Query 032328
Match_columns 143
No_of_seqs 130 out of 1768
Neff 9.5
Searched_HMMs 46136
Date Fri Mar 29 12:39:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032328.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032328hhsearch_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 1.7E-23 3.7E-28 153.7 8.4 79 43-123 202-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.8 1E-19 2.2E-24 97.4 1.9 44 72-116 1-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.6 3E-16 6.6E-21 92.5 4.1 46 70-116 18-73 (73)
4 PHA02929 N1R/p28-like protein; 99.6 4.3E-16 9.2E-21 110.3 4.8 75 47-121 149-228 (238)
5 COG5243 HRD1 HRD ubiquitin lig 99.6 1.9E-15 4.1E-20 111.1 4.6 52 68-120 284-345 (491)
6 KOG0823 Predicted E3 ubiquitin 99.5 7.9E-15 1.7E-19 101.9 4.7 66 68-137 44-112 (230)
7 COG5540 RING-finger-containing 99.5 5.5E-15 1.2E-19 106.1 3.8 52 69-121 321-373 (374)
8 PLN03208 E3 ubiquitin-protein 99.5 2.1E-14 4.5E-19 98.1 6.1 63 69-135 16-94 (193)
9 KOG0317 Predicted E3 ubiquitin 99.5 1.9E-14 4.1E-19 102.8 4.3 53 69-125 237-289 (293)
10 PF13920 zf-C3HC4_3: Zinc fing 99.4 1.3E-13 2.9E-18 75.5 2.9 47 71-121 2-49 (50)
11 PF12861 zf-Apc11: Anaphase-pr 99.4 2.5E-13 5.4E-18 80.9 3.7 53 70-122 20-84 (85)
12 PF13923 zf-C3HC4_2: Zinc fing 99.4 5.8E-13 1.3E-17 69.2 3.2 39 74-115 1-39 (39)
13 cd00162 RING RING-finger (Real 99.4 8.5E-13 1.8E-17 70.2 3.6 44 73-119 1-45 (45)
14 KOG0802 E3 ubiquitin ligase [P 99.3 1.1E-12 2.3E-17 103.9 3.5 53 69-122 289-343 (543)
15 COG5194 APC11 Component of SCF 99.3 1.1E-12 2.4E-17 76.2 2.4 54 72-125 21-86 (88)
16 PHA02926 zinc finger-like prot 99.3 2.3E-12 5.1E-17 89.2 3.6 54 69-122 168-232 (242)
17 KOG0320 Predicted E3 ubiquitin 99.3 3.7E-12 8E-17 85.3 4.3 54 69-124 129-182 (187)
18 PF14634 zf-RING_5: zinc-RING 99.2 1.1E-11 2.5E-16 65.9 3.5 44 73-117 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 99.2 1.7E-11 3.7E-16 64.3 2.4 39 74-115 1-41 (41)
20 PF15227 zf-C3HC4_4: zinc fing 99.2 2.2E-11 4.7E-16 64.1 2.7 38 74-115 1-42 (42)
21 smart00504 Ubox Modified RING 99.1 7.1E-11 1.5E-15 67.6 4.4 50 72-125 2-51 (63)
22 smart00184 RING Ring finger. E 99.1 7.1E-11 1.5E-15 60.6 3.3 38 74-115 1-39 (39)
23 KOG0828 Predicted E3 ubiquitin 99.1 3.4E-10 7.4E-15 86.4 6.4 51 70-121 570-635 (636)
24 KOG2930 SCF ubiquitin ligase, 99.0 9.8E-11 2.1E-15 71.5 2.1 56 70-125 45-113 (114)
25 TIGR00599 rad18 DNA repair pro 99.0 3.4E-10 7.3E-15 85.8 3.9 50 70-123 25-74 (397)
26 KOG1493 Anaphase-promoting com 99.0 5.9E-11 1.3E-15 68.5 -0.3 53 70-122 19-83 (84)
27 KOG1734 Predicted RING-contain 99.0 5.5E-10 1.2E-14 79.4 4.2 55 68-123 221-284 (328)
28 COG5574 PEX10 RING-finger-cont 99.0 2.8E-10 6E-15 80.7 2.4 51 70-124 214-266 (271)
29 KOG2164 Predicted E3 ubiquitin 99.0 3.2E-10 6.9E-15 86.9 2.5 62 71-136 186-252 (513)
30 smart00744 RINGv The RING-vari 98.9 2.5E-09 5.4E-14 58.0 3.1 42 73-116 1-49 (49)
31 PF13445 zf-RING_UBOX: RING-ty 98.8 5.2E-09 1.1E-13 55.0 2.9 38 74-113 1-43 (43)
32 KOG4265 Predicted E3 ubiquitin 98.8 4.1E-09 8.9E-14 77.8 2.8 50 69-122 288-338 (349)
33 TIGR00570 cdk7 CDK-activating 98.7 4.8E-09 1E-13 76.8 2.2 60 71-131 3-65 (309)
34 KOG0287 Postreplication repair 98.7 4.5E-09 9.8E-14 77.1 1.5 51 71-125 23-73 (442)
35 COG5432 RAD18 RING-finger-cont 98.7 9.8E-09 2.1E-13 74.0 2.5 48 71-122 25-72 (391)
36 KOG4172 Predicted E3 ubiquitin 98.7 5.3E-09 1.1E-13 56.6 0.5 47 70-120 6-54 (62)
37 PF11793 FANCL_C: FANCL C-term 98.7 3.9E-09 8.5E-14 61.6 -0.1 51 71-121 2-67 (70)
