities=31% Similarity=0.674 Sum_probs=44.1
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQ 131 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 131 (172)
...+..|++|...+.+ .+..+. |||.||..|+..|+..+..||.|+..+......
T Consensus 18 ~~~~l~C~~C~~vl~~--p~~~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRD--PVQTTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccC--CCCCCC-CCCcccccccchhhccCcCCcccccccchhhcc
Confidence 4556789999999866 333244 999999999999999999999998887765433
No 57
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.47 E-value=7.3e-05 Score=67.08 Aligned_cols=65 Identities=25% Similarity=0.569 Sum_probs=46.9
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-------CCCcccccc---cccccccccCCCCCCC
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-------HSSCPSCRQ---ILVVARCQKCGGFPAS 139 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-------~~~CP~CR~---~l~~~~~~~~~~~~~~ 139 (172)
....+|.||++.+.....+.-...|-|+||..||..|-+. ...||.|.. .+...+.=-||...++
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~~y~C~CGk~~nP 263 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPKTYLCFCGKVKNP 263 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCcccceecCcccCC
Confidence 3446799999999988878777779999999999999864 235999984 3444333334444433
No 58
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=6e-05 Score=63.34 Aligned_cols=50 Identities=34% Similarity=0.792 Sum_probs=42.4
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
...+.+|.||+..+.+ ...+| |||.|+..||++-+.....||.||..+..
T Consensus 81 ~~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 3566789999988766 66777 99999999999977777889999998884
No 59
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=1.4e-05 Score=65.48 Aligned_cols=46 Identities=30% Similarity=0.622 Sum_probs=33.6
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
....+.|.||+++.++ ...+| |||+-+ |..--. ...+||+||..+.
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 4555679999999766 66777 999966 554432 2345999999775
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.31 E-value=0.00025 Score=55.50 Aligned_cols=56 Identities=16% Similarity=0.202 Sum_probs=49.2
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccccC
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQKC 133 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~ 133 (172)
..|+||.+.+.+...+.+|..|||+|..+|++..++....||+|-.++-+.+....
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~L 277 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGL 277 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEee
Confidence 34999999999988888888899999999999999999999999998887765543
No 61
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00037 Score=57.16 Aligned_cols=60 Identities=20% Similarity=0.317 Sum_probs=48.8
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccccCCCCC
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQKCGGFP 137 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~ 137 (172)
..++..|+||... .......| |+|.=|..||.+.+.+.+.|=.|+..+.+..++++-...
T Consensus 419 ~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ld~~~~~~ 478 (489)
T KOG4692|consen 419 DSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVIDVILDKEEEEE 478 (489)
T ss_pred CcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeeehhcccccccc
Confidence 3667789999775 33456777 999999999999999999999999999887777765543
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.09 E-value=0.00031 Score=66.41 Aligned_cols=52 Identities=31% Similarity=0.609 Sum_probs=41.3
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCC----------CCccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSH----------SSCPSCRQILV 126 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~l~ 126 (172)
...++.|.||+.+--.....+.|. |+|+||-.|..+-|.++ .+||+|+.++.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 355677999998877777788887 99999999998766543 25999998764
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00019 Score=52.76 Aligned_cols=29 Identities=38% Similarity=0.789 Sum_probs=26.4
Q ss_pred CccccccccccccCCCeeeecCCCCCcccH
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHV 105 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~ 105 (172)
..-+|.||||+++.++++..|| |-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 3457999999999999999999 9999996
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.04 E-value=0.00053 Score=40.42 Aligned_cols=44 Identities=27% Similarity=0.653 Sum_probs=23.2
Q ss_pred cccccccccCCC-eeeecCCCCCcccHhhHHHHHc-CCCCccccccc
Q 043163 80 CAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQI 124 (172)
Q Consensus 80 C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~ 124 (172)
|++|.+++...+ .+.-.+ |++.++..|...-+. ....||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999995433 455555 999999999998775 47789999975
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.02 E-value=0.00048 Score=40.54 Aligned_cols=40 Identities=28% Similarity=0.821 Sum_probs=26.9
Q ss_pred cccccccccCCCeeeecCCCC-----CcccHhhHHHHHc--CCCCcccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCG-----HGFHVACIDTWLG--SHSSCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~-----H~FH~~Ci~~Wl~--~~~~CP~C 121 (172)
|-||++.-.+++ ..+.| |+ ...|.+|+..|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999876665 34455 54 3789999999997 45679887
No 66
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.00 E-value=0.00089 Score=49.12 Aligned_cols=55 Identities=22% Similarity=0.455 Sum_probs=39.0
Q ss_pred CCccccccccccccCCCeeeecC-CCCC---cccHhhHHHHHcC--CCCcccccccccccccccC
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLP-QCGH---GFHVACIDTWLGS--HSSCPSCRQILVVARCQKC 133 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~-~C~H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~~~~~ 133 (172)
..+..|=||.++... .. .| .|.. ..|.+|+++|+.. ...|++|+.+....+..|.
T Consensus 6 ~~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kp 66 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKK 66 (162)
T ss_pred CCCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCC
Confidence 445689999988532 22 34 2444 5799999999965 4569999998876655554
No 67
>PHA02862 5L protein; Provisional
Probab=96.93 E-value=0.00073 Score=48.74 Aligned_cols=47 Identities=21% Similarity=0.576 Sum_probs=34.9
Q ss_pred cccccccccccCCCeeeecCCCC-----CcccHhhHHHHHcC--CCCcccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCG-----HGFHVACIDTWLGS--HSSCPSCRQILVVAR 129 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~ 129 (172)
+.|=||+++-++ .+ -| |. ...|.+|+.+|+.. +..||+|+.+..-.+
T Consensus 3 diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 3 DICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 469999998533 23 34 43 67999999999965 457999999876543
No 68
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.90 E-value=0.00036 Score=52.95 Aligned_cols=43 Identities=26% Similarity=0.560 Sum_probs=36.4
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQI 124 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 124 (172)
..|.||-.+|+. .+++. |||.||..|...-++....|-+|-..
T Consensus 197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence 369999999976 44555 99999999999988999999999653
No 69
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.80 E-value=0.0005 Score=47.06 Aligned_cols=33 Identities=33% Similarity=0.802 Sum_probs=26.9
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHH
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACID 109 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~ 109 (172)
.....|++|-..+.. ....+.| |||+||..|+.
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 445679999999966 4666777 99999999975
No 70
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.72 E-value=0.0013 Score=52.95 Aligned_cols=46 Identities=37% Similarity=0.758 Sum_probs=34.8
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHc-CCCCcccc-ccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSC-RQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~C-R~~l~ 126 (172)
..|+.|-.-+.. .+ .++.|+|.||.+||..-|. ....||.| |+.++
T Consensus 275 LkCplc~~Llrn--p~-kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl 322 (427)
T COG5222 275 LKCPLCHCLLRN--PM-KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL 322 (427)
T ss_pred ccCcchhhhhhC--cc-cCccccchHHHHHHhhhhhhccccCCCcccccch
Confidence 679999887765 23 3466999999999997664 57789999 44443
No 71
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0016 Score=51.69 Aligned_cols=50 Identities=22% Similarity=0.366 Sum_probs=38.0
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILV 126 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~ 126 (172)
...+.+|++|-+.-.. .....+ |+|+||.-||..=+.. ...||.|-.+..
T Consensus 236 ~t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4566789999987543 445555 9999999999986653 468999977665
No 72
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.00077 Score=56.27 Aligned_cols=38 Identities=29% Similarity=0.767 Sum_probs=32.9
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG 113 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~ 113 (172)
.....|.||+++..-......+| |+|+||..|+..++.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT 219 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence 33456999999987778999999 999999999999974
No 73
>PHA03096 p28-like protein; Provisional
Probab=96.60 E-value=0.00096 Score=53.88 Aligned_cols=48 Identities=21% Similarity=0.538 Sum_probs=35.1
Q ss_pred cccccccccccCC----CeeeecCCCCCcccHhhHHHHHcCC---C---Ccccccccc
Q 043163 78 SDCAICLTEFVNG----DEIRVLPQCGHGFHVACIDTWLGSH---S---SCPSCRQIL 125 (172)
Q Consensus 78 ~~C~ICL~~~~~~----~~~~~l~~C~H~FH~~Ci~~Wl~~~---~---~CP~CR~~l 125 (172)
.+|.|||+..... ..-.+|+.|.|.|+..|+..|...+ . .||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 5699999977643 3456777899999999999998542 2 355555544
No 74
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.59 E-value=0.00038 Score=56.52 Aligned_cols=50 Identities=24% Similarity=0.625 Sum_probs=40.3
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
.....|.+|-..|-+...+ . .|-|-||.+||...+.....||+|...+..
T Consensus 13 n~~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred ccceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 3445799999888664333 2 499999999999999999999999887664
No 75
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.52 E-value=0.00081 Score=57.91 Aligned_cols=50 Identities=22% Similarity=0.549 Sum_probs=39.1
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHc-----CCCCccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG-----SHSSCPSCRQILVVA 128 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~~l~~~ 128 (172)
.++.+|-+|-++-++ .+... |.|.||.-||.+++. .+.+||+|...|..+
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 445679999998654 55665 999999999998874 356899998877653
No 76
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.48 E-value=0.0018 Score=37.38 Aligned_cols=41 Identities=24% Similarity=0.697 Sum_probs=23.9
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCC--Ccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHS--SCPSC 121 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~C 121 (172)
|.+|-+-...+....... |+=.+|..|+..+++.+. .||.|
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 667777776665554433 888999999999998765 79987
No 77
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.47 E-value=0.0051 Score=50.10 Aligned_cols=55 Identities=20% Similarity=0.353 Sum_probs=41.0
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQK 132 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~ 132 (172)
.....|++|+....++ .+... -|-+||..|+-.++.+...||+=..++..+...+
T Consensus 298 ~~~~~CpvClk~r~Np-tvl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~r 352 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNP-TVLEV--SGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIR 352 (357)
T ss_pred CccccChhHHhccCCC-ceEEe--cceEEeHHHHHHHHHhcCCCCccCCcchHHHHHH
Confidence 3345799999987653 22222 6999999999999999999999776666554443
No 78
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.00057 Score=54.72 Aligned_cols=43 Identities=35% Similarity=0.663 Sum_probs=33.1
Q ss_pred ccccccccccccCCCeeeecCCCCCc-ccHhhHHHHHcCCCCcccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHG-FHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
..-|+||++.-.+ ...|+ |||. -|.+|-... ..||+||+.+..
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHHH
Confidence 4569999998544 67887 9998 688885542 389999997764
No 79
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0002 Score=59.27 Aligned_cols=53 Identities=28% Similarity=0.646 Sum_probs=45.2
Q ss_pred ccccccccccccCC-CeeeecCCCCCcccHhhHHHHHcCCCCccccccccccccc
Q 043163 77 FSDCAICLTEFVNG-DEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARC 130 (172)
Q Consensus 77 ~~~C~ICL~~~~~~-~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~ 130 (172)
...|+||.+.++.. +.+-.+- |||.+|.+|+..||.....||.||+.|.....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGF 249 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhH
Confidence 44699999999876 6677776 99999999999999999999999998875443
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.11 E-value=0.007 Score=48.33 Aligned_cols=57 Identities=18% Similarity=0.309 Sum_probs=43.1
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQ 131 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~ 131 (172)
......|||...+|........+..|||+|-..+|... .....||+|-.++...++.
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 34556799999999665555555559999999999996 3356799999887755444
No 81
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.002 Score=51.65 Aligned_cols=45 Identities=29% Similarity=0.451 Sum_probs=37.4
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
..|-||...|.. .+++. |+|.||..|...-++....|++|-+...
T Consensus 242 f~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cccccccccccc---chhhc-CCceeehhhhccccccCCcceecccccc
Confidence 349999999976 44555 9999999999888888899999977554
No 82
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.003 Score=47.25 Aligned_cols=30 Identities=37% Similarity=1.056 Sum_probs=24.6
Q ss_pred CCCCcccHhhHHHHHcC----C-------CCcccccccccc
Q 043163 98 QCGHGFHVACIDTWLGS----H-------SSCPSCRQILVV 127 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~----~-------~~CP~CR~~l~~ 127 (172)
.||.-||.-|+..||+. + ..||+|-.++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 39999999999999964 1 259999888764
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.05 E-value=0.0095 Score=49.00 Aligned_cols=51 Identities=27% Similarity=0.512 Sum_probs=38.8
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHH--HcCCCCccccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTW--LGSHSSCPSCRQILVVA 128 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~W--l~~~~~CP~CR~~l~~~ 128 (172)
.++...|.||-+.+.- .-++| |+|..|.-|--+. |-.+..||+||.....-
T Consensus 58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence 3445569999987654 56788 9999999997654 55688899999866543
No 84
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.03 E-value=0.0024 Score=49.91 Aligned_cols=46 Identities=24% Similarity=0.587 Sum_probs=33.4
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVAR 129 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~ 129 (172)
|.-|.-.-. ++...++. |+|+||..|...= ....||+||..+-...
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 676766443 77888887 9999999996652 1238999999865433
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.99 E-value=0.0046 Score=50.69 Aligned_cols=55 Identities=20% Similarity=0.449 Sum_probs=39.3
Q ss_pred CCccccccccccccCCCee-eecCCCCCcccHhhHHHHHcC-CCCccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEI-RVLPQCGHGFHVACIDTWLGS-HSSCPSCRQILVVARC 130 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~-~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~ 130 (172)
.+++-|+.|+|++...|+- .-++ ||-..|.-|...--++ +..||-||+...++-+
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 3444599999999877754 4455 9988888886653322 5679999998776543
No 86
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.91 E-value=0.0082 Score=36.21 Aligned_cols=33 Identities=36% Similarity=0.965 Sum_probs=29.6
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHH
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDT 110 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~ 110 (172)
..|++|-+.|++++.+.+.|.|+=.+|++|.+.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 469999999998888999999999999999654
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.0056 Score=49.55 Aligned_cols=46 Identities=37% Similarity=0.855 Sum_probs=38.5
Q ss_pred cccccccccccCCC---eeeecCCCCCcccHhhHHHHHcC-CCCccccccc
Q 043163 78 SDCAICLTEFVNGD---EIRVLPQCGHGFHVACIDTWLGS-HSSCPSCRQI 124 (172)
Q Consensus 78 ~~C~ICL~~~~~~~---~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~ 124 (172)
.+|-||-++|...+ ..+.|. |||.|+..|+...+.+ ...||.||..
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCc
Confidence 57999999998753 467776 9999999999998766 4569999998
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.47 E-value=0.0069 Score=54.87 Aligned_cols=43 Identities=26% Similarity=0.724 Sum_probs=32.1
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
-+...|..|--.++- ...--. |||.||.+|+. .+...||.|+.
T Consensus 838 ~q~skCs~C~~~Ldl--P~VhF~-CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDL--PFVHFL-CGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeeeecccCCcccc--ceeeee-cccHHHHHhhc---cCcccCCccch
Confidence 344679999887754 233333 99999999998 45678999987
No 89
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.44 E-value=0.0078 Score=48.28 Aligned_cols=44 Identities=30% Similarity=0.733 Sum_probs=37.4
Q ss_pred ccccccccccCCC-eeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 79 DCAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 79 ~C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
.||||.+.+-... .+..++ |||..|..|+......+..||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 4999999776544 566777 9999999999999888899999987
No 90
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.32 E-value=0.0076 Score=36.40 Aligned_cols=43 Identities=30% Similarity=0.612 Sum_probs=31.1
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
.|..|... +.+-.++| |+|+.+..|...+ +-.-||+|-.++..
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence 45555543 33456787 9999999998775 44569999888764
No 91
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.32 E-value=0.0088 Score=53.67 Aligned_cols=39 Identities=33% Similarity=0.724 Sum_probs=28.1
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPS 120 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~ 120 (172)
|+||--.+.- ....-. .|+|+.|.+|.++|++....||.
T Consensus 1031 C~~C~l~V~g-ss~~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVRG-SSNFCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEeec-cchhhc-cccccccHHHHHHHHhcCCcCCC
Confidence 6666554422 222233 49999999999999999999985
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=94.88 E-value=0.037 Score=46.12 Aligned_cols=28 Identities=29% Similarity=0.960 Sum_probs=20.8
Q ss_pred CCCcccHhhHHHHHcC-------------CCCccccccccc
Q 043163 99 CGHGFHVACIDTWLGS-------------HSSCPSCRQILV 126 (172)
Q Consensus 99 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~l~ 126 (172)
|.=++|.+|+.+|+-. +-.||+||+.+=
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 4456788999999843 235999999764
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.84 E-value=0.01 Score=53.34 Aligned_cols=50 Identities=30% Similarity=0.699 Sum_probs=38.1
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCccccccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSCRQILVVARCQK 132 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~~~~ 132 (172)
..|.||++ .+...+.+ |+|.|+.+|+..-+.. ...||+||..+.....-.
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 57999999 33455666 9999999999988754 336999999887654443
No 94
>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=94.34 E-value=0.061 Score=38.35 Aligned_cols=13 Identities=23% Similarity=0.565 Sum_probs=4.9
Q ss_pred ehHHHHHHHHHHH
Q 043163 5 VILAALLCALICV 17 (172)
Q Consensus 5 ii~~~~l~~li~v 17 (172)
+++++++++++++
T Consensus 3 ~l~~iii~~i~l~ 15 (130)
T PF12273_consen 3 VLFAIIIVAILLF 15 (130)
T ss_pred eeHHHHHHHHHHH
Confidence 3343333333333
No 95
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.06 E-value=0.023 Score=51.79 Aligned_cols=37 Identities=27% Similarity=0.637 Sum_probs=29.0
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHH
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWL 112 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl 112 (172)
...+++|.+|.-.+-.. ...+-| |||.||++|+..-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 45667899999988654 445566 99999999998775
No 96
>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=93.85 E-value=0.046 Score=31.97 Aligned_cols=29 Identities=28% Similarity=0.705 Sum_probs=21.8
Q ss_pred CC-CcccHhhHHHHHcCCCCcccccccccc
Q 043163 99 CG-HGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 99 C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
|. |..+-.|+...+.....||+|..+|+.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 65 999999999999999999999998874
No 97
>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=93.32 E-value=0.075 Score=42.74 Aligned_cols=48 Identities=31% Similarity=0.782 Sum_probs=35.2
Q ss_pred ccccccc-cccCCC-eeeecCCCCCcccHhhHHHHHc-CCCCcccccccccc
Q 043163 79 DCAICLT-EFVNGD-EIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILVV 127 (172)
Q Consensus 79 ~C~ICL~-~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~ 127 (172)
.|++|-. .|-..+ .+.+-+ |+|-.|.+|++..+. +...||-|...|..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence 4888876 444444 344444 999999999999874 46789999876654
No 98
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.23 E-value=0.045 Score=43.27 Aligned_cols=53 Identities=25% Similarity=0.621 Sum_probs=36.1
Q ss_pred CCccccccccccccCCCee-eecCCCC-----CcccHhhHHHHHcCC--------CCccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEI-RVLPQCG-----HGFHVACIDTWLGSH--------SSCPSCRQILVVA 128 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~-~~l~~C~-----H~FH~~Ci~~Wl~~~--------~~CP~CR~~l~~~ 128 (172)
+.+..|=||+.-=+++..- .+-| |. |=.|..|+.+|+..+ ..||-|+......