38 PF04564 U-box: U-box domain; 98.6 2.4E-08 5.2E-13 58.8 2.6 52 70-125 3-55 (73)
39 KOG0804 Cytoplasmic Zn-finger 98.6 1.7E-08 3.7E-13 76.4 1.5 49 69-120 173-222 (493)
40 COG5219 Uncharacterized conser 98.6 1.8E-08 3.8E-13 82.4 1.0 52 69-120 1467-1523(1525)
41 KOG0827 Predicted E3 ubiquitin 98.6 2.4E-08 5.3E-13 74.4 1.6 52 71-122 4-58 (465)
42 PF14835 zf-RING_6: zf-RING of 98.6 1.7E-08 3.6E-13 56.9 0.5 49 72-125 8-56 (65)
43 KOG2177 Predicted E3 ubiquitin 98.4 1.2E-07 2.6E-12 69.4 2.0 44 69-116 11-54 (386)
44 KOG1645 RING-finger-containing 98.4 5.2E-08 1.1E-12 73.1 -0.1 59 70-128 3-64 (463)
45 KOG0824 Predicted E3 ubiquitin 98.3 2.2E-07 4.8E-12 67.3 2.1 49 70-122 6-55 (324)
46 KOG1785 Tyrosine kinase negati 98.3 1.3E-07 2.7E-12 71.1 0.7 59 66-128 364-424 (563)
47 KOG0978 E3 ubiquitin ligase in 98.3 1.9E-07 4.1E-12 75.0 1.1 53 71-127 643-696 (698)
48 KOG1039 Predicted E3 ubiquitin 98.2 6.4E-07 1.4E-11 67.0 2.4 54 69-122 159-223 (344)
49 KOG4445 Uncharacterized conser 98.2 6.9E-07 1.5E-11 64.8 1.2 56 68-124 112-190 (368)
50 KOG0825 PHD Zn-finger protein 98.2 3.6E-07 7.7E-12 73.7 -0.4 51 71-122 123-173 (1134)
51 KOG1428 Inhibitor of type V ad 98.1 2.6E-06 5.6E-11 72.8 2.9 66 56-122 3471-3546(3738)
52 KOG0311 Predicted E3 ubiquitin 98.0 4.7E-07 1E-11 67.0 -1.8 50 70-122 42-92 (381)
53 PF11789 zf-Nse: Zinc-finger o 97.9 5.4E-06 1.2E-10 46.3 1.9 42 70-114 10-53 (57)
54 PF05883 Baculo_RING: Baculovi 97.9 4.3E-06 9.3E-11 54.2 1.3 36 70-106 25-66 (134)
55 KOG1941 Acetylcholine receptor 97.9 5.7E-06 1.2E-10 62.2 1.7 50 70-120 364-416 (518)
56 KOG4159 Predicted E3 ubiquitin 97.8 1.1E-05 2.3E-10 61.7 2.4 49 69-121 82-130 (398)
57 KOG0297 TNF receptor-associate 97.8 1.4E-05 3.1E-10 61.2 2.7 54 69-125 19-72 (391)
58 PF14570 zf-RING_4: RING/Ubox 97.7 4E-05 8.6E-10 41.0 2.3 45 74-119 1-47 (48)
59 KOG2879 Predicted E3 ubiquitin 97.7 7.1E-05 1.5E-09 53.9 4.2 51 68-121 236-288 (298)
60 KOG1571 Predicted E3 ubiquitin 97.6 2.8E-05 6.1E-10 57.9 2.0 49 66-121 300-348 (355)
61 KOG3970 Predicted E3 ubiquitin 97.6 7.7E-05 1.7E-09 52.3 3.5 51 70-122 49-107 (299)
62 KOG4692 Predicted E3 ubiquitin 97.5 8.7E-05 1.9E-09 55.3 3.2 50 69-122 420-469 (489)
63 KOG0826 Predicted E3 ubiquitin 97.5 0.00063 1.4E-08 50.3 7.3 51 68-121 297-347 (357)
64 PHA02862 5L protein; Provision 97.4 0.00013 2.9E-09 47.7 3.0 49 71-123 2-56 (156)
65 PF12906 RINGv: RING-variant d 97.4 8.8E-05 1.9E-09 39.7 1.7 41 74-115 1-47 (47)
66 PF10367 Vps39_2: Vacuolar sor 97.4 6.2E-05 1.3E-09 47.2 1.2 33 69-103 76-108 (109)
67 KOG1952 Transcription factor N 97.4 3.3E-05 7.1E-10 63.1 -0.4 51 69-119 189-246 (950)
68 PHA02825 LAP/PHD finger-like p 97.4 0.0002 4.3E-09 47.7 3.2 51 68-122 5-61 (162)
69 KOG4275 Predicted E3 ubiquitin 97.3 3E-05 6.6E-10 56.3 -1.0 42 71-120 300-342 (350)
70 KOG0801 Predicted E3 ubiquitin 97.3 7.3E-05 1.6E-09 49.8 0.3 30 69-99 175-204 (205)
71 KOG3039 Uncharacterized conser 97.3 0.00047 1E-08 49.1 4.2 62 70-131 220-281 (303)
72 PF04641 Rtf2: Rtf2 RING-finge 97.2 0.00065 1.4E-08 49.5 4.9 63 68-132 110-173 (260)
73 COG5236 Uncharacterized conser 97.2 0.0004 8.8E-09 51.8 3.7 61 56-120 46-108 (493)
74 KOG1002 Nucleotide excision re 97.2 0.00016 3.4E-09 56.7 1.7 52 67-122 532-588 (791)
75 PHA03096 p28-like protein; Pro 97.1 0.00027 5.9E-09 51.9 1.9 48 72-119 179-236 (284)
76 COG5175 MOT2 Transcriptional r 97.1 0.00054 1.2E-08 51.0 3.0 63 67-129 10-73 (480)
77 KOG1813 Predicted E3 ubiquitin 97.0 0.0003 6.6E-09 51.2 1.7 49 69-121 239-287 (313)
78 KOG2660 Locus-specific chromos 97.0 0.00013 2.8E-09 53.9 -0.3 51 69-122 13-63 (331)
79 COG5152 Uncharacterized conser 97.0 0.00026 5.7E-09 48.8 1.1 45 71-119 196-240 (259)
80 KOG1814 Predicted E3 ubiquitin 97.0 0.00052 1.1E-08 52.2 2.3 39 69-108 182-220 (445)
81 KOG0827 Predicted E3 ubiquitin 96.9 3.1E-05 6.7E-10 58.2 -4.4 53 70-123 195-248 (465)
82 PF14446 Prok-RING_1: Prokaryo 96.8 0.0022 4.8E-08 35.1 3.3 41 70-114 4-44 (54)
83 KOG4739 Uncharacterized protei 96.7 0.00078 1.7E-08 47.9 1.6 53 73-129 5-57 (233)
84 PF08746 zf-RING-like: RING-li 96.7 0.0013 2.7E-08 34.5 1.9 41 74-115 1-43 (43)
85 KOG4185 Predicted E3 ubiquitin 96.6 0.0015 3.2E-08 48.4 2.6 49 71-119 3-54 (296)
86 KOG2114 Vacuolar assembly/sort 96.6 0.0011 2.3E-08 54.6 2.0 42 72-119 841-882 (933)
87 PF07800 DUF1644: Protein of u 96.6 0.0024 5.3E-08 42.6 3.0 52 71-125 2-96 (162)
88 KOG3268 Predicted E3 ubiquitin 96.4 0.003 6.6E-08 42.9 2.5 32 92-123 189-231 (234)
89 COG5222 Uncharacterized conser 96.3 0.0026 5.5E-08 46.7 2.1 43 72-117 275-318 (427)
90 KOG2034 Vacuolar sorting prote 96.3 0.0019 4E-08 53.5 1.5 36 69-106 815-850 (911)
91 KOG3002 Zn finger protein [Gen 96.3 0.0026 5.7E-08 47.1 1.9 45 69-121 46-92 (299)
92 KOG1940 Zn-finger protein [Gen 96.1 0.0043 9.3E-08 45.3 2.4 46 71-117 158-204 (276)
93 KOG1100 Predicted E3 ubiquitin 96.1 0.0029 6.3E-08 44.5 1.4 41 74-122 161-202 (207)
94 KOG2932 E3 ubiquitin ligase in 96.0 0.0026 5.7E-08 46.8 1.0 43 73-121 92-135 (389)
95 KOG1001 Helicase-like transcri 96.0 0.0016 3.5E-08 53.3 -0.2 49 72-125 455-505 (674)
96 PF03854 zf-P11: P-11 zinc fin 95.6 0.0082 1.8E-07 31.8 1.5 44 73-122 4-48 (50)
97 PF14447 Prok-RING_4: Prokaryo 95.3 0.011 2.4E-07 32.4 1.5 46 72-123 8-53 (55)
98 KOG0309 Conserved WD40 repeat- 95.1 0.012 2.7E-07 48.3 1.9 40 73-114 1030-1069(1081)
99 COG5220 TFB3 Cdk activating ki 94.9 0.006 1.3E-07 43.5 -0.3 67 70-136 9-80 (314)
100 KOG0802 E3 ubiquitin ligase [P 94.6 0.024 5.2E-07 45.6 2.3 57 69-133 477-533 (543)
101 KOG0298 DEAD box-containing he 94.6 0.011 2.3E-07 51.1 0.2 49 69-120 1151-1199(1394)
102 COG5183 SSM4 Protein involved 94.4 0.035 7.6E-07 46.1 2.8 56 67-123 8-69 (1175)
103 PF10272 Tmpp129: Putative tra 94.3 0.04 8.8E-07 41.9 2.8 29 93-121 311-352 (358)
104 PF13901 DUF4206: Domain of un 94.1 0.045 9.8E-07 38.4 2.5 42 70-117 151-197 (202)
105 PF07975 C1_4: TFIIH C1-like d 94.0 0.053 1.2E-06 29.4 2.2 43 74-116 2-50 (51)
106 KOG3053 Uncharacterized conser 93.8 0.031 6.7E-07 40.3 1.2 53 69-121 18-83 (293)
107 PF11023 DUF2614: Protein of u 93.7 0.34 7.5E-06 30.6 5.6 30 88-123 70-99 (114)
108 KOG3899 Uncharacterized conser 93.4 0.047 1E-06 40.1 1.7 32 93-124 325-369 (381)
109 KOG3161 Predicted E3 ubiquitin 93.4 0.025 5.4E-07 45.7 0.2 43 72-117 12-54 (861)
110 KOG3800 Predicted E3 ubiquitin 93.3 0.041 8.8E-07 40.3 1.2 56 73-128 2-59 (300)
111 KOG2817 Predicted E3 ubiquitin 93.1 0.47 1E-05 36.4 6.6 53 69-122 332-387 (394)
112 KOG0269 WD40 repeat-containing 93.0 0.078 1.7E-06 43.7 2.4 41 72-114 780-820 (839)
113 PF05290 Baculo_IE-1: Baculovi 92.3 0.14 3E-06 33.4 2.4 54 70-123 79-135 (140)
114 KOG1812 Predicted E3 ubiquitin 92.2 0.053 1.1E-06 41.8 0.6 59 70-129 145-212 (384)
115 KOG3113 Uncharacterized conser 92.1 0.13 2.8E-06 37.1 2.4 59 69-129 109-167 (293)
116 KOG1609 Protein involved in mR 91.9 0.11 2.4E-06 38.6 2.0 52 71-122 78-136 (323)
117 KOG4362 Transcriptional regula 91.4 0.049 1.1E-06 44.5 -0.3 50 70-123 20-72 (684)