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 4556799999865443322 3445 53 779999999999432 2599998865543
No 99
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.09 E-value=0.028 Score=53.21 Aligned_cols=43 Identities=35% Similarity=0.779 Sum_probs=35.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
..|.||++.+..... +.. |||.++..|+..|+..+..||+|+.
T Consensus 1154 ~~c~ic~dil~~~~~--I~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGG--IAG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcCC--eee-echhHhhhHHHHHHHHhccCcchhh
Confidence 369999999874222 222 9999999999999999999999984
No 100
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.01 E-value=0.064 Score=43.76 Aligned_cols=47 Identities=23% Similarity=0.503 Sum_probs=34.3
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
....+||||.+.+.. .+.... =||+-|..|-.+ ....||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~--Pi~QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSP--PIFQCD-NGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcc--cceecC-CCcEehhhhhhh---hcccCCcccccccc
Confidence 344679999999965 333322 379999999763 46779999998763
No 101
>PF15050 SCIMP: SCIMP protein
Probab=92.96 E-value=0.18 Score=35.37 Aligned_cols=30 Identities=37% Similarity=0.687 Sum_probs=19.1
Q ss_pred CeeehHHHHHHHHHHHHHHHHHHHHHHHhh
Q 043163 2 DYVVILAALLCALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 2 ~~~ii~~~~l~~li~vi~l~~~~r~~~~r~ 31 (172)
++|+|+++.++++-++++++++..|.|..|
T Consensus 7 nFWiiLAVaII~vS~~lglIlyCvcR~~lR 36 (133)
T PF15050_consen 7 NFWIILAVAIILVSVVLGLILYCVCRWQLR 36 (133)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777666666677776644444433
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.89 E-value=0.049 Score=42.10 Aligned_cols=39 Identities=28% Similarity=0.641 Sum_probs=29.8
Q ss_pred cccccccccCCCeeeecCCCCCc-ccHhhHHHHHcCCCCccccccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHG-FHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
|-.|-+. +..+..+| |.|+ +|..|=.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 7788665 56799999 9988 88889554 355999987654
No 103
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.83 E-value=0.044 Score=44.52 Aligned_cols=44 Identities=27% Similarity=0.585 Sum_probs=29.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
-.|--|=-.+.. =-|+.| |+|+||.+|... ...+.||.|-..+.
T Consensus 91 HfCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 347666554422 346777 999999999654 23567999966554
No 104
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.78 E-value=0.084 Score=44.18 Aligned_cols=49 Identities=16% Similarity=0.331 Sum_probs=40.4
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCC---CCcccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSH---SSCPSCRQ 123 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~CR~ 123 (172)
..+...|||=-+.-.++..+..|. |||+...+-+.+..++. ..||+|-.
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ccceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 345567999888888888888998 99999999999988764 46999944
No 105
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.34 E-value=0.063 Score=43.29 Aligned_cols=31 Identities=19% Similarity=0.617 Sum_probs=24.0
Q ss_pred CCCcccHhhHHHHHcC-------------CCCcccccccccccc
Q 043163 99 CGHGFHVACIDTWLGS-------------HSSCPSCRQILVVAR 129 (172)
Q Consensus 99 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~l~~~~ 129 (172)
|.-++|.+|+.+|+.. +-+||+||+++-..+
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 6778999999999743 346999999876443
No 106
>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=92.34 E-value=0.14 Score=37.68 Aligned_cols=34 Identities=26% Similarity=0.581 Sum_probs=21.0
Q ss_pred ccccccccccccCCCeeeecC-----C-----CCCc-ccHhhHHHHH
Q 043163 77 FSDCAICLTEFVNGDEIRVLP-----Q-----CGHG-FHVACIDTWL 112 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~-----~-----C~H~-FH~~Ci~~Wl 112 (172)
+..|+||||.-.+ -|.++- . |+-. =|..|++++-
T Consensus 2 d~~CpICme~PHN--AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHN--AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCc--eEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 4579999997644 222221 1 4433 5788999985
No 107
>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=92.23 E-value=0.05 Score=42.69 Aligned_cols=52 Identities=25% Similarity=0.660 Sum_probs=39.0
Q ss_pred Ccccccccccc-c-cCCCeeeecCCCCCcccHhhHHHHHcC-CCCcc--cccccccc
Q 043163 76 KFSDCAICLTE-F-VNGDEIRVLPQCGHGFHVACIDTWLGS-HSSCP--SCRQILVV 127 (172)
Q Consensus 76 ~~~~C~ICL~~-~-~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP--~CR~~l~~ 127 (172)
.+..||||..+ | .++.++.+-|.|-|..|.+|+++-+.. .-.|| -|..-|-.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK 65 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRK 65 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHH
Confidence 34579999874 3 345577778889999999999999865 55799 77655443
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=91.58 E-value=0.11 Score=37.14 Aligned_cols=51 Identities=22% Similarity=0.471 Sum_probs=36.3
Q ss_pred CccccccccccccCCCeeeecCCCCCcccHhhHHHHHc---CCCCccccccccc
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG---SHSSCPSCRQILV 126 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~ 126 (172)
.-.+|.||.|...+..-+.--.-||-..|..|....++ ....||+|+..+-
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 44579999998765433222224999999999776554 3678999998775
No 109
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.56 E-value=0.054 Score=48.00 Aligned_cols=43 Identities=35% Similarity=0.702 Sum_probs=31.9
Q ss_pred ccccccccccccCCC-eeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 77 FSDCAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
...|.||+..|.... ..+.+. |||..|.+|+... .+.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhH--hhccCC-CCc
Confidence 346999998887655 444554 9999999999875 466788 544
No 110
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.45 E-value=0.094 Score=44.29 Aligned_cols=38 Identities=29% Similarity=0.674 Sum_probs=28.1
Q ss_pred Cccccccccc-cccCCCeeeecCCCCCcccHhhHHHHHcC
Q 043163 76 KFSDCAICLT-EFVNGDEIRVLPQCGHGFHVACIDTWLGS 114 (172)
Q Consensus 76 ~~~~C~ICL~-~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~ 114 (172)
...+|.||+. ....++...+.. |+|.|+.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhh
Confidence 3457999994 444435555555 9999999999998864
No 111
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.28 E-value=0.19 Score=40.71 Aligned_cols=50 Identities=22% Similarity=0.665 Sum_probs=36.2
Q ss_pred ccccccccccccCCCe-eeecCCCC-----CcccHhhHHHHHc--CCCCcccccccccc
Q 043163 77 FSDCAICLTEFVNGDE-IRVLPQCG-----HGFHVACIDTWLG--SHSSCPSCRQILVV 127 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~-~~~l~~C~-----H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~ 127 (172)
+..|-||.++...... ....| |. +..|..|++.|+. ++..|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4679999997765331 34455 54 6689999999997 56679999875553
No 112
>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=90.11 E-value=0.61 Score=33.02 Aligned_cols=18 Identities=22% Similarity=0.549 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIAV 23 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~ 23 (172)
+++++++++..+++++++
T Consensus 66 i~~Ii~gv~aGvIg~Ill 83 (122)
T PF01102_consen 66 IIGIIFGVMAGVIGIILL 83 (122)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred eeehhHHHHHHHHHHHHH
Confidence 334444444444444443
No 113
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.26 E-value=0.24 Score=43.66 Aligned_cols=48 Identities=31% Similarity=0.782 Sum_probs=39.3
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARC 130 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~ 130 (172)
.....|.||+++. ..+..+ |. |.-|+..|+..+..||+|+..+..+..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 4456799999987 456666 88 999999999999999999998876433
No 114
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=88.88 E-value=0.38 Score=43.56 Aligned_cols=40 Identities=25% Similarity=0.533 Sum_probs=31.1
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPS 120 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~ 120 (172)
.|.+|-..+.. .....+.|+|.-|.+|+..|+.....||.
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 48999777643 33345569999999999999988887765
No 115
>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=88.60 E-value=0.24 Score=25.26 Aligned_cols=23 Identities=30% Similarity=0.755 Sum_probs=14.9
Q ss_pred ccccccccccCCCeeeecCCCCCcc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGF 103 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~F 103 (172)
.||-|-..+.. .....|.|||.|
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 47777776633 455566688877
No 116
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=88.59 E-value=0.21 Score=42.59 Aligned_cols=35 Identities=26% Similarity=0.560 Sum_probs=28.8
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG 113 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~ 113 (172)
+++..|+||-.-|++ .++|| |+|..|..|...-+.
T Consensus 2 eeelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 456789999999876 67888 999999999876553
No 117
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=88.40 E-value=0.13 Score=46.10 Aligned_cols=53 Identities=25% Similarity=0.577 Sum_probs=38.6
Q ss_pred CccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC---CCCccccccccccccccc
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS---HSSCPSCRQILVVARCQK 132 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~~ 132 (172)
...+|+||+..+... ..+. |.|.|+..|+..-+.. ...||+|+..+.....+.
T Consensus 20 k~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E 75 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE 75 (684)
T ss_pred hhccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence 345799999998663 3444 9999999998765533 457999998777654433
No 118
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.37 E-value=0.4 Score=43.88 Aligned_cols=52 Identities=25% Similarity=0.594 Sum_probs=37.9
Q ss_pred ccccccccccccCCCeeeecC-CCC---CcccHhhHHHHHcC--CCCcccccccccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLP-QCG---HGFHVACIDTWLGS--HSSCPSCRQILVVAR 129 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~-~C~---H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~ 129 (172)
...|-||..+=..++.+. -| .|. ...|.+|+.+|+.- ...|-+|+.++-..+
T Consensus 12 ~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 12 KRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred chhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 357999998866666553 34 243 45999999999964 557999998876543
No 119
>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=87.31 E-value=1.3 Score=33.66 Aligned_cols=33 Identities=24% Similarity=0.163 Sum_probs=24.4
Q ss_pred CeeehHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 043163 2 DYVVILAALLCALICVLGLIAVARCAWLRRLSG 34 (172)
Q Consensus 2 ~~~ii~~~~l~~li~vi~l~~~~r~~~~r~~~~ 34 (172)
-+.++++++.++++++++++++-|.+.+...+.
T Consensus 10 Gv~vvlv~a~g~l~~vllfIfaKRQI~Rf~lrs 42 (186)
T PF07406_consen 10 GVNVVLVIAYGSLVFVLLFIFAKRQIMRFALRS 42 (186)
T ss_pred ceeeehhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356778888888888888888877766655543
No 120
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.21 E-value=1.4 Score=36.19 Aligned_cols=48 Identities=17% Similarity=0.352 Sum_probs=37.9
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCC---CCccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSH---SSCPSCR 122 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~CR 122 (172)
......||+=-+.-.++....++. |||+.-.+-++..-++. ..||+|-
T Consensus 333 fHs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 333 FHSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ccceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 344567999887777777788887 99999999999977663 4699993
No 121
>PF15102 TMEM154: TMEM154 protein family
Probab=85.96 E-value=0.58 Score=34.06 Aligned_cols=9 Identities=33% Similarity=0.896 Sum_probs=5.1
Q ss_pred hhHHHHHcC
Q 043163 106 ACIDTWLGS 114 (172)
Q Consensus 106 ~Ci~~Wl~~ 114 (172)
+=++.|+..
T Consensus 128 eeldkwm~s 136 (146)
T PF15102_consen 128 EELDKWMNS 136 (146)
T ss_pred HHHHhHHHh
Confidence 346777643
No 122
>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 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=85.48 E-value=1 Score=26.57 Aligned_cols=43 Identities=21% Similarity=0.475 Sum_probs=20.3
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC-----CCCccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS-----HSSCPSCRQI 124 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~ 124 (172)
..|+|-...++. .+|-.. |.|.-+-+ +..|+.. .-.||+|.++
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 358888888755 677776 99984322 4445432 3469999763
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.08 E-value=0.85 Score=36.20 Aligned_cols=57 Identities=18% Similarity=0.209 Sum_probs=42.2
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccccCCC
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQKCGG 135 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~ 135 (172)
...|+|---+|........+..|||+|-..-+.+. ...+|++|.+...+.++.--+|
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg 167 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNG 167 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCC
Confidence 34599987777665555556569999999888874 3678999999887666655444
No 125
>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=84.18 E-value=0.68 Score=27.00 Aligned_cols=43 Identities=21% Similarity=0.594 Sum_probs=30.2
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHc------CCCCcccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG------SHSSCPSCRQ 123 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~------~~~~CP~CR~ 123 (172)
|.||... ..++.++....|+..||..|+..=.. ....||.|+.
T Consensus 2 C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 8899884 34445556667999999999875432 2456888864
No 126
>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=84.12 E-value=0.9 Score=27.10 Aligned_cols=42 Identities=26% Similarity=0.731 Sum_probs=21.5
Q ss_pred cccccccccCC------CeeeecCCCCCcccHhhHHHHHcC-CCCccccc
Q 043163 80 CAICLTEFVNG------DEIRVLPQCGHGFHVACIDTWLGS-HSSCPSCR 122 (172)
Q Consensus 80 C~ICL~~~~~~------~~~~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 122 (172)
|.-|+..|... ......+.|++.|+.+|= .++.. =.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcC-hhhhccccCCcCCC
Confidence 55677777654 256777889999999993 33322 34688773
No 127
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=83.73 E-value=0.66 Score=37.06 Aligned_cols=50 Identities=28% Similarity=0.645 Sum_probs=35.3
Q ss_pred cccccccccccCCCeeeec---CCCCCcccHhhHHHHHcC---------CCCcccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVL---PQCGHGFHVACIDTWLGS---------HSSCPSCRQILVV 127 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l---~~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~l~~ 127 (172)
.+|-+|.+++.+.+..+.+ +.|+-++|..|+..-+.. ...||.|+..+.-
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w 244 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSW 244 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeH
Confidence 5799999999544433332 258889999999994432 3469999886553
No 128
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=82.45 E-value=0.91 Score=34.88 Aligned_cols=40 Identities=35% Similarity=0.760 Sum_probs=28.6
Q ss_pred cccccccccc-----ccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccc
Q 043163 77 FSDCAICLTE-----FVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCR 122 (172)
Q Consensus 77 ~~~C~ICL~~-----~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 122 (172)
...|-+|-+. |+. +.+...+.|+-+||..|.. +..||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 3468888752 222 3566677799999999976 26799994
No 129
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=81.93 E-value=3.1 Score=27.62 Aligned_cols=18 Identities=11% Similarity=0.034 Sum_probs=7.3
Q ss_pred eehHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLI 21 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~ 21 (172)
-+.++++.++++++++++
T Consensus 34 gm~~lvI~~iFil~Vilw 51 (94)
T PF05393_consen 34 GMWFLVICGIFILLVILW 51 (94)
T ss_pred chhHHHHHHHHHHHHHHH
Confidence 344444444434444333
No 130
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.36 E-value=0.56 Score=42.70 Aligned_cols=45 Identities=24% Similarity=0.531 Sum_probs=32.1
Q ss_pred CCccccccccccccC-C---CeeeecCCCCCcccHhhHHHHHcCCCCcccc
Q 043163 75 AKFSDCAICLTEFVN-G---DEIRVLPQCGHGFHVACIDTWLGSHSSCPSC 121 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~-~---~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 121 (172)
..+..|.-|++..-. + +.+.++. |+|.||..|++.-..++. |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 344579999997653 2 4677786 999999999987765443 5444
No 131
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=81.20 E-value=0.51 Score=41.80 Aligned_cols=40 Identities=28% Similarity=0.674 Sum_probs=25.3
Q ss_pred cccccccc-----cccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccc
Q 043163 78 SDCAICLT-----EFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSC 121 (172)
Q Consensus 78 ~~C~ICL~-----~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 121 (172)
..|.+|-. .|+ .+.++....|+++||.+|+.. .+..||.|
T Consensus 512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 44777722 222 334444445999999999655 34449999
No 132
>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=80.42 E-value=1.9 Score=30.48 Aligned_cols=21 Identities=19% Similarity=0.385 Sum_probs=12.9
Q ss_pred eehHHHHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLIAVA 24 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~ 24 (172)
..|++.++.++++++++++++
T Consensus 67 ~~Ii~gv~aGvIg~Illi~y~ 87 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLISYC 87 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHHHHHH
Confidence 345566666666666666663
No 133
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=80.06 E-value=1.1 Score=34.73 Aligned_cols=44 Identities=30% Similarity=0.812 Sum_probs=33.5
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
-..|.+|..-.-. .++ ...|+-.+|..|+...++....||-|..
T Consensus 181 lk~Cn~Ch~LvIq--g~r-Cg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQ--GIR-CGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhhe--eec-cCcccchhhhHHHHHHhcccCcCCchhc
Confidence 3469999886533 223 3348888999999999999999999943
No 134
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=79.43 E-value=1.3 Score=24.36 Aligned_cols=26 Identities=38% Similarity=0.773 Sum_probs=15.8
Q ss_pred ccccccccccCCCe-------eeecCCCCCccc
Q 043163 79 DCAICLTEFVNGDE-------IRVLPQCGHGFH 104 (172)
Q Consensus 79 ~C~ICL~~~~~~~~-------~~~l~~C~H~FH 104 (172)
.|+=|-..|+-.+. ....+.|+|+|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 57777777765332 234445778775
No 135
>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=78.50 E-value=2.3 Score=22.66 Aligned_cols=37 Identities=27% Similarity=0.548 Sum_probs=24.5
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
|..|-+.+..++..... =+..||.+| ..|..|+..|.
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcCc
Confidence 77888887665333322 468899888 45777776653
No 136
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.85 E-value=1.4 Score=40.48 Aligned_cols=50 Identities=12% Similarity=0.201 Sum_probs=33.8
Q ss_pred ccccccccccccCC---CeeeecCCCCCcccHhhHHHHHcC------CCCccccccccc
Q 043163 77 FSDCAICLTEFVNG---DEIRVLPQCGHGFHVACIDTWLGS------HSSCPSCRQILV 126 (172)
Q Consensus 77 ~~~C~ICL~~~~~~---~~~~~l~~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~ 126 (172)
...|.+|.-++.+. -.+-.+..|+|.||..||..|... +-.|++|..-|.
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 34577777777652 222223359999999999999742 345888887664
No 137
>PRK01844 hypothetical protein; Provisional
Probab=77.45 E-value=4.7 Score=25.73 Aligned_cols=28 Identities=21% Similarity=0.148 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 043163 6 ILAALLCALICVLGLIAVARCAWLRRLS 33 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~r~~~~r~~~ 33 (172)
|+++++.+++.+++-+++.|.+....+.
T Consensus 7 I~l~I~~li~G~~~Gff~ark~~~k~lk 34 (72)
T PRK01844 7 ILVGVVALVAGVALGFFIARKYMMNYLQ 34 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555556666655555443
No 138
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.38 E-value=1.1 Score=37.85 Aligned_cols=44 Identities=23% Similarity=0.569 Sum_probs=31.2
Q ss_pred cccccccccccCCC-eeeecCCCCCcccHhhHHHHHcCCCCcccc
Q 043163 78 SDCAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLGSHSSCPSC 121 (172)
Q Consensus 78 ~~C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 121 (172)
..|+.|.-.++... ...++-+|||.|++.|...|...+..|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 46998887765433 333333499999999999998777767444
No 139
>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=77.16 E-value=7 Score=22.07 Aligned_cols=21 Identities=10% Similarity=0.123 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIAVARC 26 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~r~ 26 (172)
++.++.++.+.++.++++.++
T Consensus 13 VF~lVglv~i~iva~~iYRKw 33 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRKW 33 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444333
No 140
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.03 E-value=1.7 Score=37.47 Aligned_cols=37 Identities=35% Similarity=0.736 Sum_probs=29.7
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS 114 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~ 114 (172)
....+|-||.+.+.. .+..+. |+|.|+..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 444679999999865 455665 9999999999999864
No 141
>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=75.99 E-value=1.5 Score=27.25 Aligned_cols=37 Identities=22% Similarity=0.403 Sum_probs=19.4
Q ss_pred CccccccccccccCCCeeeecCCCCCcccHhhHHHHH
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWL 112 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl 112 (172)
+...|.+|...|.--..-.....||++|+.+|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3457999999996544444555699999999976543
No 142
>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=75.05 E-value=2.6 Score=32.69 Aligned_cols=16 Identities=6% Similarity=0.017 Sum_probs=7.2
Q ss_pred cccccccccCCCCCCC
Q 043163 124 ILVVARCQKCGGFPAS 139 (172)
Q Consensus 124 ~l~~~~~~~~~~~~~~ 139 (172)
.-..+++..-+.|.++
T Consensus 180 H~~iQeLP~~NTFVg~ 195 (221)
T PF08374_consen 180 HHIIQELPLDNTFVGG 195 (221)
T ss_pred chhhhhcCCcceeeec
Confidence 3334444444555433
No 143
>PHA02902 putative IMV membrane protein; Provisional
Probab=74.84 E-value=11 Score=23.53 Aligned_cols=8 Identities=13% Similarity=0.343 Sum_probs=3.2
Q ss_pred CCHHHHhh
Q 043163 56 LKKKILRT 63 (172)
Q Consensus 56 ~~~~~i~~ 63 (172)
++.++++.
T Consensus 54 lTpDQirA 61 (70)
T PHA02902 54 LTPDQIKA 61 (70)
T ss_pred CCHHHHHH
Confidence 33444433
No 144
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=73.65 E-value=3.8 Score=36.80 Aligned_cols=23 Identities=22% Similarity=0.378 Sum_probs=13.8
Q ss_pred CCeeehHHHHHHHHHHHHHHHHH
Q 043163 1 SDYVVILAALLCALICVLGLIAV 23 (172)
Q Consensus 1 S~~~ii~~~~l~~li~vi~l~~~ 23 (172)
+|+|+|+++++-+++++++++++
T Consensus 267 ~NlWII~gVlvPv~vV~~Iiiil 289 (684)
T PF12877_consen 267 NNLWIIAGVLVPVLVVLLIIIIL 289 (684)
T ss_pred CCeEEEehHhHHHHHHHHHHHHH
Confidence 57888888765554444444443
No 145
>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=73.55 E-value=2.9 Score=24.73 Aligned_cols=39 Identities=23% Similarity=0.460 Sum_probs=26.1
Q ss_pred cccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
|+-|-..+..++.+... -+..||.+| ..|-.|+.+|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCCC
Confidence 66677777655544322 677888877 5677887777654
No 146
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.78 E-value=6.3 Score=25.02 Aligned_cols=29 Identities=28% Similarity=0.369 Sum_probs=15.8
Q ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 043163 4 VVILAALLCALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r~~~~r~~ 32 (172)
+.++++++.+++.+++-+++.|.+..+.+
T Consensus 5 lail~ivl~ll~G~~~G~fiark~~~k~l 33 (71)
T COG3763 5 LAILLIVLALLAGLIGGFFIARKQMKKQL 33 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555556655666555554443
No 147
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=72.54 E-value=5.8 Score=32.74 Aligned_cols=46 Identities=28% Similarity=0.694 Sum_probs=34.9
Q ss_pred cccccccccccCCC-eeeecCCCCCcccHhhHHHHHcCCCCccccccc
Q 043163 78 SDCAICLTEFVNGD-EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQI 124 (172)
Q Consensus 78 ~~C~ICL~~~~~~~-~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 124 (172)
..|+||-+.....+ ...-.+ |+|..|..|+..-...+..||.||.+
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCc
Confidence 67999999874443 333344 88888888888877888999999943
No 148
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=70.80 E-value=4.8 Score=33.14 Aligned_cols=53 Identities=25% Similarity=0.511 Sum_probs=35.8
Q ss_pred CCCccccccccccccC---------------C-CeeeecCCCCCcccHhhHHHHHcC---------CCCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVN---------------G-DEIRVLPQCGHGFHVACIDTWLGS---------HSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~---------------~-~~~~~l~~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~l~~ 127 (172)
...+.+|++|+..=.. + -.-...| |||+--.+=..-|-+. +..||.|-..|..
T Consensus 338 g~~~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 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3446789999975211 1 1123445 9999988888899754 3459999877764
No 149
>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=70.42 E-value=2.4 Score=32.84 Aligned_cols=12 Identities=42% Similarity=0.783 Sum_probs=5.0
Q ss_pred CeeehHHHHHHH
Q 043163 2 DYVVILAALLCA 13 (172)
Q Consensus 2 ~~~ii~~~~l~~ 13 (172)
+++.|++.++.+
T Consensus 35 d~~~I~iaiVAG 46 (221)
T PF08374_consen 35 DYVKIMIAIVAG 46 (221)
T ss_pred cceeeeeeeecc
Confidence 344444444433
No 150
>PRK00523 hypothetical protein; Provisional
Probab=68.40 E-value=12 Score=23.94 Aligned_cols=24 Identities=4% Similarity=0.030 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 043163 9 ALLCALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~r~~~~r~~ 32 (172)
+++.+++.+++-+++.|.+....+
T Consensus 11 ~i~~li~G~~~Gffiark~~~k~l 34 (72)
T PRK00523 11 GIPLLIVGGIIGYFVSKKMFKKQI 34 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444555555554443
No 151
>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=67.13 E-value=4.6 Score=23.90 Aligned_cols=35 Identities=23% Similarity=0.416 Sum_probs=24.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHH
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWL 112 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl 112 (172)
..|.+|-..|..-..-.....||++|+.+|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46899988886543333344599999999977654
No 152
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.04 E-value=3.5 Score=32.74 Aligned_cols=36 Identities=19% Similarity=0.317 Sum_probs=29.1
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG 113 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~ 113 (172)
....+.|+.||..+.+ ..+++ =||+|..+||-+.+.
T Consensus 40 iK~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccC---CccCC-CCeeeeHHHHHHHHH
Confidence 4555679999999866 55666 899999999999874
No 153
>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=66.20 E-value=3.4 Score=25.92 Aligned_cols=11 Identities=27% Similarity=0.954 Sum_probs=8.3
Q ss_pred ccHhhHHHHHc
Q 043163 103 FHVACIDTWLG 113 (172)
Q Consensus 103 FH~~Ci~~Wl~ 113 (172)
||+.|+..|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999985
No 154
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.08 E-value=6.3 Score=27.45 Aligned_cols=45 Identities=27% Similarity=0.396 Sum_probs=32.3
Q ss_pred cccccccccccCC----------CeeeecCCCCCcccHhhHHHHHcCCCCccccc
Q 043163 78 SDCAICLTEFVNG----------DEIRVLPQCGHGFHVACIDTWLGSHSSCPSCR 122 (172)
Q Consensus 78 ~~C~ICL~~~~~~----------~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR 122 (172)
..|--|+..|... ......+.|++.|+.+|=.-+-..=.+||-|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4599999988642 12345667999999999666555556799885
No 155
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=64.69 E-value=0.61 Score=29.66 Aligned_cols=46 Identities=33% Similarity=0.642 Sum_probs=24.8
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccccccccCC
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVARCQKCG 134 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~ 134 (172)
..||.|-.+++... +|.++..|-.. +.....||-|..+|.. +..||
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~--LkACG 47 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV--LKACG 47 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE--EEETT
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH--HHHhc
Confidence 36999988864322 56666777655 4456679999887753 45555
No 156
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=64.34 E-value=6.7 Score=20.24 Aligned_cols=29 Identities=17% Similarity=0.430 Sum_probs=11.0
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhH
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACI 108 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci 108 (172)
.|.+|-+.... +.......|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47888887655 345555669999999985
No 157
>PLN02436 cellulose synthase A
Probab=63.94 E-value=9.1 Score=36.53 Aligned_cols=49 Identities=20% Similarity=0.535 Sum_probs=35.5
Q ss_pred ccccccccccc---CCCeeeecCCCCCcccHhhHHHHHc-CCCCccccccccc
Q 043163 78 SDCAICLTEFV---NGDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~---~~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 126 (172)
..|.||-|++. +++.-..+..|+--.|..|++-=.+ .++.||-|+...-
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 36999999964 4555555556777799999953232 3667999988765
No 158
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=63.87 E-value=2.6 Score=41.36 Aligned_cols=51 Identities=29% Similarity=0.548 Sum_probs=37.9
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC----CCCccccccccc
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS----HSSCPSCRQILV 126 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l~ 126 (172)
.....|.+|.......+.+.-. .|.-.||..|+..-+.. ...||-||..--
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 3345699999987665444444 48899999999998754 446999988664
No 159
>PLN02189 cellulose synthase
Probab=63.70 E-value=9.3 Score=36.34 Aligned_cols=49 Identities=24% Similarity=0.535 Sum_probs=35.8
Q ss_pred ccccccccccc---CCCeeeecCCCCCcccHhhHHHHHc-CCCCccccccccc
Q 043163 78 SDCAICLTEFV---NGDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~---~~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 126 (172)
..|.||-|++. +++.-..+..|+--.|..|++-=.+ .++.||-|+...-
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 36999999975 3455556666888899999853222 3677999988765
No 160
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=63.40 E-value=5.8 Score=23.60 Aligned_cols=27 Identities=30% Similarity=0.741 Sum_probs=17.0
Q ss_pred eecCCCCCcccHhhHHHHHcCCCCcccc
Q 043163 94 RVLPQCGHGFHVACIDTWLGSHSSCPSC 121 (172)
Q Consensus 94 ~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C 121 (172)
-..+.|||.|...=-.+ ......||.|
T Consensus 29 W~C~~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 29 WKCPKCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred EECCCCCCeeEccHhhh-ccCCCCCCCC
Confidence 44556888777653333 2556779988
No 161
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.39 E-value=4.3 Score=22.16 Aligned_cols=26 Identities=31% Similarity=0.660 Sum_probs=15.8
Q ss_pred ccccccccccCCCe-------eeecCCCCCccc
Q 043163 79 DCAICLTEFVNGDE-------IRVLPQCGHGFH 104 (172)
Q Consensus 79 ~C~ICL~~~~~~~~-------~~~l~~C~H~FH 104 (172)
+|+=|...|+.++. -...+.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 57788877765432 123345888774
No 162
>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=63.00 E-value=12 Score=27.81 Aligned_cols=24 Identities=33% Similarity=0.266 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 043163 8 AALLCALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 8 ~~~l~~li~vi~l~~~~r~~~~r~ 31 (172)
+.+++++..++++++++|.++.|+
T Consensus 98 ~~Vl~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 98 LYVLVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Confidence 344444444555555555554443
No 163
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=62.97 E-value=4 Score=28.16 Aligned_cols=26 Identities=23% Similarity=0.561 Sum_probs=15.9
Q ss_pred ccccccccccCCC-eeeecCCCCCccc
Q 043163 79 DCAICLTEFVNGD-EIRVLPQCGHGFH 104 (172)
Q Consensus 79 ~C~ICL~~~~~~~-~~~~l~~C~H~FH 104 (172)
.||-|-.+|.-.+ .+.+.|.|+|.|-
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccc
Confidence 4888888875332 3455555666543
No 164
>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=62.91 E-value=2.4 Score=35.80 Aligned_cols=28 Identities=36% Similarity=0.748 Sum_probs=0.0
Q ss_pred eeeecCCCCCcccHhhHHHHHc------CCCCcccccc
Q 043163 92 EIRVLPQCGHGFHVACIDTWLG------SHSSCPSCRQ 123 (172)
Q Consensus 92 ~~~~l~~C~H~FH~~Ci~~Wl~------~~~~CP~CR~ 123 (172)
....+. |||++- ...|-. ...+||+||.
T Consensus 303 P~VYl~-CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~ 336 (416)
T PF04710_consen 303 PWVYLN-CGHVHG---YHNWGQDSDRDPRSRTCPLCRQ 336 (416)
T ss_dssp --------------------------------------
T ss_pred ceeecc-ccceee---ecccccccccccccccCCCccc
Confidence 345565 999976 345643 2457999987
No 165
>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=62.31 E-value=17 Score=23.47 Aligned_cols=9 Identities=22% Similarity=0.250 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 043163 15 ICVLGLIAV 23 (172)
Q Consensus 15 i~vi~l~~~ 23 (172)
++|..++++
T Consensus 15 ifVap~WL~ 23 (75)
T PF06667_consen 15 IFVAPIWLI 23 (75)
T ss_pred HHHHHHHHH
Confidence 333333333
No 166
>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=61.73 E-value=14 Score=25.84 Aligned_cols=30 Identities=17% Similarity=0.202 Sum_probs=17.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 043163 6 ILAALLCALICVLGLIAVARCAWLRRLSGG 35 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~r~~~~r~~~~~ 35 (172)
+|..+..+.+.+++...+++..|+|.-+++
T Consensus 89 VIGGLcaL~LaamGA~~LLrR~cRr~arrR 118 (126)
T PF03229_consen 89 VIGGLCALTLAAMGAGALLRRCCRRAARRR 118 (126)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444555555666777777666666654444
No 167
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=61.50 E-value=3.8 Score=25.18 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=11.1
Q ss_pred CCCccccccccccc
Q 043163 115 HSSCPSCRQILVVA 128 (172)
Q Consensus 115 ~~~CP~CR~~l~~~ 128 (172)
...||+|.+++...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 45799999988754
No 168
>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 PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=61.25 E-value=3.2 Score=21.89 Aligned_cols=25 Identities=36% Similarity=0.979 Sum_probs=11.2
Q ss_pred ccccccccccC-CCeeeecCCCCCcc
Q 043163 79 DCAICLTEFVN-GDEIRVLPQCGHGF 103 (172)
Q Consensus 79 ~C~ICL~~~~~-~~~~~~l~~C~H~F 103 (172)
.|+.|-.++.- +..+.+.+.|+|.+
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCcceeccCCEEeCCcccccC
Confidence 48888887652 33556667788754
No 170
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=60.68 E-value=11 Score=34.70 Aligned_cols=27 Identities=30% Similarity=0.240 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccC
Q 043163 8 AALLCALICVLGLIAVARCAWLRRLSG 34 (172)
Q Consensus 8 ~~~l~~li~vi~l~~~~r~~~~r~~~~ 34 (172)
.|+..+++++++++.++.|+|+|+...
T Consensus 277 ~ILG~~~livl~lL~vLl~yCrrkc~~ 303 (807)
T PF10577_consen 277 AILGGTALIVLILLCVLLCYCRRKCLK 303 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcccCC
Confidence 333445556666666666777765443
No 171
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=60.38 E-value=2.8 Score=25.26 Aligned_cols=21 Identities=29% Similarity=0.719 Sum_probs=16.2
Q ss_pred CeeeecCCCCCcccHhhHHHH
Q 043163 91 DEIRVLPQCGHGFHVACIDTW 111 (172)
Q Consensus 91 ~~~~~l~~C~H~FH~~Ci~~W 111 (172)
......+.|+|.|+..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 445566459999999998887
No 172
>KOG1094 consensus Discoidin domain receptor DDR1 [Signal transduction mechanisms]
Probab=60.12 E-value=17 Score=32.86 Aligned_cols=30 Identities=17% Similarity=0.341 Sum_probs=14.5
Q ss_pred CeeehHHHHHHHHHHHHHHHHHHHHHHHhh
Q 043163 2 DYVVILAALLCALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 2 ~~~ii~~~~l~~li~vi~l~~~~r~~~~r~ 31 (172)
+-.+++++++.++++++.++.+..+.|+|.