118 PF02439 Adeno_E3_CR2: Adenovi 91.0 0.96 2.1E-05 22.8 4.2 22 4-25 7-28 (38)
119 PF06906 DUF1272: Protein of u 90.5 0.65 1.4E-05 25.5 3.6 48 71-123 5-55 (57)
120 KOG0825 PHD Zn-finger protein 90.0 0.26 5.6E-06 41.1 2.5 54 70-123 95-157 (1134)
121 PF14569 zf-UDP: Zinc-binding 89.9 0.83 1.8E-05 26.9 3.9 67 70-137 8-78 (80)
122 PF15050 SCIMP: SCIMP protein 89.9 0.97 2.1E-05 28.9 4.5 32 5-37 10-41 (133)
123 TIGR00622 ssl1 transcription f 89.6 0.49 1.1E-05 30.0 3.0 45 72-116 56-110 (112)
124 PLN02189 cellulose synthase 88.7 0.78 1.7E-05 39.6 4.5 55 69-123 32-90 (1040)
125 PF02891 zf-MIZ: MIZ/SP-RING z 88.7 0.47 1E-05 25.5 2.2 42 73-118 4-50 (50)
126 KOG3005 GIY-YIG type nuclease 87.9 0.22 4.8E-06 36.2 0.8 52 70-121 181-244 (276)
127 PF12273 RCR: Chitin synthesis 87.8 0.55 1.2E-05 30.5 2.6 7 29-35 22-28 (130)
128 KOG4718 Non-SMC (structural ma 87.8 0.32 6.9E-06 34.2 1.4 47 70-119 180-226 (235)
129 KOG1812 Predicted E3 ubiquitin 87.2 0.27 5.9E-06 37.9 0.9 46 71-117 306-353 (384)
130 smart00249 PHD PHD zinc finger 87.1 0.56 1.2E-05 23.9 1.9 31 73-104 1-31 (47)
131 PF13719 zinc_ribbon_5: zinc-r 86.8 0.45 9.6E-06 23.9 1.3 26 73-98 4-36 (37)
132 KOG2066 Vacuolar assembly/sort 86.8 0.25 5.4E-06 41.1 0.5 44 70-115 783-830 (846)
133 PLN02400 cellulose synthase 86.4 1 2.3E-05 39.0 3.9 54 70-123 35-92 (1085)
134 KOG4367 Predicted Zn-finger pr 85.9 0.41 8.9E-06 37.4 1.3 34 70-107 3-36 (699)
135 KOG1829 Uncharacterized conser 85.1 0.2 4.3E-06 40.5 -0.7 53 69-125 509-566 (580)
136 PF00628 PHD: PHD-finger; Int 85.0 0.59 1.3E-05 24.8 1.3 43 73-116 1-49 (51)
137 PLN02436 cellulose synthase A 84.7 1.8 3.9E-05 37.6 4.5 54 70-123 35-92 (1094)
138 KOG3842 Adaptor protein Pellin 84.5 1.7 3.6E-05 32.7 3.8 53 69-122 339-416 (429)
139 PF02439 Adeno_E3_CR2: Adenovi 84.4 3.6 7.8E-05 20.8 3.8 28 6-33 6-33 (38)
140 PLN02638 cellulose synthase A 82.2 2.5 5.5E-05 36.8 4.5 54 70-123 16-73 (1079)
141 PF15102 TMEM154: TMEM154 prot 81.1 0.48 1E-05 31.4 -0.0 6 102-107 130-135 (146)
142 COG5109 Uncharacterized conser 80.9 1.3 2.8E-05 33.2 2.1 47 70-117 335-384 (396)
143 PF04423 Rad50_zn_hook: Rad50 80.9 0.58 1.3E-05 25.5 0.3 14 110-123 21-34 (54)
144 PF06024 DUF912: Nucleopolyhed 80.6 0.96 2.1E-05 28.1 1.2 18 6-23 65-82 (101)
145 PF10571 UPF0547: Uncharacteri 80.6 0.93 2E-05 20.9 0.9 23 73-97 2-24 (26)
146 PF06844 DUF1244: Protein of u 80.3 1.1 2.4E-05 25.5 1.3 12 96-107 11-22 (68)
147 KOG1815 Predicted E3 ubiquitin 79.9 1.2 2.7E-05 35.0 1.9 59 69-130 68-136 (444)
148 PF10577 UPF0560: Uncharacteri 79.1 2.9 6.3E-05 35.2 3.8 14 2-15 275-288 (807)
149 PF07423 DUF1510: Protein of u 79.0 1.7 3.6E-05 30.9 2.1 14 2-15 15-28 (217)
150 PF10717 ODV-E18: Occlusion-de 78.5 2.7 5.9E-05 25.1 2.6 6 3-8 28-33 (85)
151 smart00132 LIM Zinc-binding do 78.1 1.6 3.4E-05 21.3 1.4 37 73-119 1-37 (39)
152 KOG3039 Uncharacterized conser 77.3 1.9 4.2E-05 31.2 2.0 35 69-107 41-75 (303)
153 KOG2068 MOT2 transcription fac 77.2 3.1 6.8E-05 31.3 3.2 52 71-123 249-301 (327)
154 PF01363 FYVE: FYVE zinc finge 75.8 1.2 2.7E-05 25.3 0.6 37 70-106 8-44 (69)
155 KOG3579 Predicted E3 ubiquitin 75.7 1.6 3.5E-05 32.2 1.3 39 70-109 267-306 (352)
156 cd04718 BAH_plant_2 BAH, or Br 75.6 0.85 1.8E-05 30.4 -0.1 37 97-133 2-42 (148)
157 KOG2807 RNA polymerase II tran 75.4 2.9 6.3E-05 31.5 2.6 46 70-116 329-374 (378)
158 KOG3799 Rab3 effector RIM1 and 74.9 0.64 1.4E-05 30.4 -0.8 59 69-135 63-135 (169)
159 PF10497 zf-4CXXC_R1: Zinc-fin 74.8 6.5 0.00014 24.6 3.8 51 70-120 6-72 (105)