T Consensus 389 ~t~~~~~~f~~if~iva~ii~~~L~R~rr~ 418 (807)
T KOG1094|consen 389 PTAILIIIFVAIFLIVALIIALMLWRWRRL 418 (807)
T ss_pred CceehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555555555555555554444444443
No 173
>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=59.38 E-value=2.8 Score=24.91 Aligned_cols=13 Identities=31% Similarity=0.675 Sum_probs=6.8
Q ss_pred Ccccccccccccc
Q 043163 117 SCPSCRQILVVAR 129 (172)
Q Consensus 117 ~CP~CR~~l~~~~ 129 (172)
.||+|.++|..+.
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 7999999887643
No 174
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=59.03 E-value=3.8 Score=37.14 Aligned_cols=48 Identities=23% Similarity=0.432 Sum_probs=32.2
Q ss_pred ccccccccccCCC-------eeeecCCCCCcccHhhHHHH----------HcCCCCcccccccccc
Q 043163 79 DCAICLTEFVNGD-------EIRVLPQCGHGFHVACIDTW----------LGSHSSCPSCRQILVV 127 (172)
Q Consensus 79 ~C~ICL~~~~~~~-------~~~~l~~C~H~FH~~Ci~~W----------l~~~~~CP~CR~~l~~ 127 (172)
.|-||-|+=++.+ .+-.- .|...||..|.+.- +.+-+.|-+|+..+-+
T Consensus 119 tCYIC~E~GrpnkA~~GACMtCNKs-~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsK 183 (900)
T KOG0956|consen 119 TCYICNEEGRPNKAAKGACMTCNKS-GCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSK 183 (900)
T ss_pred eeeeecccCCccccccccceecccc-cchhhhhhhHhhhhccceeccccccccceechhHHHHHHH
Confidence 6999999743321 12223 37889999998865 1234579999886654
No 175
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=58.85 E-value=19 Score=24.41 Aligned_cols=27 Identities=19% Similarity=0.151 Sum_probs=15.8
Q ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHh
Q 043163 4 VVILAALLCALICVLGLIAVARCAWLR 30 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r~~~~r 30 (172)
|-||+|.+..++..+++++-+.++.+.
T Consensus 18 WeIfLItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 18 WEIFLITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 346667777777777766644443333
No 176
>PRK10220 hypothetical protein; Provisional
Probab=58.75 E-value=6.8 Score=27.09 Aligned_cols=25 Identities=28% Similarity=0.838 Sum_probs=15.2
Q ss_pred ccccccccccCCC-eeeecCCCCCcc
Q 043163 79 DCAICLTEFVNGD-EIRVLPQCGHGF 103 (172)
Q Consensus 79 ~C~ICL~~~~~~~-~~~~l~~C~H~F 103 (172)
.||-|-.+|.-.+ ...+.|.|+|-|
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcC
Confidence 4888888776433 345555565544
No 177
>PRK14762 membrane protein; Provisional
Probab=58.73 E-value=10 Score=19.00 Aligned_cols=15 Identities=33% Similarity=0.589 Sum_probs=6.0
Q ss_pred ehHHHHHHHHHHHHH
Q 043163 5 VILAALLCALICVLG 19 (172)
Q Consensus 5 ii~~~~l~~li~vi~ 19 (172)
++.+++++.++.+.+
T Consensus 7 ~i~iifligllvvtg 21 (27)
T PRK14762 7 AVLIIFLIGLLVVTG 21 (27)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444333
No 178
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=58.66 E-value=10 Score=27.49 Aligned_cols=38 Identities=18% Similarity=0.372 Sum_probs=20.5
Q ss_pred eeecCCCCCcccHhhHHHHH--cCCCCccccccccccccc
Q 043163 93 IRVLPQCGHGFHVACIDTWL--GSHSSCPSCRQILVVARC 130 (172)
Q Consensus 93 ~~~l~~C~H~FH~~Ci~~Wl--~~~~~CP~CR~~l~~~~~ 130 (172)
...+|.|++.|=..=..... .....||.|...|...+.
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEEDDN 138 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEcCc
Confidence 34444555555532222211 123679999999886543
No 179
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=58.06 E-value=32 Score=25.22 Aligned_cols=19 Identities=11% Similarity=0.221 Sum_probs=8.6
Q ss_pred ehHHHHHHHHHHHHHHHHH
Q 043163 5 VILAALLCALICVLGLIAV 23 (172)
Q Consensus 5 ii~~~~l~~li~vi~l~~~ 23 (172)
++++.+++++++.++++++
T Consensus 59 Iivl~Vi~lLvlYM~fL~~ 77 (149)
T PF05434_consen 59 IIVLWVIGLLVLYMLFLMC 77 (149)
T ss_pred EEeHHHHHHHHHHHHHHHH
Confidence 4444444444444444443
No 180
>PRK05978 hypothetical protein; Provisional
Probab=57.68 E-value=7.6 Score=28.42 Aligned_cols=23 Identities=17% Similarity=0.437 Sum_probs=18.6
Q ss_pred CcccHhhHHHHHcCCCCccccccccccc
Q 043163 101 HGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 101 H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
|+|+ .+++.+..||.|-.++..+
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred cccc-----cccccCCCccccCCccccC
Confidence 7776 7888899999998877753
No 181
>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=56.82 E-value=9.2 Score=23.65 Aligned_cols=36 Identities=14% Similarity=0.284 Sum_probs=27.1
Q ss_pred CccccccccccccC--CCeeeecCCCCCcccHhhHHHH
Q 043163 76 KFSDCAICLTEFVN--GDEIRVLPQCGHGFHVACIDTW 111 (172)
Q Consensus 76 ~~~~C~ICL~~~~~--~~~~~~l~~C~H~FH~~Ci~~W 111 (172)
....|+.|-...+. .......+.||+.+|.+-...+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~ 64 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAAR 64 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHHH
Confidence 33469999998877 5667777789999998865543
No 182
>PF14979 TMEM52: Transmembrane 52
Probab=56.69 E-value=32 Score=25.11 Aligned_cols=28 Identities=32% Similarity=0.443 Sum_probs=11.1
Q ss_pred ehHHHHHHHHHHHHHHHH-HHHHHHHhhc
Q 043163 5 VILAALLCALICVLGLIA-VARCAWLRRL 32 (172)
Q Consensus 5 ii~~~~l~~li~vi~l~~-~~r~~~~r~~ 32 (172)
|++++++++++++-++.. ..|+.|+|+.
T Consensus 22 IwLill~~~llLLCG~ta~C~rfCClrk~ 50 (154)
T PF14979_consen 22 IWLILLIGFLLLLCGLTASCVRFCCLRKQ 50 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 333333333333333333 3444455443
No 183
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=56.56 E-value=27 Score=23.83 Aligned_cols=24 Identities=21% Similarity=0.434 Sum_probs=12.2
Q ss_pred ehHHHHHHHHHHHHHHHHHHHHHH
Q 043163 5 VILAALLCALICVLGLIAVARCAW 28 (172)
Q Consensus 5 ii~~~~l~~li~vi~l~~~~r~~~ 28 (172)
+++.+++.++++.+++++..+|-.
T Consensus 19 ~LVGVv~~al~~SlLIalaaKC~~ 42 (102)
T PF15176_consen 19 FLVGVVVTALVTSLLIALAAKCPV 42 (102)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhHH
Confidence 344455555555555555555533
No 184
>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=56.15 E-value=24 Score=21.37 Aligned_cols=45 Identities=29% Similarity=0.696 Sum_probs=32.4
Q ss_pred cccccccccccCCC-eeeecCCCC--CcccHhhHHHHHcCCCCcccccccccc
Q 043163 78 SDCAICLTEFVNGD-EIRVLPQCG--HGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 78 ~~C~ICL~~~~~~~-~~~~l~~C~--H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
..|-.|-.++..+. ..++ |. .-|+.+|.+.-| +..||.|-..|+.
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 35777877776655 3333 54 459999999976 6789999887764
No 185
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.97 E-value=3.6 Score=35.39 Aligned_cols=36 Identities=17% Similarity=0.480 Sum_probs=26.9
Q ss_pred cccccccccccCCCe-----eeecCCCCCcccHhhHHHHHcC
Q 043163 78 SDCAICLTEFVNGDE-----IRVLPQCGHGFHVACIDTWLGS 114 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~-----~~~l~~C~H~FH~~Ci~~Wl~~ 114 (172)
..||.|....+.+.. .... .|+|.||+.|+..|-..
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~-~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSA-SCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccC-CcCCeeceeeecccccc
Confidence 349999999987652 2222 39999999999888644
No 186
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=54.85 E-value=28 Score=21.75 Aligned_cols=20 Identities=15% Similarity=0.069 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 043163 13 ALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 13 ~li~vi~l~~~~r~~~~r~~ 32 (172)
+++.+++-+++.|.++...+
T Consensus 7 li~G~~~Gff~ar~~~~k~l 26 (64)
T PF03672_consen 7 LIVGAVIGFFIARKYMEKQL 26 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33344444444555555443
No 187
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=53.71 E-value=15 Score=21.31 Aligned_cols=14 Identities=21% Similarity=0.510 Sum_probs=5.9
Q ss_pred eeehHHHHHHHHHH
Q 043163 3 YVVILAALLCALIC 16 (172)
Q Consensus 3 ~~ii~~~~l~~li~ 16 (172)
+..+++++++++++
T Consensus 2 Wl~V~~iilg~~ll 15 (49)
T PF05624_consen 2 WLFVVLIILGALLL 15 (49)
T ss_pred eEEEeHHHHHHHHH
Confidence 33444444444333
No 188
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=53.41 E-value=2.5 Score=34.35 Aligned_cols=35 Identities=29% Similarity=0.538 Sum_probs=26.3
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHcC
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS 114 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~ 114 (172)
+|.+|+++|..+.....+. |.-+||..|+-.|+..
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred ecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 7999999987655555554 6668888888888754
No 189
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=53.24 E-value=9.7 Score=33.85 Aligned_cols=35 Identities=26% Similarity=0.572 Sum_probs=25.1
Q ss_pred CCccccccccccccC-----------CCeeeecCCCCCcccHhhHHHH
Q 043163 75 AKFSDCAICLTEFVN-----------GDEIRVLPQCGHGFHVACIDTW 111 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~-----------~~~~~~l~~C~H~FH~~Ci~~W 111 (172)
.....|+||-|.|+. .+.+.+. =|-+||..|+.+-
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 444579999999975 2334433 4789999998874
No 190
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=52.99 E-value=5.3 Score=36.31 Aligned_cols=37 Identities=24% Similarity=0.454 Sum_probs=29.9
Q ss_pred CCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 90 GDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 90 ~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
+-.+..+|.|.-+||.+=++.-...+..||.||..-.
T Consensus 1041 d~~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1041 DASITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred cchhhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 4456667778999999988888888999999998644
No 191
>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=52.84 E-value=23 Score=24.31 Aligned_cols=24 Identities=29% Similarity=0.715 Sum_probs=18.6
Q ss_pred CCcccHhhHHHHHcC---------CCCcccccc
Q 043163 100 GHGFHVACIDTWLGS---------HSSCPSCRQ 123 (172)
Q Consensus 100 ~H~FH~~Ci~~Wl~~---------~~~CP~CR~ 123 (172)
.=.|+..||..++.. +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988743 345999987
No 192
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=52.62 E-value=9.5 Score=35.07 Aligned_cols=48 Identities=25% Similarity=0.505 Sum_probs=31.8
Q ss_pred CCccccccccccccC---------CCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc
Q 043163 75 AKFSDCAICLTEFVN---------GDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV 126 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~---------~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~ 126 (172)
..+..|+-|-..|-. +....+++.|.|.-|..=|.. ...||+|...+.
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChhh
Confidence 344557666666532 234667778999999876544 467999976543
No 193
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=52.26 E-value=12 Score=31.06 Aligned_cols=46 Identities=24% Similarity=0.490 Sum_probs=31.2
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
...|-.|.++.......+-- .|.|.||.+|=.--=..=..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 34599997777666555544 49999999994332223356999963
No 194
>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=50.34 E-value=15 Score=25.55 Aligned_cols=20 Identities=20% Similarity=0.542 Sum_probs=14.2
Q ss_pred cCCCCccccccccccccccc
Q 043163 113 GSHSSCPSCRQILVVARCQK 132 (172)
Q Consensus 113 ~~~~~CP~CR~~l~~~~~~~ 132 (172)
.+...|+.|+++|.-++...
T Consensus 83 Gr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 83 GRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred chhhccCcCCCcCccCchhh
Confidence 34457999999998765443
No 195
>PLN02400 cellulose synthase
Probab=50.18 E-value=17 Score=34.83 Aligned_cols=49 Identities=20% Similarity=0.450 Sum_probs=33.7
Q ss_pred cccccccccccC---CCeeeecCCCCCcccHhhHHHHH-cCCCCccccccccc
Q 043163 78 SDCAICLTEFVN---GDEIRVLPQCGHGFHVACIDTWL-GSHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~---~~~~~~l~~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~l~ 126 (172)
..|-||=|++.. ++.-..+-.|+--.|+.|.+-=- ..++.||-|+...-
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 369999998753 44444444577779999984211 23678999988665
No 196
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=49.84 E-value=4.8 Score=25.11 Aligned_cols=15 Identities=20% Similarity=0.219 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHH
Q 043163 9 ALLCALICVLGLIAV 23 (172)
Q Consensus 9 ~~l~~li~vi~l~~~ 23 (172)
.++++++++++++++
T Consensus 17 G~Vvgll~ailLIlf 31 (64)
T PF01034_consen 17 GGVVGLLFAILLILF 31 (64)
T ss_dssp ---------------
T ss_pred HHHHHHHHHHHHHHH
Confidence 333344444444433
No 197
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.01 E-value=9.9 Score=30.90 Aligned_cols=38 Identities=16% Similarity=0.352 Sum_probs=27.4
Q ss_pred ccccccccccccCCCeeeecC-CCCCcccHhhHHHHHcCC
Q 043163 77 FSDCAICLTEFVNGDEIRVLP-QCGHGFHVACIDTWLGSH 115 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~-~C~H~FH~~Ci~~Wl~~~ 115 (172)
-..|.+|.|.+++..-|. +| -=.|.||.-|-.+-++.+
T Consensus 268 pLcCTLC~ERLEDTHFVQ-CPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCceee-cCCCcccceecccCHHHHHhh
Confidence 367999999997744332 11 125999999999988753
No 198
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=48.91 E-value=12 Score=27.89 Aligned_cols=24 Identities=29% Similarity=0.657 Sum_probs=15.2
Q ss_pred eeecCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 93 IRVLPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 93 ~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
+.+++.|||.+-. .....||+|.+
T Consensus 134 ~~vC~vCGy~~~g-------e~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHEG-------EAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCcccC-------CCCCcCCCCCC
Confidence 5666668877542 23456888865
No 199
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=48.88 E-value=18 Score=27.73 Aligned_cols=8 Identities=13% Similarity=0.123 Sum_probs=3.1
Q ss_pred HHHHHHHh
Q 043163 23 VARCAWLR 30 (172)
Q Consensus 23 ~~r~~~~r 30 (172)
+++..|-|
T Consensus 120 vlK~C~~~ 127 (205)
T PF15298_consen 120 VLKNCCAQ 127 (205)
T ss_pred hhhhhhhh
Confidence 33333433
No 200
>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=48.54 E-value=14 Score=32.27 Aligned_cols=39 Identities=28% Similarity=0.559 Sum_probs=22.0
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
..|+-||+++...+.-..-..|. +.| ..||.|-..|...
T Consensus 27 ~yCp~CL~~~p~~e~~~~~nrC~----r~C--------f~CP~C~~~L~~~ 65 (483)
T PF05502_consen 27 YYCPNCLFEVPSSEARSEKNRCS----RNC--------FDCPICFSPLSVR 65 (483)
T ss_pred eECccccccCChhhheeccceec----ccc--------ccCCCCCCcceeE
Confidence 35888888875543211111243 122 3489998888754
No 201
>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=48.38 E-value=9.4 Score=26.57 Aligned_cols=47 Identities=23% Similarity=0.340 Sum_probs=28.8
Q ss_pred CccccccccccccCC-CeeeecCCCCCcccHhhHHHHHcCCC--Ccccccc
Q 043163 76 KFSDCAICLTEFVNG-DEIRVLPQCGHGFHVACIDTWLGSHS--SCPSCRQ 123 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~-~~~~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~CR~ 123 (172)
.+..|++|...|.-- ..-.....|+|.+|..|-.. ..+.. .|-+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 456899999987532 12245556999999999554 11112 4888855
No 202
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=47.83 E-value=24 Score=33.83 Aligned_cols=49 Identities=20% Similarity=0.468 Sum_probs=34.5
Q ss_pred cccccccccccC---CCeeeecCCCCCcccHhhHHHHH-cCCCCccccccccc
Q 043163 78 SDCAICLTEFVN---GDEIRVLPQCGHGFHVACIDTWL-GSHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~---~~~~~~l~~C~H~FH~~Ci~~Wl-~~~~~CP~CR~~l~ 126 (172)
..|.||=|++.- ++.-..+-.|+-=.|+.|.+-=. ..++.||-|+...-
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 369999998753 45455555677779999984222 34678999988765
No 203
>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=47.66 E-value=32 Score=28.98 Aligned_cols=22 Identities=18% Similarity=0.240 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 043163 10 LLCALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 10 ~l~~li~vi~l~~~~r~~~~r~ 31 (172)
+++++++++++.+++|..++|+
T Consensus 306 ~~vli~vl~~~~~~~~~~~~~~ 327 (361)
T PF12259_consen 306 AIVLIIVLISLAWLYRTFRRRQ 327 (361)
T ss_pred HHHHHHHHHHHHhheeehHHHH
Confidence 3333344445555545444433
No 204
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=47.46 E-value=13 Score=25.02 Aligned_cols=16 Identities=19% Similarity=-0.074 Sum_probs=6.2
Q ss_pred eehHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLG 19 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~ 19 (172)
|-+++....+++++|+
T Consensus 42 WpyLA~GGG~iLilIi 57 (98)
T PF07204_consen 42 WPYLAAGGGLILILII 57 (98)
T ss_pred hHHhhccchhhhHHHH
Confidence 3344444333333333
No 205
>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=47.12 E-value=18 Score=24.18 Aligned_cols=38 Identities=24% Similarity=0.419 Sum_probs=29.5
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
..|+-|...+.--| ..| |-.|+..+..|..|++++...
T Consensus 34 S~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 34 SHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCChH
Confidence 45999988876533 345 888999999999999988743
No 206
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=46.98 E-value=32 Score=20.36 Aligned_cols=16 Identities=13% Similarity=0.600 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 043163 9 ALLCALICVLGLIAVA 24 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~ 24 (172)
.++.+++++++++++.
T Consensus 19 Li~A~vlfi~Gi~iil 34 (50)
T PF02038_consen 19 LIFAGVLFILGILIIL 34 (50)
T ss_dssp HHHHHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3444555555555553
No 207
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=46.69 E-value=23 Score=23.89 Aligned_cols=35 Identities=14% Similarity=0.370 Sum_probs=28.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS 114 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~ 114 (172)
-.|.||-..+..++....++ .-..|++|+.+=.++
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 46999999999999887776 667999999875543
No 208
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=46.41 E-value=22 Score=26.73 Aligned_cols=18 Identities=22% Similarity=0.508 Sum_probs=13.8
Q ss_pred HcCCCCcccccccccccc
Q 043163 112 LGSHSSCPSCRQILVVAR 129 (172)
Q Consensus 112 l~~~~~CP~CR~~l~~~~ 129 (172)
+.....||.|...|...+
T Consensus 133 ~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred hhcCCcCCCCCCCCeecc
Confidence 445788999999888643
No 209
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=46.40 E-value=32 Score=25.24 Aligned_cols=23 Identities=4% Similarity=0.018 Sum_probs=13.6
Q ss_pred CCCCccccccccccccCCCeeeec
Q 043163 73 SVAKFSDCAICLTEFVNGDEIRVL 96 (172)
Q Consensus 73 ~~~~~~~C~ICL~~~~~~~~~~~l 96 (172)
+...+...+++|-+-. ++.+.++
T Consensus 93 dmGg~LSFslAlLD~~-~nGvVlt 115 (151)
T PF14584_consen 93 DMGGDLSFSLALLDDN-NNGVVLT 115 (151)
T ss_pred cccccceeeeEEEeCC-CCEEEEE
Confidence 3566777888877643 3344444
No 210
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=46.24 E-value=55 Score=22.24 Aligned_cols=9 Identities=0% Similarity=-0.201 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 043163 15 ICVLGLIAV 23 (172)
Q Consensus 15 i~vi~l~~~ 23 (172)
+.++.+...
T Consensus 34 l~c~c~~~~ 42 (102)
T PF11669_consen 34 LSCCCACRH 42 (102)
T ss_pred HHHHHHHHH
Confidence 334444433
No 211
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=46.23 E-value=45 Score=24.64 Aligned_cols=18 Identities=39% Similarity=0.456 Sum_probs=8.4
Q ss_pred eeehHHHHHHHHHHHHHH
Q 043163 3 YVVILAALLCALICVLGL 20 (172)
Q Consensus 3 ~~ii~~~~l~~li~vi~l 20 (172)
+++|++++++++++++.+
T Consensus 2 l~vil~~iv~il~lvl~~ 19 (175)
T COG4741 2 LIVILILIVFILALVLYL 19 (175)
T ss_pred ceeHHHHHHHHHHHHHHH
Confidence 345555555444444433
No 212
>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=45.86 E-value=2.3 Score=34.35 Aligned_cols=45 Identities=20% Similarity=0.298 Sum_probs=19.9
Q ss_pred cccccccccccCCCeeeecC--CCCCcccHhhHHHHHcCCCCcccccc
Q 043163 78 SDCAICLTEFVNGDEIRVLP--QCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~--~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
..||||=..-.-. .++... .=.|.+|.-|-.+|--.+..||.|-.
T Consensus 173 g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 173 GYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 4699998764221 111110 12466788888888777889999944
No 213
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.84 E-value=6.8 Score=28.21 Aligned_cols=68 Identities=26% Similarity=0.442 Sum_probs=33.2
Q ss_pred CCCccccccccc-cccCCCeeeecCCCCCcccHhhHHHH-HcCCC---CcccccccccccccccCCCCCCCCCCCC
Q 043163 74 VAKFSDCAICLT-EFVNGDEIRVLPQCGHGFHVACIDTW-LGSHS---SCPSCRQILVVARCQKCGGFPASSSSSS 144 (172)
Q Consensus 74 ~~~~~~C~ICL~-~~~~~~~~~~l~~C~H~FH~~Ci~~W-l~~~~---~CP~CR~~l~~~~~~~~~~~~~~~~~~~ 144 (172)
...+..|.||+. .|.++-.-.-.- |.-.||..|--+- ++.+. .|-+|+.... -+.|.|.-.-++.+++
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~Y-Cq~r~CARCGGrv~lrsNKv~wvcnlc~k~q~--il~ksg~wf~~sgs~~ 134 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSY-CQTRFCARCGGRVSLRSNKVMWVCNLCRKQQE--ILTKSGAWFYNSGSNT 134 (169)
T ss_pred cCcCcchhhhhhcccccccCcccch-hhhhHHHhcCCeeeeccCceEEeccCCcHHHH--HHHhcchHHHhcCCCC
Confidence 456678999997 454421111111 3333444443332 22222 4888976432 2356665554444433
No 214
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=45.53 E-value=29 Score=22.56 Aligned_cols=49 Identities=18% Similarity=0.426 Sum_probs=20.0
Q ss_pred cccccccccccC---CCeeeecCCCCCcccHhhHHHHHc-CCCCccccccccc
Q 043163 78 SDCAICLTEFVN---GDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~---~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 126 (172)
..|.||-+++.- ++.....-.|+--.++.|++-=.+ .++.||-|+...-
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 469999998753 343333335777789999875554 4678999997655
No 215
>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=44.99 E-value=10 Score=20.71 Aligned_cols=31 Identities=26% Similarity=0.613 Sum_probs=18.8
Q ss_pred ecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 95 VLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 95 ~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
+.+.||++||..=--+ +....|..|...|..
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 4456999999432111 234568888876653
No 216
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=44.52 E-value=20 Score=24.46 Aligned_cols=33 Identities=18% Similarity=0.342 Sum_probs=27.2
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHHHc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLG 113 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~ 113 (172)
.|.||-+++-.|+....+. +-..|+.|+..=..
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHHh
Confidence 5999999999988887776 37899999987543
No 217
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=44.28 E-value=39 Score=22.95 Aligned_cols=15 Identities=27% Similarity=0.436 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 043163 9 ALLCALICVLGLIAV 23 (172)
Q Consensus 9 ~~l~~li~vi~l~~~ 23 (172)
.++++++|+|.+++-
T Consensus 20 A~L~i~~FiILLIi~ 34 (121)
T PF10669_consen 20 AFLFIVVFIILLIIT 34 (121)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444443
No 218
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=43.99 E-value=42 Score=20.95 Aligned_cols=21 Identities=19% Similarity=0.282 Sum_probs=10.0
Q ss_pred eehHHHHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLIAVA 24 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~ 24 (172)
++++.+.-.+++++++.++++
T Consensus 15 IVLlvV~g~ll~flvGnyvlY 35 (69)
T PF04689_consen 15 IVLLVVAGLLLVFLVGNYVLY 35 (69)
T ss_pred EEeehHHHHHHHHHHHHHHHH
Confidence 344444444445555555543
No 219
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=43.79 E-value=16 Score=18.89 Aligned_cols=29 Identities=21% Similarity=0.432 Sum_probs=19.3
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhH
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACI 108 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci 108 (172)
.|.+|-.+..... ......|...+|..|.
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 4888877765533 5555558877887773
No 220
>PF15353 HECA: Headcase protein family homologue
Probab=43.59 E-value=15 Score=25.22 Aligned_cols=13 Identities=31% Similarity=0.976 Sum_probs=11.9
Q ss_pred CCCcccHhhHHHH
Q 043163 99 CGHGFHVACIDTW 111 (172)
Q Consensus 99 C~H~FH~~Ci~~W 111 (172)
.++..|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 4789999999999
No 221
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=43.42 E-value=19 Score=24.35 Aligned_cols=32 Identities=25% Similarity=0.479 Sum_probs=21.8
Q ss_pred ccccccccccccCCCeeeecCC--CCCcccHhhHHHH
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQ--CGHGFHVACIDTW 111 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~--C~H~FH~~Ci~~W 111 (172)
...|.||.... +- .+.... |...||..|....
T Consensus 55 ~~~C~iC~~~~--G~-~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSG--GA-CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCC--ce-eEEcCCCCCCcCCCHHHHHHC
Confidence 35799999883 22 223332 8889999998663
No 222
>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=43.30 E-value=5.2 Score=22.56 Aligned_cols=25 Identities=32% Similarity=0.703 Sum_probs=15.1
Q ss_pred CCCCcccHhhHHHHHcCCCCcccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
.|||.|...--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48888875431111 23456999987
No 223
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=42.81 E-value=26 Score=25.76 Aligned_cols=19 Identities=21% Similarity=0.496 Sum_probs=13.9
Q ss_pred HcCCCCccccccccccccc
Q 043163 112 LGSHSSCPSCRQILVVARC 130 (172)
Q Consensus 112 l~~~~~CP~CR~~l~~~~~ 130 (172)
+.....||.|...|...+.
T Consensus 125 ~~~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 125 MELNFTCPRCGAMLDYLDN 143 (158)
T ss_pred HHcCCcCCCCCCEeeeccC
Confidence 3457889999988875443
No 224
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.04 E-value=9 Score=31.32 Aligned_cols=49 Identities=24% Similarity=0.577 Sum_probs=36.7
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQIL 125 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 125 (172)
......|.||...+.-.. +.. .|.|.|+..|...|......||.|+...
T Consensus 102 ~~~~~~~~~~~g~l~vpt--~~q-g~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPT--RIQ-GCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred cCCccceeeeeeeEEecc--ccc-CceeeeeecCCchhhhhhhccchhhcCc
Confidence 345567999988774322 122 4999999999999999888999998744
No 225
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.69 E-value=38 Score=30.88 Aligned_cols=45 Identities=27% Similarity=0.589 Sum_probs=32.6
Q ss_pred ccccccccccCCCeeeecCCCCC-cccHhhHHHHH--cC----CCCcccccccccc
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGH-GFHVACIDTWL--GS----HSSCPSCRQILVV 127 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H-~FH~~Ci~~Wl--~~----~~~CP~CR~~l~~ 127 (172)
.|+||-..+ .+.....||| ..+..|..+.. .+ ...||+||..+..
T Consensus 2 ~c~ic~~s~----~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSP----DFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCc----cccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 489998776 3344445999 79999998864 33 3457999997773
No 226
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=40.57 E-value=15 Score=29.39 Aligned_cols=41 Identities=24% Similarity=0.377 Sum_probs=30.6
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCcccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPSC 121 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~C 121 (172)
..|||=+..+.. .++-. .|||+|-++=|...+.. ...||+=
T Consensus 177 ~rdPis~~~I~n--PviSk-kC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVN--PVISK-KCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhc--hhhhc-CcCcchhhhhHHHHhccCceeecccc
Confidence 459998888766 45544 49999999999998865 3457763
No 227
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=40.55 E-value=19 Score=28.56 Aligned_cols=25 Identities=20% Similarity=0.538 Sum_probs=19.2
Q ss_pred cccccccccccCCCeeeecCCCCCcc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGF 103 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~F 103 (172)
..||+|-..+...+.-..+. .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 36999999997666555665 68988
No 228
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=40.25 E-value=15 Score=25.26 Aligned_cols=12 Identities=25% Similarity=0.708 Sum_probs=8.7
Q ss_pred ccccccccccCC
Q 043163 79 DCAICLTEFVNG 90 (172)
Q Consensus 79 ~C~ICL~~~~~~ 90 (172)
-|+.|-++|.-.
T Consensus 5 ~cp~c~sEytYe 16 (112)
T COG2824 5 PCPKCNSEYTYE 16 (112)
T ss_pred CCCccCCceEEe
Confidence 488888887543
No 229
>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=38.49 E-value=24 Score=28.36 Aligned_cols=42 Identities=26% Similarity=0.483 Sum_probs=23.5
Q ss_pred cccccccccccCCCeeeecCCCC-CcccHhhHHHH-HcCCCCcc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCG-HGFHVACIDTW-LGSHSSCP 119 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~-H~FH~~Ci~~W-l~~~~~CP 119 (172)
..|.||++---++-.---|..=. =.=|++|++.| +..+..||
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 45888877543321111111011 13689999999 45677788
No 230
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=38.23 E-value=15 Score=34.21 Aligned_cols=49 Identities=22% Similarity=0.433 Sum_probs=33.3
Q ss_pred CccccccccccccCCCeeeecCCCCCcccHhhHHHHHcC------CCCccccccccc
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS------HSSCPSCRQILV 126 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~ 126 (172)
...-|..|.-..-+ ...+++.|+|.+|-.|+..|... -..|++||..=.
T Consensus 228 ~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~ 282 (889)
T KOG1356|consen 228 IREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCN 282 (889)
T ss_pred cchhhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcC
Confidence 34458888775422 46677789999999999999521 124777765433
No 231
>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=38.06 E-value=52 Score=25.08 Aligned_cols=18 Identities=17% Similarity=0.141 Sum_probs=7.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIAV 23 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~ 23 (172)
|+++++++++.+++.+++
T Consensus 3 ii~~i~~~~vG~~~G~~~ 20 (201)
T PF12072_consen 3 IIIAIVALIVGIGIGYLV 20 (201)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444443433333333
No 232
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=38.04 E-value=15 Score=29.05 Aligned_cols=40 Identities=25% Similarity=0.411 Sum_probs=29.7
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHHHHcC--CCCccc
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGS--HSSCPS 120 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~ 120 (172)
..|+|-+..+.. .+.-. .|+|.|-.+-|...++. ...||.
T Consensus 190 nrCpitl~p~~~--pils~-kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 190 NRCPITLNPDFY--PILSS-KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred ccCCcccCcchh--HHHHh-hhcccccHHHHHHHhcCCceeecch
Confidence 469999988754 33333 59999999999999885 345664
No 233
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.92 E-value=15 Score=24.54 Aligned_cols=12 Identities=25% Similarity=0.891 Sum_probs=10.6
Q ss_pred ccHhhHHHHHcC
Q 043163 103 FHVACIDTWLGS 114 (172)
Q Consensus 103 FH~~Ci~~Wl~~ 114 (172)
||..|+..|++.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999853
No 234
>PRK11827 hypothetical protein; Provisional
Probab=37.62 E-value=9 Score=23.60 Aligned_cols=19 Identities=32% Similarity=0.471 Sum_probs=14.4
Q ss_pred HHHHcCCCCcccccccccc
Q 043163 109 DTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 109 ~~Wl~~~~~CP~CR~~l~~ 127 (172)
+.||..--.||+|+.+|.-
T Consensus 2 d~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWY 20 (60)
T ss_pred ChHHHhheECCCCCCcCeE
Confidence 3566666789999998874
No 235
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=37.52 E-value=19 Score=35.09 Aligned_cols=13 Identities=23% Similarity=0.570 Sum_probs=7.7
Q ss_pred CCccccccccccc
Q 043163 116 SSCPSCRQILVVA 128 (172)
Q Consensus 116 ~~CP~CR~~l~~~ 128 (172)
..||.|+..+...
T Consensus 693 y~CPsCGaev~~d 705 (1337)
T PRK14714 693 YVCPDCGAEVPPD 705 (1337)
T ss_pred eeCccCCCccCCC
Confidence 3566666665544
No 236
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=36.74 E-value=18 Score=31.86 Aligned_cols=61 Identities=21% Similarity=0.457 Sum_probs=42.3
Q ss_pred cccccccccc-CCCeeeecCCCCCcccHhhHHHH-----HcC-------CCCcccccccccccccccCCCCCCC
Q 043163 79 DCAICLTEFV-NGDEIRVLPQCGHGFHVACIDTW-----LGS-------HSSCPSCRQILVVARCQKCGGFPAS 139 (172)
Q Consensus 79 ~C~ICL~~~~-~~~~~~~l~~C~H~FH~~Ci~~W-----l~~-------~~~CP~CR~~l~~~~~~~~~~~~~~ 139 (172)
-|-+||.+-. +.+.+.....||-..|..|+--- ... ...|--|+.-+..+.+.-|.+.++.
T Consensus 121 iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~Gi 194 (707)
T KOG0957|consen 121 ICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRFGI 194 (707)
T ss_pred EEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcCCc
Confidence 4999998653 33466677779999999997543 111 1138888888887778777776654
No 237
>KOG4007 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.20 E-value=62 Score=24.87 Aligned_cols=27 Identities=11% Similarity=0.214 Sum_probs=13.0
Q ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHh
Q 043163 4 VVILAALLCALICVLGLIAVARCAWLR 30 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r~~~~r 30 (172)
++|++.++.++++.++|++..--..++
T Consensus 137 vIivi~ii~iL~lYMvfLmcldPlLrK 163 (229)
T KOG4007|consen 137 VIIVISIIGILLLYMVFLMCLDPLLRK 163 (229)
T ss_pred EeehHHHHHHHHHHHHHHHhhhHHHhh
Confidence 445555555555555555543333333
No 238
>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=35.61 E-value=1.3e+02 Score=23.76 Aligned_cols=26 Identities=12% Similarity=-0.008 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccC
Q 043163 9 ALLCALICVLGLIAVARCAWLRRLSG 34 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~r~~~~r~~~~ 34 (172)
-+++++|++.++.+++.-.|+..+..
T Consensus 192 pvvIaliVitl~vf~LvgLyr~C~k~ 217 (259)
T PF07010_consen 192 PVVIALIVITLSVFTLVGLYRMCWKT 217 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 33333333333333333444444443
No 239
>PF11174 DUF2970: Protein of unknown function (DUF2970); InterPro: IPR021344 This short family is conserved in Proteobacteria. The function is not known.