160 PLN02915 cellulose synthase A 74.3 6.3 0.00014 34.4 4.6 53 70-122 14-70 (1044)
161 PLN02195 cellulose synthase A 73.9 5.4 0.00012 34.5 4.1 51 69-120 4-59 (977)
162 PF15179 Myc_target_1: Myc tar 73.4 12 0.00027 25.9 5.0 25 2-26 22-46 (197)
163 PF04216 FdhE: Protein involve 72.1 0.63 1.4E-05 34.5 -1.5 46 70-118 171-220 (290)
164 cd00065 FYVE FYVE domain; Zinc 71.9 3.8 8.1E-05 22.1 2.0 36 72-107 3-38 (57)
165 PF10083 DUF2321: Uncharacteri 70.3 2.4 5.1E-05 28.5 1.0 45 75-122 8-52 (158)
166 PF07649 C1_3: C1-like domain; 70.0 5 0.00011 18.8 1.9 29 73-102 2-30 (30)
167 smart00647 IBR In Between Ring 69.8 1.3 2.7E-05 24.5 -0.3 22 85-106 38-59 (64)
168 PF14654 Epiglycanin_C: Mucin, 67.9 13 0.00028 22.9 3.8 24 5-28 21-44 (106)
169 PF06679 DUF1180: Protein of u 67.7 8.6 0.00019 26.1 3.3 24 10-33 98-121 (163)
170 cd00350 rubredoxin_like Rubred 67.6 3.3 7.3E-05 20.0 1.0 20 92-117 6-25 (33)
171 PF01102 Glycophorin_A: Glycop 67.3 5.1 0.00011 25.9 2.1 12 26-37 83-94 (122)
172 COG3813 Uncharacterized protei 67.1 8.2 0.00018 22.4 2.7 51 72-126 6-58 (84)
173 PF04710 Pellino: Pellino; In 67.0 1.8 3.9E-05 33.4 0.0 51 70-121 327-402 (416)
174 smart00064 FYVE Protein presen 66.8 6.2 0.00013 22.2 2.2 37 71-107 10-46 (68)
175 PF13717 zinc_ribbon_4: zinc-r 66.7 3.2 6.9E-05 20.6 0.9 14 72-85 3-16 (36)
176 PF07191 zinc-ribbons_6: zinc- 65.9 1.6 3.5E-05 25.2 -0.4 41 72-121 2-42 (70)
177 KOG2041 WD40 repeat protein [G 65.9 6.6 0.00014 33.1 2.9 29 89-121 1158-1186(1189)
178 KOG0824 Predicted E3 ubiquitin 65.8 2.9 6.2E-05 31.2 0.8 52 68-122 102-153 (324)
179 PF06667 PspB: Phage shock pro 65.6 16 0.00035 21.4 3.8 10 6-15 6-15 (75)
180 KOG2979 Protein involved in DN 65.3 4.5 9.8E-05 29.5 1.7 41 71-114 176-218 (262)
181 smart00531 TFIIE Transcription 65.0 7.2 0.00016 25.9 2.6 15 109-123 123-137 (147)
182 PF05605 zf-Di19: Drought indu 64.7 1.4 3E-05 23.9 -0.8 37 71-118 2-40 (54)
183 PF00539 Tat: Transactivating 64.6 5.2 0.00011 23.0 1.5 43 78-131 13-55 (68)
184 PRK03564 formate dehydrogenase 64.6 3.9 8.6E-05 30.7 1.4 47 70-117 186-234 (309)
185 PF14169 YdjO: Cold-inducible 64.2 4.2 9.1E-05 22.7 1.1 14 109-122 39-52 (59)
186 COG4357 Zinc finger domain con 63.5 7.6 0.00016 23.9 2.2 29 93-122 65-93 (105)
187 PRK13718 conjugal transfer pro 62.9 26 0.00056 20.7 4.2 10 10-19 49-58 (84)
188 PF14311 DUF4379: Domain of un 62.4 7.3 0.00016 21.1 1.9 23 92-115 33-55 (55)
189 PF05191 ADK_lid: Adenylate ki 61.4 3.1 6.8E-05 20.7 0.2 29 90-120 4-32 (36)
190 PF00412 LIM: LIM domain; Int 61.1 5.1 0.00011 21.5 1.1 40 74-123 1-40 (58)
191 PF06676 DUF1178: Protein of u 60.2 5.1 0.00011 26.8 1.2 32 93-129 10-52 (148)
192 PRK09458 pspB phage shock prot 59.7 23 0.00049 20.8 3.6 12 4-15 4-15 (75)
193 PRK05978 hypothetical protein; 59.5 7.4 0.00016 26.0 1.8 25 94-123 42-66 (148)
194 PF07379 DUF1494: Protein of u 59.1 16 0.00035 24.7 3.3 23 1-23 6-28 (170)
195 PF05454 DAG1: Dystroglycan (D 58.5 3.2 7E-05 30.9 0.0 21 6-26 150-170 (290)
196 PF09723 Zn-ribbon_8: Zinc rib 57.7 2.2 4.9E-05 21.9 -0.7 25 92-117 10-34 (42)
197 PF03597 CcoS: Cytochrome oxid 57.3 26 0.00056 18.4 3.3 9 7-15 7-15 (45)
198 PF06679 DUF1180: Protein of u 57.3 22 0.00047 24.2 3.8 34 4-37 96-129 (163)
199 PF06750 DiS_P_DiS: Bacterial 57.1 8.1 0.00018 23.5 1.6 39 71-122 33-71 (92)
200 KOG2231 Predicted E3 ubiquitin 56.5 11 0.00024 31.3 2.7 52 73-128 2-60 (669)
201 TIGR01562 FdhE formate dehydro 56.1 6.3 0.00014 29.6 1.2 48 70-118 183-233 (305)
202 PF05715 zf-piccolo: Piccolo Z 55.9 8.1 0.00018 21.6 1.3 12 109-120 2-13 (61)