Probab=35.40 E-value=80 Score=19.05 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=12.8
Q ss_pred eehHHHHHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLIAVAR 25 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r 25 (172)
-+|+..++.++++++.++.+.+
T Consensus 32 ~~Ii~gii~~~~fV~~Lv~lV~ 53 (56)
T PF11174_consen 32 HFIIVGIILAALFVAGLVLLVN 53 (56)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666665543
No 240
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=34.95 E-value=49 Score=23.90 Aligned_cols=15 Identities=27% Similarity=0.332 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHHH
Q 043163 7 LAALLCALICVLGLI 21 (172)
Q Consensus 7 ~~~~l~~li~vi~l~ 21 (172)
+..+++++.++++++
T Consensus 28 ~gsL~~iL~lil~~~ 42 (137)
T COG3190 28 FGSLILILALILFLA 42 (137)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 241
>PRK01741 cell division protein ZipA; Provisional
Probab=34.91 E-value=1.2e+02 Score=25.35 Aligned_cols=22 Identities=23% Similarity=0.135 Sum_probs=10.2
Q ss_pred CeeehHHHHHHHHHHHHHHHHH
Q 043163 2 DYVVILAALLCALICVLGLIAV 23 (172)
Q Consensus 2 ~~~ii~~~~l~~li~vi~l~~~ 23 (172)
|+-+|++|+.++++++++..-+
T Consensus 2 dLn~iliILg~lal~~Lv~hgi 23 (332)
T PRK01741 2 DLNTILIILGILALVALVAHGI 23 (332)
T ss_pred cceehHHHHHHHHHHHHHHhhh
Confidence 3445555555444444444433
No 242
>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=34.91 E-value=10 Score=22.67 Aligned_cols=12 Identities=25% Similarity=0.905 Sum_probs=5.0
Q ss_pred Cccccccccccc
Q 043163 117 SCPSCRQILVVA 128 (172)
Q Consensus 117 ~CP~CR~~l~~~ 128 (172)
+||+|.+.+...
T Consensus 26 tCP~C~a~~~~s 37 (54)
T PF09237_consen 26 TCPICGAVIRQS 37 (54)
T ss_dssp E-TTT--EESSH
T ss_pred CCCcchhhccch
Confidence 477776655543
No 243
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=34.87 E-value=27 Score=33.49 Aligned_cols=36 Identities=25% Similarity=0.505 Sum_probs=28.3
Q ss_pred CCCcccccccccc-ccCCCeeeecCCCCCcccHhhHH
Q 043163 74 VAKFSDCAICLTE-FVNGDEIRVLPQCGHGFHVACID 109 (172)
Q Consensus 74 ~~~~~~C~ICL~~-~~~~~~~~~l~~C~H~FH~~Ci~ 109 (172)
...+..|.||++- -.+.+.+..+..|+=..|.+|+.
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 5667789999994 33445677777899999999988
No 244
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=34.70 E-value=28 Score=22.48 Aligned_cols=32 Identities=25% Similarity=0.457 Sum_probs=21.5
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHH
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDT 110 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~ 110 (172)
..|.+|-...-..-....- .|.-.||..|...
T Consensus 37 ~~C~~C~~~~Ga~i~C~~~-~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCSHP-GCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCCCeEEEEeCC-CCCcEEChHHHcc
Confidence 3699999774222233333 4999999999765
No 245
>PRK11677 hypothetical protein; Provisional
Probab=34.64 E-value=57 Score=23.46 Aligned_cols=19 Identities=11% Similarity=-0.036 Sum_probs=7.7
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIAVA 24 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~ 24 (172)
|+++++++++.+++-+++.
T Consensus 3 W~~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 246
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=34.24 E-value=17 Score=18.66 Aligned_cols=11 Identities=45% Similarity=1.017 Sum_probs=6.2
Q ss_pred Ccccccccccc
Q 043163 117 SCPSCRQILVV 127 (172)
Q Consensus 117 ~CP~CR~~l~~ 127 (172)
+||.|.+.|..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 49999888883
No 247
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=34.16 E-value=72 Score=19.20 Aligned_cols=10 Identities=30% Similarity=0.345 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 043163 15 ICVLGLIAVA 24 (172)
Q Consensus 15 i~vi~l~~~~ 24 (172)
-++++=++++
T Consensus 14 gvIigNia~L 23 (55)
T PF11446_consen 14 GVIIGNIAAL 23 (55)
T ss_pred HHHHhHHHHH
Confidence 3334444443
No 248
>PF15069 FAM163: FAM163 family
Probab=33.72 E-value=47 Score=24.15 Aligned_cols=6 Identities=67% Similarity=1.796 Sum_probs=3.1
Q ss_pred CCcccc
Q 043163 116 SSCPSC 121 (172)
Q Consensus 116 ~~CP~C 121 (172)
..||.|
T Consensus 92 ~~CptC 97 (143)
T PF15069_consen 92 SYCPTC 97 (143)
T ss_pred CcCCCC
Confidence 345555
No 249
>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=33.58 E-value=28 Score=21.38 Aligned_cols=13 Identities=46% Similarity=0.935 Sum_probs=9.5
Q ss_pred CCCcccccccccc
Q 043163 115 HSSCPSCRQILVV 127 (172)
Q Consensus 115 ~~~CP~CR~~l~~ 127 (172)
+..||+|+..+..
T Consensus 2 k~~CPlCkt~~n~ 14 (61)
T PF05715_consen 2 KSLCPLCKTTLNV 14 (61)
T ss_pred CccCCcccchhhc
Confidence 4568999887754
No 250
>PF15616 TerY-C: TerY-C metal binding domain
Probab=33.48 E-value=21 Score=25.63 Aligned_cols=44 Identities=20% Similarity=0.479 Sum_probs=31.2
Q ss_pred CCCccccccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 74 VAKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 74 ~~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
+....-||-|-..+ -+.+.. ||++||.+= ....+||-|.+....
T Consensus 74 L~g~PgCP~CGn~~----~fa~C~-CGkl~Ci~g-----~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 74 LIGAPGCPHCGNQY----AFAVCG-CGKLFCIDG-----EGEVTCPWCGNEGSF 117 (131)
T ss_pred hcCCCCCCCCcChh----cEEEec-CCCEEEeCC-----CCCEECCCCCCeeee
Confidence 45557799998886 455665 999998432 235679999776654
No 251
>PRK08455 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=33.45 E-value=55 Score=24.69 Aligned_cols=19 Identities=26% Similarity=0.681 Sum_probs=8.1
Q ss_pred eehHHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLIA 22 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~ 22 (172)
++|++++++++++..++++
T Consensus 20 ~~iIi~~~llll~~~G~~~ 38 (182)
T PRK08455 20 LIIIIGVVVLLLLIVGVIA 38 (182)
T ss_pred EEehHHHHHHHHHHHHHHH
Confidence 3344444444444444333
No 252
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=33.43 E-value=23 Score=26.00 Aligned_cols=6 Identities=33% Similarity=1.016 Sum_probs=3.4
Q ss_pred ccccccc
Q 043163 80 CAICLTE 86 (172)
Q Consensus 80 C~ICL~~ 86 (172)
| +|.++
T Consensus 114 C-~c~eD 119 (153)
T KOG3352|consen 114 C-GCEED 119 (153)
T ss_pred e-cccCC
Confidence 5 66554
No 253
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=32.53 E-value=37 Score=29.57 Aligned_cols=49 Identities=18% Similarity=0.438 Sum_probs=33.1
Q ss_pred Cccccccccc-cccCCCeeeecCCCCCcccHhhHHHHHcC--------CCCccccccc
Q 043163 76 KFSDCAICLT-EFVNGDEIRVLPQCGHGFHVACIDTWLGS--------HSSCPSCRQI 124 (172)
Q Consensus 76 ~~~~C~ICL~-~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~ 124 (172)
....|.+|.. ..-....+..+..|+--||..|....... ...|=+|...
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 3445999995 33344566666678899999998876431 2348888553
No 254
>PLN02248 cellulose synthase-like protein
Probab=32.42 E-value=66 Score=31.17 Aligned_cols=34 Identities=24% Similarity=0.504 Sum_probs=27.8
Q ss_pred eeecCCCCCcccHhhHHHHHcCCCCcccccccccc
Q 043163 93 IRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVV 127 (172)
Q Consensus 93 ~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~ 127 (172)
+.-+ +|++..|++|...-++....||-|+.+.-.
T Consensus 145 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 145 LLPC-ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred CCcc-cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 3334 388999999999999998999999887743
No 255
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.26 E-value=7 Score=31.47 Aligned_cols=49 Identities=31% Similarity=0.457 Sum_probs=36.6
Q ss_pred ccccccccccccCC--C-eeeecCC-------CCCcccHhhHHHHHcC-CCCcccccccc
Q 043163 77 FSDCAICLTEFVNG--D-EIRVLPQ-------CGHGFHVACIDTWLGS-HSSCPSCRQIL 125 (172)
Q Consensus 77 ~~~C~ICL~~~~~~--~-~~~~l~~-------C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l 125 (172)
...|.||...|... . ..+++.. |+|..+..|+..-+.. ...||.||...
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 35699999999832 2 3344433 9999999999998754 46899998753
No 256
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=31.72 E-value=33 Score=29.48 Aligned_cols=48 Identities=27% Similarity=0.677 Sum_probs=29.1
Q ss_pred ccccccccccC----CCeeeecCCCCCcccHhhHHHHHcCCCCccccccccc-ccccccCCC
Q 043163 79 DCAICLTEFVN----GDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILV-VARCQKCGG 135 (172)
Q Consensus 79 ~C~ICL~~~~~----~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~-~~~~~~~~~ 135 (172)
.|++|-+.+.. ++.+++.. =..-||.+|+ .|=-|+-.|. +.+-+-|+.
T Consensus 396 rCs~C~~PI~P~~G~~etvRvva-mdr~fHv~CY--------~CEDCg~~LS~e~e~qgCyP 448 (468)
T KOG1701|consen 396 RCSVCGNPILPRDGKDETVRVVA-MDRDFHVNCY--------KCEDCGLLLSSEEEGQGCYP 448 (468)
T ss_pred chhhccCCccCCCCCcceEEEEE-ccccccccce--------ehhhcCccccccCCCCccee
Confidence 48888887764 33667663 4566888873 3555666655 444444443
No 257
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=31.31 E-value=26 Score=25.08 Aligned_cols=22 Identities=27% Similarity=0.537 Sum_probs=15.1
Q ss_pred cccccccccCCCeeeecCCCCCcccH
Q 043163 80 CAICLTEFVNGDEIRVLPQCGHGFHV 105 (172)
Q Consensus 80 C~ICL~~~~~~~~~~~l~~C~H~FH~ 105 (172)
=-||.+. +..+..+. |||.|+.
T Consensus 60 lfi~qs~---~~rv~rce-cghsf~d 81 (165)
T COG4647 60 LFICQSA---QKRVIRCE-CGHSFGD 81 (165)
T ss_pred EEEEecc---cccEEEEe-ccccccC
Confidence 4566654 33477776 9999985
No 258
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=31.09 E-value=9.8 Score=18.88 Aligned_cols=14 Identities=29% Similarity=0.679 Sum_probs=7.6
Q ss_pred Cccccccccccccc
Q 043163 117 SCPSCRQILVVARC 130 (172)
Q Consensus 117 ~CP~CR~~l~~~~~ 130 (172)
.||+|.+.+...++
T Consensus 4 ~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 4 PCPICGRKFNPDRL 17 (25)
T ss_pred cCCCCCCEECHHHH
Confidence 46666555554433
No 259
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=30.95 E-value=73 Score=22.60 Aligned_cols=23 Identities=13% Similarity=0.171 Sum_probs=12.2
Q ss_pred ehHHHHHHHHHHHHHHHHHHHHH
Q 043163 5 VILAALLCALICVLGLIAVARCA 27 (172)
Q Consensus 5 ii~~~~l~~li~vi~l~~~~r~~ 27 (172)
-+.+.++.+++++|+++++.|-+
T Consensus 36 NysiL~Ls~vvlvi~~~LLgrsi 58 (125)
T PF15048_consen 36 NYSILALSFVVLVISFFLLGRSI 58 (125)
T ss_pred chHHHHHHHHHHHHHHHHHHHHh
Confidence 34445555555666666655443
No 260
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=30.75 E-value=21 Score=19.77 Aligned_cols=12 Identities=33% Similarity=0.755 Sum_probs=8.5
Q ss_pred Cccccccccccc
Q 043163 117 SCPSCRQILVVA 128 (172)
Q Consensus 117 ~CP~CR~~l~~~ 128 (172)
+||.|+..|...
T Consensus 1 ~CP~C~~~l~~~ 12 (41)
T PF13453_consen 1 KCPRCGTELEPV 12 (41)
T ss_pred CcCCCCcccceE
Confidence 488888866543
No 261
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=30.52 E-value=20 Score=22.04 Aligned_cols=11 Identities=45% Similarity=1.093 Sum_probs=9.0
Q ss_pred Ccccccccccc
Q 043163 117 SCPSCRQILVV 127 (172)
Q Consensus 117 ~CP~CR~~l~~ 127 (172)
.||+||.+|..
T Consensus 10 aCP~~kg~L~~ 20 (60)
T COG2835 10 ACPVCKGPLVY 20 (60)
T ss_pred eccCcCCcceE
Confidence 59999998764
No 262
>PRK04023 DNA polymerase II large subunit; Validated
Probab=30.51 E-value=22 Score=33.85 Aligned_cols=22 Identities=32% Similarity=0.516 Sum_probs=11.6
Q ss_pred CccccccccccccCCCeeeecCCCCC
Q 043163 76 KFSDCAICLTEFVNGDEIRVLPQCGH 101 (172)
Q Consensus 76 ~~~~C~ICL~~~~~~~~~~~l~~C~H 101 (172)
....|+=|=... ....+|.||.
T Consensus 625 g~RfCpsCG~~t----~~frCP~CG~ 646 (1121)
T PRK04023 625 GRRKCPSCGKET----FYRRCPFCGT 646 (1121)
T ss_pred cCccCCCCCCcC----CcccCCCCCC
Confidence 334577776653 2244555663
No 263
>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=30.46 E-value=22 Score=17.85 Aligned_cols=10 Identities=30% Similarity=0.846 Sum_probs=7.2
Q ss_pred Cccccccccc
Q 043163 117 SCPSCRQILV 126 (172)
Q Consensus 117 ~CP~CR~~l~ 126 (172)
.||+|...+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5899976653
No 264
>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=30.43 E-value=12 Score=30.72 Aligned_cols=45 Identities=18% Similarity=0.318 Sum_probs=27.7
Q ss_pred cccccccccccCCCeeeec---CCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 78 SDCAICLTEFVNGDEIRVL---PQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l---~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
..||||-..-... .++.. ..=.|.+|.-|-.+|--.+..||.|-.
T Consensus 185 ~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 185 TLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4699998753211 11110 112255677788888777889999954
No 265
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.18 E-value=38 Score=27.10 Aligned_cols=32 Identities=16% Similarity=0.321 Sum_probs=22.4
Q ss_pred CCccccccccccccCCCeeeecCCCCCcccHhhHH
Q 043163 75 AKFSDCAICLTEFVNGDEIRVLPQCGHGFHVACID 109 (172)
Q Consensus 75 ~~~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~ 109 (172)
.....|+.|-. + ......++.|||.+|.+=..
T Consensus 307 ~tS~~C~~cg~-~--~~r~~~C~~cg~~~~rD~na 338 (364)
T COG0675 307 YTSKTCPCCGH-L--SGRLFKCPRCGFVHDRDVNA 338 (364)
T ss_pred CCcccccccCC-c--cceeEECCCCCCeehhhHHH
Confidence 33457999988 3 23556677799999998433
No 266
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=30.13 E-value=71 Score=22.90 Aligned_cols=20 Identities=10% Similarity=-0.019 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 043163 10 LLCALICVLGLIAVARCAWL 29 (172)
Q Consensus 10 ~l~~li~vi~l~~~~r~~~~ 29 (172)
++.+.++.++-++.+|....
T Consensus 15 ~vli~l~~IGGfFMFRKFLK 34 (141)
T PF11084_consen 15 VVLIGLMAIGGFFMFRKFLK 34 (141)
T ss_pred HHHHHHHHHhHHHHHHHHHH
Confidence 33333444444444444443
No 267
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=30.12 E-value=44 Score=27.15 Aligned_cols=31 Identities=19% Similarity=0.493 Sum_probs=16.7
Q ss_pred eeeecCCCCCcccHhhHHHHHcCCCCcccccccc
Q 043163 92 EIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQIL 125 (172)
Q Consensus 92 ~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 125 (172)
.+..+|.|+++.+..=+.. +...||.|...+
T Consensus 27 lw~KCp~c~~~~y~~eL~~---n~~vcp~c~~h~ 57 (294)
T COG0777 27 LWTKCPSCGEMLYRKELES---NLKVCPKCGHHM 57 (294)
T ss_pred ceeECCCccceeeHHHHHh---hhhcccccCccc
Confidence 3555666776655444333 234577776543
No 268
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=29.94 E-value=73 Score=19.59 Aligned_cols=20 Identities=25% Similarity=0.159 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 043163 12 CALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 12 ~~li~vi~l~~~~r~~~~r~ 31 (172)
+++++.++++.+..+.+++.
T Consensus 14 ~t~~~~l~fiavi~~ayr~~ 33 (60)
T COG4736 14 GTIAFTLFFIAVIYFAYRPG 33 (60)
T ss_pred HHHHHHHHHHHHHHHHhccc
Confidence 33334444444444444443
No 269
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=29.23 E-value=1.1e+02 Score=21.63 Aligned_cols=32 Identities=13% Similarity=0.256 Sum_probs=17.8
Q ss_pred CeeehHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 043163 2 DYVVILAALLCALICVLGLIAVARCAWLRRLS 33 (172)
Q Consensus 2 ~~~ii~~~~l~~li~vi~l~~~~r~~~~r~~~ 33 (172)
||.++.+.+++++|.++++..-++..+.|+..
T Consensus 36 NysiL~Ls~vvlvi~~~LLgrsi~ANRnrK~~ 67 (125)
T PF15048_consen 36 NYSILALSFVVLVISFFLLGRSIQANRNRKMQ 67 (125)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhHhccccccc
Confidence 45556666666666665555555555544443
No 270
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=29.16 E-value=1.7e+02 Score=20.02 Aligned_cols=16 Identities=6% Similarity=0.231 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 043163 7 LAALLCALICVLGLIA 22 (172)
Q Consensus 7 ~~~~l~~li~vi~l~~ 22 (172)
++++++++++++++++
T Consensus 56 ~~~~~~w~~~A~~ly~ 71 (103)
T PF11027_consen 56 FMMMMLWMVLAMALYL 71 (103)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444443
No 271
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=28.89 E-value=36 Score=24.48 Aligned_cols=23 Identities=22% Similarity=0.615 Sum_probs=16.4
Q ss_pred ecCCCCCcccHhhHHHHHcCCCCcccccccc
Q 043163 95 VLPQCGHGFHVACIDTWLGSHSSCPSCRQIL 125 (172)
Q Consensus 95 ~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l 125 (172)
.++.|||+|+- -+..||.|.+.-
T Consensus 31 kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEcC--------CcccCCCCCCCC
Confidence 34469999873 456699998773
No 272
>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=28.84 E-value=38 Score=26.62 Aligned_cols=22 Identities=18% Similarity=0.443 Sum_probs=15.5
Q ss_pred ccHhhHHHHHcCCCCccccccc
Q 043163 103 FHVACIDTWLGSHSSCPSCRQI 124 (172)
Q Consensus 103 FH~~Ci~~Wl~~~~~CP~CR~~ 124 (172)
-|..|-..-=++-..||+|++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 3456766655677889999764
No 273
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=28.53 E-value=2e+02 Score=20.75 Aligned_cols=26 Identities=31% Similarity=0.264 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 043163 7 LAALLCALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 7 ~~~~l~~li~vi~l~~~~r~~~~r~~ 32 (172)
++-+++.++++++++.+..|..+|-.
T Consensus 24 ~~~~~gsL~~iL~lil~~~wl~kr~~ 49 (137)
T COG3190 24 LAQMFGSLILILALILFLAWLVKRLG 49 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45677788888888887776665544
No 274
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=28.34 E-value=1.3e+02 Score=17.66 Aligned_cols=16 Identities=13% Similarity=0.216 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 043163 14 LICVLGLIAVARCAWL 29 (172)
Q Consensus 14 li~vi~l~~~~r~~~~ 29 (172)
++++++++.-+..+|+
T Consensus 12 ~lv~~gy~~hmkrycr 27 (54)
T PF13260_consen 12 VLVVVGYFCHMKRYCR 27 (54)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444555554444443
No 275
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=28.09 E-value=1.2e+02 Score=21.60 Aligned_cols=16 Identities=38% Similarity=0.443 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 043163 10 LLCALICVLGLIAVAR 25 (172)
Q Consensus 10 ~l~~li~vi~l~~~~r 25 (172)
++++++++++++++..
T Consensus 21 v~~~L~lVl~lI~~~a 36 (124)
T PRK11486 21 VSGALIGIIALILAAA 36 (124)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444433
No 276
>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=28.07 E-value=96 Score=19.86 Aligned_cols=27 Identities=30% Similarity=0.562 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHhhcc
Q 043163 7 LAALLCALICVLGL--IAVARCAWLRRLS 33 (172)
Q Consensus 7 ~~~~l~~li~vi~l--~~~~r~~~~r~~~ 33 (172)
..++++.-+++++. +++.|++|+|.++
T Consensus 51 YTl~FClWFLlLGaiEy~viRfiwrRwfs 79 (82)
T PF06643_consen 51 YTLVFCLWFLLLGAIEYFVIRFIWRRWFS 79 (82)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHhh
Confidence 33444433333333 3456778888664
No 277
>PF15345 TMEM51: Transmembrane protein 51
Probab=28.00 E-value=1.2e+02 Score=24.03 Aligned_cols=14 Identities=14% Similarity=0.188 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHH
Q 043163 12 CALICVLGLIAVAR 25 (172)
Q Consensus 12 ~~li~vi~l~~~~r 25 (172)
+++++++.+.+-+|
T Consensus 68 Gv~LLLLSICL~IR 81 (233)
T PF15345_consen 68 GVALLLLSICLSIR 81 (233)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333443333333
No 278
>PHA03030 hypothetical protein; Provisional
Probab=27.82 E-value=79 Score=21.68 Aligned_cols=8 Identities=13% Similarity=0.468 Sum_probs=3.3
Q ss_pred HHhhccCC
Q 043163 28 WLRRLSGG 35 (172)
Q Consensus 28 ~~r~~~~~ 35 (172)
|+|...+.
T Consensus 20 YI~~IkRD 27 (122)
T PHA03030 20 YIRIIKRD 27 (122)
T ss_pred Hheeeecc
Confidence 44444333
No 279
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=27.69 E-value=22 Score=29.23 Aligned_cols=46 Identities=17% Similarity=0.353 Sum_probs=28.4
Q ss_pred ccccccccccccCCCeeee--cCCCCCcccHhhHHHHHcCCCCcccccc
Q 043163 77 FSDCAICLTEFVNGDEIRV--LPQCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~--l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
...||+|=..-... .++. ...=.|.+|.-|-.+|--.+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45799998763211 1111 0112355677788888777889999964
No 280
>PRK01343 zinc-binding protein; Provisional
Probab=27.23 E-value=36 Score=20.70 Aligned_cols=10 Identities=30% Similarity=0.899 Sum_probs=5.1
Q ss_pred Cccccccccc
Q 043163 117 SCPSCRQILV 126 (172)
Q Consensus 117 ~CP~CR~~l~ 126 (172)
.||+|++++.
T Consensus 11 ~CP~C~k~~~ 20 (57)
T PRK01343 11 PCPECGKPST 20 (57)
T ss_pred cCCCCCCcCc
Confidence 4555555443
No 281
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=27.09 E-value=28 Score=35.03 Aligned_cols=16 Identities=31% Similarity=0.991 Sum_probs=14.1
Q ss_pred CCCCcccHhhHHHHHc
Q 043163 98 QCGHGFHVACIDTWLG 113 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~ 113 (172)
.|||..|..|+...+.
T Consensus 1150 ~c~h~mh~~c~~~~~~ 1165 (1738)
T KOG1140|consen 1150 SCGHHMHYGCFKRYVQ 1165 (1738)
T ss_pred ccCCcchHHHHHHHHH
Confidence 4999999999999863
No 282
>PF02723 NS3_envE: Non-structural protein NS3/Small envelope protein E; InterPro: IPR003873 This is a family of small nonstructural proteins, well conserved among Coronavirus strains. This protein is also found in Murine hepatitis virus as small envelope protein E.; GO: 0016020 membrane
Probab=26.90 E-value=89 Score=20.50 Aligned_cols=17 Identities=29% Similarity=0.425 Sum_probs=6.5
Q ss_pred hHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIA 22 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~ 22 (172)
++++.++.+++.+.++.
T Consensus 19 ~llvc~~~liv~~AlL~ 35 (82)
T PF02723_consen 19 WLLVCLVVLIVCIALLQ 35 (82)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 283
>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=26.73 E-value=70 Score=18.31 Aligned_cols=34 Identities=24% Similarity=0.471 Sum_probs=22.4
Q ss_pred Cccccccccccc--cCCCeeeecCCCCCcccHhhHHH
Q 043163 76 KFSDCAICLTEF--VNGDEIRVLPQCGHGFHVACIDT 110 (172)
Q Consensus 76 ~~~~C~ICL~~~--~~~~~~~~l~~C~H~FH~~Ci~~ 110 (172)
....|.+|-+.+ .....++-. .|+-..|.+|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~-~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCS-WCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEET-TTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEEC-CCCChHhhhhhhh
Confidence 344699999988 333445544 4999999999765
No 284
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=26.70 E-value=23 Score=19.21 Aligned_cols=26 Identities=31% Similarity=0.612 Sum_probs=13.1
Q ss_pred CCCCcccHhhHHHHHcCCCCccccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQI 124 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 124 (172)
.|||.|-..--..= .....||.|...
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (41)
T smart00834 10 DCGHTFEVLQKISD-DPLATCPECGGD 35 (41)
T ss_pred CCCCEEEEEEecCC-CCCCCCCCCCCc
Confidence 47776542211000 234569999774
No 285
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=26.42 E-value=98 Score=19.54 Aligned_cols=15 Identities=7% Similarity=0.169 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHH
Q 043163 7 LAALLCALICVLGLI 21 (172)
Q Consensus 7 ~~~~l~~li~vi~l~ 21 (172)
+.++..+++.++.++
T Consensus 36 IGvi~gi~~~~lt~l 50 (68)
T PF04971_consen 36 IGVIGGIFFGLLTYL 50 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 286
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=26.36 E-value=31 Score=19.96 Aligned_cols=25 Identities=32% Similarity=0.700 Sum_probs=13.7
Q ss_pred CCCCcccHhhHHHHHcCCCCcccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
.|||.|-..--.. -.....||.|..
T Consensus 10 ~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 10 ACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 4888776321100 012346999987
No 287
>PF15050 SCIMP: SCIMP protein
Probab=26.12 E-value=1.3e+02 Score=21.31 Aligned_cols=33 Identities=18% Similarity=0.105 Sum_probs=17.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCC
Q 043163 6 ILAALLCALICVLGLIAVARCAWLRRLSGGGAA 38 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~r~~~~r~~~~~~~~ 38 (172)
+.|++.+++|++-..+-++.+...|+..++...
T Consensus 8 FWiiLAVaII~vS~~lglIlyCvcR~~lRqGkk 40 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLILYCVCRWQLRQGKK 40 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 445555554444444445444456666665543
No 288
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=25.81 E-value=29 Score=23.26 Aligned_cols=27 Identities=26% Similarity=0.672 Sum_probs=18.3
Q ss_pred CCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
.||-.|-.+= ++..+.||.|++.+.++
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~Ie~ 89 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEWIEE 89 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhcccC
Confidence 4777776521 34456799999987753
No 289
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=25.70 E-value=59 Score=17.89 Aligned_cols=33 Identities=15% Similarity=0.350 Sum_probs=22.6
Q ss_pred cccccccccccCCCeeeecCCCCCcccHhhHHH
Q 043163 78 SDCAICLTEFVNGDEIRVLPQCGHGFHVACIDT 110 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~ 110 (172)
..|.+|.+.+.....-.....|+=..|..|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 459999998864321222334888899999876
No 290
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=25.60 E-value=61 Score=17.31 Aligned_cols=10 Identities=40% Similarity=0.899 Sum_probs=5.4
Q ss_pred cccccccccc
Q 043163 79 DCAICLTEFV 88 (172)
Q Consensus 79 ~C~ICL~~~~ 88 (172)
+|+-|-..|+
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666655543
No 291
>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=25.31 E-value=1.1e+02 Score=22.77 Aligned_cols=21 Identities=24% Similarity=0.059 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 043163 8 AALLCALICVLGLIAVARCAW 28 (172)
Q Consensus 8 ~~~l~~li~vi~l~~~~r~~~ 28 (172)
++.+.+++++.+++-++|...
T Consensus 101 l~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 101 LVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHHHhhcc
Confidence 333333344444444444443
No 292
>PF14353 CpXC: CpXC protein
Probab=24.95 E-value=57 Score=22.73 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=7.0
Q ss_pred CCccccccccc
Q 043163 116 SSCPSCRQILV 126 (172)
Q Consensus 116 ~~CP~CR~~l~ 126 (172)
.+||.|...+.
T Consensus 39 ~~CP~Cg~~~~ 49 (128)
T PF14353_consen 39 FTCPSCGHKFR 49 (128)
T ss_pred EECCCCCCcee
Confidence 35888866543
No 293
>PF03554 Herpes_UL73: UL73 viral envelope glycoprotein ; InterPro: IPR005211 This entry represents a conserved region found in a number of viral proteins: BLRF1, U46, 53, and UL73, collectively known as glycoprotein N. These UL73-like envelope glycoproteins, which associate in a high molecular mass complex with their counterpart protein gM, induce neutralizing antibody responses in the host. These glycoproteins are highly polymorphic, particularly in the N-terminal region [].; GO: 0019031 viral envelope
Probab=24.74 E-value=1.6e+02 Score=19.33 Aligned_cols=18 Identities=11% Similarity=0.224 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 043163 14 LICVLGLIAVARCAWLRR 31 (172)
Q Consensus 14 li~vi~l~~~~r~~~~r~ 31 (172)
+++++...+++|+.|.+.
T Consensus 58 ~il~~A~~vyLry~Cf~~ 75 (82)
T PF03554_consen 58 VILLCAFCVYLRYLCFQK 75 (82)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444455555543
No 294
>PF12127 YdfA_immunity: SigmaW regulon antibacterial; InterPro: IPR022853 This entry represents the uncharacterised protein family UPF0365. Its function is not known. The proteins in this family are found in bacteria. They are about 330 amino acids in length and encoded by a gene located in an operon which confers immunity for the host species to a broad range of antibacterial compounds, unlike the specific immunity proteins that are linked to and co-regulated with their antibiotic-synthesis proteins.
Probab=24.72 E-value=1.1e+02 Score=24.92 Aligned_cols=7 Identities=29% Similarity=1.037 Sum_probs=3.2
Q ss_pred HHHhhcc
Q 043163 27 AWLRRLS 33 (172)
Q Consensus 27 ~~~r~~~ 33 (172)
.|.+.+.
T Consensus 24 lwi~a~~ 30 (316)
T PF12127_consen 24 LWIQALA 30 (316)
T ss_pred HHHhhhh
Confidence 5554433
No 295
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=24.70 E-value=1.3e+02 Score=23.46 Aligned_cols=15 Identities=33% Similarity=0.304 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHH
Q 043163 10 LLCALICVLGLIAVA 24 (172)
Q Consensus 10 ~l~~li~vi~l~~~~ 24 (172)
+++++++|++++++.
T Consensus 71 mi~aL~~VI~Liy~l 85 (219)
T PRK13415 71 LIGATLFVIFLIYAL 85 (219)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344445554544443
No 296
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=24.44 E-value=25 Score=32.87 Aligned_cols=49 Identities=31% Similarity=0.563 Sum_probs=0.0
Q ss_pred eeeecCCCCCc-ccH---hhHHHHHcCCCCcccccccccccccccCCCCCCCCC
Q 043163 92 EIRVLPQCGHG-FHV---ACIDTWLGSHSSCPSCRQILVVARCQKCGGFPASSS 141 (172)
Q Consensus 92 ~~~~l~~C~H~-FH~---~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~~~~~ 141 (172)
..+.+|.||+. |-. .|-.. -.....||.|+..+....+.+|+......+
T Consensus 654 ~~r~Cp~Cg~~t~~~~Cp~CG~~-T~~~~~Cp~C~~~~~~~~C~~C~~~~~~~~ 706 (900)
T PF03833_consen 654 GRRRCPKCGKETFYNRCPECGSH-TEPVYVCPDCGIEVEEDECPKCGRETTSYS 706 (900)
T ss_dssp ------------------------------------------------------
T ss_pred ecccCcccCCcchhhcCcccCCc-cccceeccccccccCccccccccccCcccc
Confidence 34556667754 222 34222 122456899988888888888887655443
No 297
>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=24.26 E-value=9.6 Score=22.76 Aligned_cols=33 Identities=30% Similarity=0.672 Sum_probs=17.1
Q ss_pred cccc--ccccccCCCe----eeecCCCCCcccHhhHHHH
Q 043163 79 DCAI--CLTEFVNGDE----IRVLPQCGHGFHVACIDTW 111 (172)
Q Consensus 79 ~C~I--CL~~~~~~~~----~~~l~~C~H~FH~~Ci~~W 111 (172)
-|+- |-..+...+. ....+.|++.|+..|-..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 4655 6665544322 1445558899988887766
No 298
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=24.02 E-value=48 Score=25.61 Aligned_cols=21 Identities=14% Similarity=0.387 Sum_probs=12.3
Q ss_pred CCCcccccccccccccccCCC
Q 043163 115 HSSCPSCRQILVVARCQKCGG 135 (172)
Q Consensus 115 ~~~CP~CR~~l~~~~~~~~~~ 135 (172)
+.+||+|...+...++..-..
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCc
Confidence 445777776666555544444
No 299
>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=23.69 E-value=50 Score=17.36 Aligned_cols=20 Identities=25% Similarity=0.554 Sum_probs=12.1
Q ss_pred CCCCcccHhhHHHHHcCCCCcccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQ 123 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 123 (172)
.|||++-..- ....||+|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 3676665433 3457888865
No 300
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=23.53 E-value=1.1e+02 Score=27.35 Aligned_cols=16 Identities=0% Similarity=0.144 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 043163 9 ALLCALICVLGLIAVA 24 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~ 24 (172)
+++++++++++++++.
T Consensus 5 ~ii~i~ii~i~~~~~~ 20 (569)
T PRK04778 5 LIIAIVVIIIIAYLAG 20 (569)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444445554
No 301
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=23.52 E-value=66 Score=30.21 Aligned_cols=35 Identities=26% Similarity=0.543 Sum_probs=24.1
Q ss_pred cccccccccccCCCe---eee--cCCCCCcccHhhHHHHH
Q 043163 78 SDCAICLTEFVNGDE---IRV--LPQCGHGFHVACIDTWL 112 (172)
Q Consensus 78 ~~C~ICL~~~~~~~~---~~~--l~~C~H~FH~~Ci~~Wl 112 (172)
..|..|-..|-.-.+ .|. +..||++||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 469999999953111 122 44699999999976653
No 302
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=23.52 E-value=62 Score=18.44 Aligned_cols=28 Identities=14% Similarity=0.412 Sum_probs=15.9
Q ss_pred CCCCcccHhhHHHHHcCCCCccccccccccccc
Q 043163 98 QCGHGFHVACIDTWLGSHSSCPSCRQILVVARC 130 (172)
Q Consensus 98 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~ 130 (172)
.||+.|-.+ ......||.|...++-..+
T Consensus 7 ~Cg~~~~~~-----~~~~irC~~CG~rIlyK~R 34 (44)
T smart00659 7 ECGRENEIK-----SKDVVRCRECGYRILYKKR 34 (44)
T ss_pred CCCCEeecC-----CCCceECCCCCceEEEEeC
Confidence 466655533 1234568888777765443
No 303
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=23.44 E-value=34 Score=21.18 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=9.4
Q ss_pred CCCccccccccc
Q 043163 115 HSSCPSCRQILV 126 (172)
Q Consensus 115 ~~~CP~CR~~l~ 126 (172)
...||+|++.+.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 356999999864
No 304
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=23.37 E-value=1.8e+02 Score=17.61 Aligned_cols=9 Identities=33% Similarity=0.257 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q 043163 15 ICVLGLIAV 23 (172)
Q Consensus 15 i~vi~l~~~ 23 (172)
++++++...