203 COG4967 PilV Tfp pilus assembl 53.4 34 0.00073 23.3 4.2 24 2-25 14-37 (162)
204 PF06937 EURL: EURL protein; 53.2 13 0.00028 27.4 2.3 49 72-122 31-81 (285)
205 PRK11827 hypothetical protein; 53.0 5.7 0.00012 22.3 0.4 19 104-122 3-21 (60)
206 KOG1729 FYVE finger containing 53.0 2.2 4.8E-05 31.7 -1.6 37 72-109 215-251 (288)
207 COG1592 Rubrerythrin [Energy p 53.0 9 0.0002 26.1 1.4 25 87-118 134-158 (166)
208 TIGR02523 type_IV_pilV type IV 52.8 28 0.0006 23.0 3.7 25 2-26 6-30 (139)
209 COG3492 Uncharacterized protei 52.5 7.8 0.00017 23.6 0.9 13 96-108 42-54 (104)
210 PF10146 zf-C4H2: Zinc finger- 51.8 11 0.00024 27.1 1.8 26 98-123 197-222 (230)
211 KOG4185 Predicted E3 ubiquitin 51.7 2.2 4.7E-05 31.6 -1.9 49 70-118 206-265 (296)
212 PF13633 N_methyl_3: Prokaryot 51.3 23 0.00049 15.6 2.3 16 2-17 3-18 (22)
213 PF07282 OrfB_Zn_ribbon: Putat 50.9 14 0.00031 20.8 1.9 34 71-104 28-63 (69)
214 KOG4218 Nuclear hormone recept 50.6 5.4 0.00012 30.4 0.1 48 69-118 13-76 (475)
215 PRK11088 rrmA 23S rRNA methylt 50.0 12 0.00026 27.3 1.8 25 72-97 3-27 (272)
216 TIGR00686 phnA alkylphosphonat 49.7 14 0.00031 23.2 1.8 24 72-95 3-27 (109)
217 PLN02248 cellulose synthase-li 49.6 22 0.00048 31.5 3.5 36 89-124 145-181 (1135)
218 KOG1815 Predicted E3 ubiquitin 49.1 5.1 0.00011 31.6 -0.2 40 70-109 225-268 (444)
219 KOG4323 Polycomb-like PHD Zn-f 48.9 7.3 0.00016 30.9 0.6 53 71-123 168-229 (464)
220 PF13453 zf-TFIIB: Transcripti 48.4 8.4 0.00018 19.5 0.6 12 111-122 1-12 (41)
221 KOG1512 PHD Zn-finger protein 48.2 8 0.00017 28.8 0.6 30 73-103 316-345 (381)
222 PF15616 TerY-C: TerY-C metal 48.0 8.6 0.00019 25.2 0.7 44 70-123 76-119 (131)
223 PF03107 C1_2: C1 domain; Int 48.0 15 0.00032 17.2 1.4 28 73-101 2-29 (30)
224 PF12292 DUF3624: Protein of u 47.5 47 0.001 19.6 3.6 24 7-30 50-73 (77)
225 KOG1538 Uncharacterized conser 47.4 10 0.00022 31.8 1.1 33 88-120 1045-1077(1081)
226 KOG2113 Predicted RNA binding 46.4 18 0.00039 27.4 2.2 44 71-120 343-387 (394)
227 PF13832 zf-HC5HC2H_2: PHD-zin 46.3 18 0.0004 22.4 2.0 32 70-104 54-87 (110)
228 PRK04023 DNA polymerase II lar 46.0 16 0.00034 32.0 2.1 49 69-123 624-677 (1121)
229 COG2835 Uncharacterized conser 45.9 9.2 0.0002 21.4 0.5 13 110-122 9-21 (60)
230 PF15050 SCIMP: SCIMP protein 45.9 25 0.00055 22.6 2.5 28 1-28 10-37 (133)
231 TIGR01710 typeII_sec_gspG gene 45.6 47 0.001 21.5 3.9 21 2-22 5-25 (134)
232 KOG1245 Chromatin remodeling c 45.5 8.1 0.00018 35.0 0.4 50 70-120 1107-1160(1404)
233 PF12072 DUF3552: Domain of un 45.4 38 0.00082 23.7 3.7 19 4-22 2-20 (201)
234 smart00734 ZnF_Rad18 Rad18-lik 44.5 12 0.00025 17.1 0.7 12 110-121 2-13 (26)
235 PRK06266 transcription initiat 44.5 36 0.00078 23.4 3.4 17 106-122 133-149 (178)
236 PF06084 Cytomega_TRL10: Cytom 44.4 21 0.00045 22.8 2.0 29 3-31 54-82 (150)
237 PF06677 Auto_anti-p27: Sjogre 44.4 19 0.0004 18.5 1.5 20 103-122 11-30 (41)
238 COG4847 Uncharacterized protei 44.3 30 0.00065 21.3 2.6 36 71-108 6-41 (103)
239 TIGR00373 conserved hypothetic 44.1 32 0.0007 23.1 3.1 17 107-123 126-142 (158)
240 PF15128 T_cell_tran_alt: T-ce 44.0 71 0.0015 19.2 5.4 21 43-63 63-83 (92)
241 KOG4451 Uncharacterized conser 43.9 22 0.00047 25.6 2.2 27 98-124 252-278 (286)
242 PF15353 HECA: Headcase protei 43.9 16 0.00035 22.9 1.4 14 93-106 40-53 (107)
243 PRK10220 hypothetical protein; 43.6 23 0.00049 22.4 2.0 24 72-95 4-28 (111)
244 PF03119 DNA_ligase_ZBD: NAD-d 43.4 9.2 0.0002 17.8 0.2 12 111-122 1-12 (28)