T Consensus 10 ~lvv~LYgY 18 (56)
T TIGR02736 10 LLVIFLYAY 18 (56)
T ss_pred HHHHHHHHH
Confidence 333333333
No 305
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=23.10 E-value=50 Score=20.44 Aligned_cols=6 Identities=33% Similarity=1.287 Sum_probs=2.2
Q ss_pred cccccc
Q 043163 80 CAICLT 85 (172)
Q Consensus 80 C~ICL~ 85 (172)
|++|..
T Consensus 10 Cp~ck~ 15 (68)
T PF03966_consen 10 CPVCKG 15 (68)
T ss_dssp -TTTSS
T ss_pred CCCCCC
Confidence 444444
No 306
>PF06809 NPDC1: Neural proliferation differentiation control-1 protein (NPDC1); InterPro: IPR009635 This family consists of several neural proliferation differentiation control-1 (NPDC1) proteins. NPDC1 plays a role in the control of neural cell proliferation and differentiation. It has been suggested that NPDC1 may be involved in the development of several secretion glands. This family also contains the C-terminal region of the Caenorhabditis elegans protein CAB-1 (Q93249 from SWISSPROT) which is known to interact with AEX-3 [].; GO: 0016021 integral to membrane
Probab=23.06 E-value=44 Score=27.63 Aligned_cols=25 Identities=16% Similarity=0.498 Sum_probs=11.6
Q ss_pred eehHHHHHHHHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLIAVARCAW 28 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r~~~ 28 (172)
+++++|+++.++.++++++...|+|
T Consensus 198 l~lv~Iv~~cvaG~aAliva~~cW~ 222 (341)
T PF06809_consen 198 LTLVLIVVCCVAGAAALIVAGYCWY 222 (341)
T ss_pred eeeehhHHHHHHHHHHHHHhhheEE
Confidence 3344444444455555555444433
No 307
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=22.75 E-value=98 Score=24.61 Aligned_cols=10 Identities=20% Similarity=0.597 Sum_probs=6.2
Q ss_pred hHHHHHcCCC
Q 043163 107 CIDTWLGSHS 116 (172)
Q Consensus 107 Ci~~Wl~~~~ 116 (172)
=++.|++...
T Consensus 215 ~f~~W~~~~~ 224 (247)
T COG1622 215 DFDAWVAEVK 224 (247)
T ss_pred HHHHHHHhhh
Confidence 3777875543
No 308
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=22.71 E-value=1.4e+02 Score=19.65 Aligned_cols=10 Identities=20% Similarity=-0.037 Sum_probs=3.8
Q ss_pred eehHHHHHHH
Q 043163 4 VVILAALLCA 13 (172)
Q Consensus 4 ~ii~~~~l~~ 13 (172)
++.+++...+
T Consensus 16 ~yyiiA~gga 25 (87)
T PF11980_consen 16 WYYIIAMGGA 25 (87)
T ss_pred eeHHHhhccH
Confidence 3334333333
No 309
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=22.32 E-value=39 Score=27.57 Aligned_cols=30 Identities=27% Similarity=0.715 Sum_probs=22.3
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHH
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACID 109 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~ 109 (172)
.|.||+....+++.+.- ..|..-||.-|+-
T Consensus 316 lC~IC~~P~~E~E~~FC-D~CDRG~HT~CVG 345 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFC-DVCDRGPHTLCVG 345 (381)
T ss_pred hhhccCCcccchheecc-ccccCCCCccccc
Confidence 49999998766655544 3488889998865
No 310
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=22.19 E-value=62 Score=22.27 Aligned_cols=32 Identities=22% Similarity=0.528 Sum_probs=18.7
Q ss_pred ccccccccccccCCCeeeecCCCCCcccHhh----HHHHHcC
Q 043163 77 FSDCAICLTEFVNGDEIRVLPQCGHGFHVAC----IDTWLGS 114 (172)
Q Consensus 77 ~~~C~ICL~~~~~~~~~~~l~~C~H~FH~~C----i~~Wl~~ 114 (172)
...|.=|-.. .+.-.. |+|.||..| -+.|+..
T Consensus 42 ~~~C~~Cg~~-----~~~~~S-Ck~R~CP~C~~~~~~~W~~~ 77 (111)
T PF14319_consen 42 RYRCEDCGHE-----KIVYNS-CKNRHCPSCQAKATEQWIEK 77 (111)
T ss_pred eeecCCCCce-----EEecCc-ccCcCCCCCCChHHHHHHHH
Confidence 3456666443 244444 888888777 3467643
No 311
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=22.14 E-value=57 Score=25.77 Aligned_cols=23 Identities=17% Similarity=0.475 Sum_probs=15.6
Q ss_pred ccHhhHHHHHcCCCCcccccccc
Q 043163 103 FHVACIDTWLGSHSSCPSCRQIL 125 (172)
Q Consensus 103 FH~~Ci~~Wl~~~~~CP~CR~~l 125 (172)
.|.+|-..--++-..||+|+..-
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKs 273 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKS 273 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhcc
Confidence 34556666556778899997653
No 312
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=22.10 E-value=1e+02 Score=22.66 Aligned_cols=23 Identities=26% Similarity=0.102 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 043163 9 ALLCALICVLGLIAVARCAWLRR 31 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~r~~~~r~ 31 (172)
-++++++-.++++...++.++|.
T Consensus 66 yl~ial~nAvlLI~WA~YN~~RF 88 (153)
T PRK14584 66 YLAIAAFNAVLLIIWAKYNQVRF 88 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 33344444444444444444443
No 313
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.96 E-value=37 Score=25.05 Aligned_cols=45 Identities=27% Similarity=0.473 Sum_probs=29.2
Q ss_pred ccccccccCCCeeeecCCCCCcccHhhHHHHHcCCCCccccccccccc
Q 043163 81 AICLTEFVNGDEIRVLPQCGHGFHVACIDTWLGSHSSCPSCRQILVVA 128 (172)
Q Consensus 81 ~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~ 128 (172)
.||+.-=...+..-.-|.=.+-||.+|-.+-+ ..||.|..++...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 36666443344444444345779999988755 4599999988754
No 314
>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=21.94 E-value=30 Score=29.91 Aligned_cols=27 Identities=15% Similarity=0.202 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccC
Q 043163 8 AALLCALICVLGLIAVARCAWLRRLSG 34 (172)
Q Consensus 8 ~~~l~~li~vi~l~~~~r~~~~r~~~~ 34 (172)
++++++++++++++++.++.++|+.+.
T Consensus 360 gvavlivVv~viv~vc~~~rrrR~~~~ 386 (439)
T PF02480_consen 360 GVAVLIVVVGVIVWVCLRCRRRRRQRD 386 (439)
T ss_dssp ---------------------------
T ss_pred HHHHHHHHHHHHhheeeeehhcccccc
Confidence 334444444445555566666665544
No 315
>PHA03105 EEV glycoprotein; Provisional
Probab=21.83 E-value=98 Score=23.00 Aligned_cols=18 Identities=17% Similarity=0.355 Sum_probs=7.4
Q ss_pred eehHHHHHHHHHHHHHHH
Q 043163 4 VVILAALLCALICVLGLI 21 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~ 21 (172)
+++++++++.++.+++++
T Consensus 5 iv~Y~vv~~SfiiLi~Yl 22 (188)
T PHA03105 5 IVVYVVVPLSFIVLILYI 22 (188)
T ss_pred EEEeeehHHHHHHHHHHH
Confidence 334444444444333333
No 316
>PHA02849 putative transmembrane protein; Provisional
Probab=21.72 E-value=1.6e+02 Score=19.07 Aligned_cols=7 Identities=14% Similarity=0.254 Sum_probs=2.8
Q ss_pred hCCCeec
Q 043163 63 TLPKQTF 69 (172)
Q Consensus 63 ~l~~~~~ 69 (172)
.+...-|
T Consensus 65 ~Ld~VYY 71 (82)
T PHA02849 65 HLNNVYY 71 (82)
T ss_pred HhcCEEe
Confidence 3444433
No 317
>PF03408 Foamy_virus_ENV: Foamy virus envelope protein ; InterPro: IPR005070 Expression of the envelope (Env) glycoprotein is essential for viral particle egress. This feature is unique to the Spumavirinae, a subclass of the Retroviridae. ; GO: 0019031 viral envelope
Probab=21.53 E-value=1.8e+02 Score=27.40 Aligned_cols=29 Identities=14% Similarity=0.523 Sum_probs=17.5
Q ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 043163 4 VVILAALLCALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 4 ~ii~~~~l~~li~vi~l~~~~r~~~~r~~ 32 (172)
|++|+.++++++++..|+.+.|..|.+..
T Consensus 64 Wilf~cvll~Iv~iscfvti~RiQW~~aI 92 (981)
T PF03408_consen 64 WILFVCVLLSIVLISCFVTIARIQWNKAI 92 (981)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34555555555666666666777776644
No 318
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=21.14 E-value=57 Score=17.38 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=5.5
Q ss_pred CCcccccc
Q 043163 116 SSCPSCRQ 123 (172)
Q Consensus 116 ~~CP~CR~ 123 (172)
..||+|.+
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46888855
No 319
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=21.12 E-value=1.8e+02 Score=20.77 Aligned_cols=11 Identities=36% Similarity=0.767 Sum_probs=5.0
Q ss_pred HHHHHHHHHHh
Q 043163 20 LIAVARCAWLR 30 (172)
Q Consensus 20 l~~~~r~~~~r 30 (172)
++++.|..|..
T Consensus 18 ~lf~~R~r~~~ 28 (128)
T PF09435_consen 18 LLFFTRHRWLP 28 (128)
T ss_pred HHHHHHHHHHh
Confidence 34444444544
No 320
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=20.94 E-value=71 Score=27.65 Aligned_cols=31 Identities=29% Similarity=0.520 Sum_probs=21.0
Q ss_pred ccccccccccCC---CeeeecCCCCCcccHhhHHH
Q 043163 79 DCAICLTEFVNG---DEIRVLPQCGHGFHVACIDT 110 (172)
Q Consensus 79 ~C~ICL~~~~~~---~~~~~l~~C~H~FH~~Ci~~ 110 (172)
.|.||.. |... -.++....|||.-|.+|--+
T Consensus 130 ~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 130 MCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred CccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 3889965 5432 24455557999999999554
No 321
>PLN02195 cellulose synthase A
Probab=20.89 E-value=1.2e+02 Score=29.06 Aligned_cols=51 Identities=20% Similarity=0.356 Sum_probs=35.5
Q ss_pred CccccccccccccC---CCeeeecCCCCCcccHhhHHHHHc-CCCCccccccccc
Q 043163 76 KFSDCAICLTEFVN---GDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILV 126 (172)
Q Consensus 76 ~~~~C~ICL~~~~~---~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 126 (172)
....|.||-+++.. ++.-..+-.|+--.|+.|.+-=-+ .++.||-|+...-
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 33469999997753 455555556888899999843222 3667999987665
No 322
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=20.74 E-value=94 Score=29.95 Aligned_cols=49 Identities=20% Similarity=0.474 Sum_probs=34.7
Q ss_pred cccccccccccC---CCeeeecCCCCCcccHhhHHHHHc-CCCCccccccccc
Q 043163 78 SDCAICLTEFVN---GDEIRVLPQCGHGFHVACIDTWLG-SHSSCPSCRQILV 126 (172)
Q Consensus 78 ~~C~ICL~~~~~---~~~~~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~ 126 (172)
..|.||=|++.. ++.-..+-.|+--.|..|++-=.+ .++.||-|+...-
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 469999998753 455555556777799999853232 3678999988665
No 323
>PRK13665 hypothetical protein; Provisional
Probab=20.68 E-value=1.2e+02 Score=24.66 Aligned_cols=8 Identities=25% Similarity=0.754 Sum_probs=3.7
Q ss_pred HHHHhhcc
Q 043163 26 CAWLRRLS 33 (172)
Q Consensus 26 ~~~~r~~~ 33 (172)
..|+..+.
T Consensus 28 ~lWi~A~~ 35 (316)
T PRK13665 28 GLWISALA 35 (316)
T ss_pred HHHHHHHH
Confidence 34555443
No 324
>KOG3457 consensus Sec61 protein translocation complex, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=20.47 E-value=1.6e+02 Score=19.50 Aligned_cols=18 Identities=11% Similarity=0.054 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043163 9 ALLCALICVLGLIAVARC 26 (172)
Q Consensus 9 ~~l~~li~vi~l~~~~r~ 26 (172)
..++.+..++.|.++.++
T Consensus 66 mSvgFIasV~~LHi~gK~ 83 (88)
T KOG3457|consen 66 MSVGFIASVFALHIWGKL 83 (88)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 333334444445544433
No 325
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.44 E-value=1.5e+02 Score=20.33 Aligned_cols=6 Identities=17% Similarity=0.340 Sum_probs=2.2
Q ss_pred ccHhhH
Q 043163 103 FHVACI 108 (172)
Q Consensus 103 FH~~Ci 108 (172)
|.+.-|
T Consensus 89 ~~r~aI 94 (106)
T PRK05585 89 IQKSAI 94 (106)
T ss_pred EEhHHh
Confidence 333333
No 326
>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=20.36 E-value=21 Score=26.18 Aligned_cols=25 Identities=28% Similarity=0.539 Sum_probs=17.7
Q ss_pred ccHhhHHHHHcC----CCCcccccccccc
Q 043163 103 FHVACIDTWLGS----HSSCPSCRQILVV 127 (172)
Q Consensus 103 FH~~Ci~~Wl~~----~~~CP~CR~~l~~ 127 (172)
||-.|+++=|.. .-.||.|+..-..
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~ 30 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSG 30 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCC
Confidence 788888876644 3369999876443
No 327
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=20.24 E-value=2.2e+02 Score=17.40 Aligned_cols=8 Identities=38% Similarity=0.613 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 043163 10 LLCALICV 17 (172)
Q Consensus 10 ~l~~li~v 17 (172)
+++.++++
T Consensus 14 LLISfiIl 21 (59)
T PF11119_consen 14 LLISFIIL 21 (59)
T ss_pred HHHHHHHH
Confidence 33333333
No 328
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=20.18 E-value=1.8e+02 Score=21.58 Aligned_cols=22 Identities=23% Similarity=0.226 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 043163 6 ILAALLCALICVLGLIAVARCA 27 (172)
Q Consensus 6 i~~~~l~~li~vi~l~~~~r~~ 27 (172)
.+..+++++++++++++++++.
T Consensus 9 ~~~~i~iGl~~f~iYyfvF~fl 30 (161)
T PRK09702 9 MLTQIAIGLCFTLLYFVVFRTL 30 (161)
T ss_pred chhHHHHHHHHHHHHHHHHHHH
Confidence 3444444445444444444443
No 329
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=20.13 E-value=3.7e+02 Score=23.84 Aligned_cols=14 Identities=21% Similarity=0.529 Sum_probs=9.8
Q ss_pred ccH-hhHHHHHcCCC
Q 043163 103 FHV-ACIDTWLGSHS 116 (172)
Q Consensus 103 FH~-~Ci~~Wl~~~~ 116 (172)
||. .++..||+.+.
T Consensus 289 fh~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 289 FHPKGSLCDYLKANT 303 (534)
T ss_pred eccCCcHHHHHHhcc
Confidence 665 48999987643
No 330
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=20.09 E-value=25 Score=21.92 Aligned_cols=15 Identities=20% Similarity=0.224 Sum_probs=11.0
Q ss_pred CCCCCccccccccCC
Q 043163 151 GAAETSEARSEEKQD 165 (172)
Q Consensus 151 ~~~~~~~~~~~~~~~ 165 (172)
.+-..|+.|++++++
T Consensus 45 ~Aie~WN~Ra~~~~~ 59 (64)
T PRK09710 45 EALERWNKRTTGNNN 59 (64)
T ss_pred HHHHHHHhhhccCCC
Confidence 466778888888765
No 331
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=20.04 E-value=21 Score=29.11 Aligned_cols=31 Identities=16% Similarity=0.475 Sum_probs=23.7
Q ss_pred ccccccccccCCCeeeecCCCCCcccHhhHHHH
Q 043163 79 DCAICLTEFVNGDEIRVLPQCGHGFHVACIDTW 111 (172)
Q Consensus 79 ~C~ICL~~~~~~~~~~~l~~C~H~FH~~Ci~~W 111 (172)
.|+-|-+-+-+...|+.- =.|+||-+|+.-.
T Consensus 94 KCsaC~~GIpPtqVVRkA--qd~VYHl~CF~C~ 124 (383)
T KOG4577|consen 94 KCSACQEGIPPTQVVRKA--QDFVYHLHCFACF 124 (383)
T ss_pred cchhhcCCCChHHHHHHh--hcceeehhhhhhH
Confidence 588898888776666655 5799999997644
No 332
>PF09802 Sec66: Preprotein translocase subunit Sec66; InterPro: IPR018624 Members of this family of proteins are a component of the heterotetrameric Sec62/63 complex composed of SEC62, SEC63, SEC66 and SEC72. The Sec62/63 complex associates with the Sec61 complex to form the Sec complex. Sec 66 is involved in SRP-independent post-translational translocation across the endoplasmic reticulum and functions together with the Sec61 complex and KAR2 in a channel-forming translocon complex. Furthermore, Sec66 is also required for growth at elevated temperatures [, , , ].
Probab=20.02 E-value=1.6e+02 Score=22.44 Aligned_cols=26 Identities=15% Similarity=0.093 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 043163 7 LAALLCALICVLGLIAVARCAWLRRL 32 (172)
Q Consensus 7 ~~~~l~~li~vi~l~~~~r~~~~r~~ 32 (172)
+.=++.+.+++..++.+...+++|+.
T Consensus 7 ~~P~~Y~~vl~~sl~~Fs~~YRkr~~ 32 (190)
T PF09802_consen 7 YTPLAYVAVLVGSLATFSSIYRKRKA 32 (190)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444443
Done!