245 TIGR02605 CxxC_CxxC_SSSS putat 43.1 6.4 0.00014 20.9 -0.4 22 91-117 9-34 (52)
246 PRK01343 zinc-binding protein; 43.0 16 0.00036 20.2 1.2 12 109-120 9-20 (57)
247 COG5627 MMS21 DNA repair prote 42.9 13 0.00028 26.9 1.0 41 70-113 188-230 (275)
248 KOG0289 mRNA splicing factor [ 42.7 23 0.0005 28.0 2.4 57 73-132 2-58 (506)
249 PRK11677 hypothetical protein; 42.4 38 0.00082 22.3 3.1 20 3-22 1-20 (134)
250 PF09237 GAGA: GAGA factor; I 41.9 9.3 0.0002 20.7 0.1 11 111-121 26-36 (54)
251 COG1545 Predicted nucleic-acid 41.7 20 0.00043 23.7 1.7 22 90-119 32-53 (140)
252 PF15176 LRR19-TM: Leucine-ric 41.2 89 0.0019 19.5 5.1 35 5-39 19-54 (102)
253 PF09435 DUF2015: Fungal prote 41.0 1E+02 0.0022 20.1 5.6 16 48-63 54-69 (128)
254 PF13771 zf-HC5HC2H: PHD-like 40.5 21 0.00045 21.1 1.6 34 70-104 35-68 (90)
255 PF08274 PhnA_Zn_Ribbon: PhnA 40.1 13 0.00027 17.7 0.4 23 73-95 4-27 (30)
256 COG4647 AcxC Acetone carboxyla 39.9 17 0.00036 23.8 1.1 24 72-99 58-81 (165)
257 COG2165 PulG Type II secretory 39.6 55 0.0012 20.7 3.6 27 2-28 12-38 (149)
258 PHA03255 BDLF3; Provisional 39.2 39 0.00085 23.2 2.8 22 8-29 184-205 (234)
259 PHA03286 envelope glycoprotein 38.8 70 0.0015 25.6 4.4 11 104-116 476-486 (492)
260 KOG4577 Transcription factor L 38.6 7.7 0.00017 28.9 -0.6 40 71-120 92-131 (383)
261 PRK04778 septation ring format 38.5 44 0.00095 27.4 3.5 18 1-18 1-18 (569)
262 PF04906 Tweety: Tweety; Inte 38.3 86 0.0019 24.6 5.0 14 5-18 21-34 (406)
263 PHA02610 uvsY.-2 hypothetical 37.8 16 0.00035 19.7 0.7 12 110-121 2-13 (53)
264 COG1862 YajC Preprotein transl 37.7 30 0.00065 21.4 1.9 15 19-33 18-32 (97)
265 COG3364 Zn-ribbon containing p 37.3 18 0.00039 22.6 0.9 23 92-118 7-29 (112)
266 PRK10332 hypothetical protein; 37.2 69 0.0015 20.2 3.5 25 2-26 13-37 (107)
267 PF02318 FYVE_2: FYVE-type zin 37.0 25 0.00054 22.3 1.6 46 70-117 53-102 (118)
268 PRK12705 hypothetical protein; 36.9 67 0.0014 26.1 4.2 24 3-26 3-26 (508)
269 PF05502 Dynactin_p62: Dynacti 36.5 19 0.00041 28.9 1.2 16 70-85 25-40 (483)
270 PRK00523 hypothetical protein; 36.5 90 0.0019 18.2 4.5 12 5-16 8-19 (72)
271 PRK01844 hypothetical protein; 36.1 91 0.002 18.2 4.4 11 6-16 8-18 (72)
272 PF05915 DUF872: Eukaryotic pr 35.6 87 0.0019 19.9 3.9 25 4-28 43-67 (115)
273 PF09777 OSTMP1: Osteopetrosis 35.1 62 0.0013 23.4 3.5 17 6-22 192-208 (237)
274 PF15179 Myc_target_1: Myc tar 34.5 1.4E+02 0.0031 20.8 4.9 25 9-33 26-50 (197)
275 PF14851 FAM176: FAM176 family 34.4 1.1E+02 0.0023 20.7 4.3 14 10-23 28-41 (153)
276 KOG2071 mRNA cleavage and poly 34.1 26 0.00056 28.7 1.6 35 69-105 511-556 (579)
277 PF07423 DUF1510: Protein of u 34.0 42 0.00091 24.0 2.5 22 6-27 15-36 (217)
278 PHA02657 hypothetical protein; 33.9 97 0.0021 18.7 3.6 10 54-63 76-85 (95)
279 cd00730 rubredoxin Rubredoxin; 33.9 51 0.0011 17.6 2.3 39 73-118 3-43 (50)
280 PF15361 RIC3: Resistance to i 33.7 1E+02 0.0022 20.7 4.2 19 9-27 84-102 (152)
281 PRK00418 DNA gyrase inhibitor; 33.6 22 0.00047 20.1 0.8 11 110-120 7-17 (62)
282 TIGR01707 gspI general secreti 33.5 84 0.0018 19.4 3.5 22 2-23 4-25 (101)
283 KOG4443 Putative transcription 33.5 18 0.0004 30.0 0.7 49 71-120 18-73 (694)
284 PF09943 DUF2175: Uncharacteri 33.4 42 0.00091 20.9 2.1 32 73-106 4-35 (101)
285 PF02060 ISK_Channel: Slow vol 33.3 1E+02 0.0022 20.1 3.8 6 13-18 53-58 (129)
286 PF11770 GAPT: GRB2-binding ad 33.2 51 0.0011 22.1 2.5 19 10-28 10-28 (158)
287 PF13260 DUF4051: Protein of u 33.1 82 0.0018 16.7 3.3 6 28-33 26-31 (54)
288 PF07234 DUF1426: Protein of u 32.3 1.3E+02 0.0028 18.7 4.1 14 4-17 13-26 (117)
289 TIGR02598 Verrucomicrobium spi 32.2 82 0.0018 21.2 3.4 24 2-25 4-27 (151)
290 PF15378 DUF4605: Domain of un 32.2 98 0.0021 17.3 3.7 23 3-25 29-51 (60)
291 COG5415 Predicted integral mem 31.7 16 0.00035 25.9 0.1 28 93-120 195-225 (251)
292 PF11084 DUF2621: Protein of u 31.2 1.2E+02 0.0025 20.0 3.9 24 2-25 6-29 (141)
293 PF03884 DUF329: Domain of unk 30.8 21 0.00046 19.7 0.4 9 112-120 5-13 (57)
294 PF05083 LST1: LST-1 protein; 30.6 1E+02 0.0022 17.9 3.1 16 45-60 36-51 (74)
295 PF07406 NICE-3: NICE-3 protei 30.2 57 0.0012 22.7 2.6 15 99-113 126-142 (186)
296 KOG4021 Mitochondrial ribosoma 30.2 29 0.00063 24.3 1.1 24 99-122 97-121 (239)
297 PRK02935 hypothetical protein; 30.1 1.2E+02 0.0026 19.1 3.7 19 104-122 81-99 (110)
298 COG1622 CyoA Heme/copper-type 29.9 1.4E+02 0.0031 21.7 4.7 12 102-113 216-227 (247)
299 COG4306 Uncharacterized protei 29.9 31 0.00066 22.4 1.1 24 96-122 29-52 (160)
300 COG3105 Uncharacterized protei 29.8 1E+02 0.0022 20.2 3.4 20 2-21 5-24 (138)
301 PF07214 DUF1418: Protein of u 29.4 1.4E+02 0.0031 18.4 4.2 26 7-32 44-69 (96)
302 TIGR01367 pyrE_Therm orotate p 29.3 27 0.00058 24.1 0.9 16 110-125 170-185 (187)
303 PF11119 DUF2633: Protein of u 29.3 70 0.0015 17.8 2.3 22 14-35 16-37 (59)
304 PF14768 RPA_interact_C: Repli 29.2 40 0.00086 20.0 1.5 11 112-122 2-12 (82)
305 PF07227 DUF1423: Protein of u 29.2 42 0.00091 26.6 1.9 31 73-104 130-163 (446)
306 cd00729 rubredoxin_SM Rubredox 29.1 34 0.00074 16.6 1.0 8 110-117 19-26 (34)
307 COG3478 Predicted nucleic-acid 28.8 35 0.00076 19.4 1.1 14 110-123 5-18 (68)
308 smart00109 C1 Protein kinase C 28.6 60 0.0013 16.3 2.0 35 70-104 10-44 (49)
309 PF10886 DUF2685: Protein of u 28.2 34 0.00073 18.7 0.9 12 111-122 3-14 (54)
310 PF11682 DUF3279: Protein of u 27.7 30 0.00064 22.6 0.8 16 109-124 110-125 (128)
311 PF07178 TraL: TraL protein; 27.4 1.5E+02 0.0032 17.9 4.0 11 26-36 51-61 (95)
312 PF12773 DZR: Double zinc ribb 27.2 63 0.0014 16.7 1.9 11 110-120 30-40 (50)
313 TIGR01708 typeII_sec_gspH gene 26.7 1.1E+02 0.0024 19.7 3.4 21 2-22 8-28 (143)
314 PF15298 AJAP1_PANP_C: AJAP1/P 26.6 28 0.0006 24.5 0.5 19 7-25 106-124 (205)
315 PF14584 DUF4446: Protein of u 26.6 51 0.0011 22.1 1.8 22 58-80 85-106 (151)
316 PF01485 IBR: IBR domain; Int 26.5 5.8 0.00013 21.7 -2.4 33 73-105 20-58 (64)
317 PF00130 C1_1: Phorbol esters/ 26.5 58 0.0013 17.0 1.7 34 70-104 10-45 (53)
318 PRK10574 putative major pilin 26.5 1.5E+02 0.0032 19.7 4.0 24 2-25 9-32 (146)
319 COG1996 RPC10 DNA-directed RNA 26.4 44 0.00095 17.9 1.2 12 111-122 26-37 (49)
320 TIGR02098 MJ0042_CXXC MJ0042 f 25.8 70 0.0015 15.5 1.8 8 111-118 27-34 (38)
321 PF14205 Cys_rich_KTR: Cystein 25.4 32 0.0007 18.8 0.5 12 111-122 30-41 (55)
322 PF05795 Plasmodium_Vir: Plasm 25.2 77 0.0017 23.6 2.8 11 12-22 290-300 (354)
323 PRK11595 DNA utilization prote 25.2 88 0.0019 22.2 2.9 39 72-119 6-44 (227)
324 PF03954 Lectin_N: Hepatic lec 24.9 1.1E+02 0.0023 20.3 3.0 21 9-29 35-55 (138)
325 smart00659 RPOLCX RNA polymera 24.8 63 0.0014 16.7 1.6 13 110-122 20-32 (44)
326 COG3809 Uncharacterized protei 24.7 32 0.00068 20.4 0.4 13 110-122 22-34 (88)
327 COG0777 AccD Acetyl-CoA carbox 24.6 84 0.0018 23.5 2.7 33 85-120 26-58 (294)
328 PF14353 CpXC: CpXC protein 24.5 74 0.0016 20.3 2.2 13 110-122 39-51 (128)
329 PF10235 Cript: Microtubule-as 24.5 70 0.0015 19.5 1.9 39 71-122 44-82 (90)
330 PF02148 zf-UBP: Zn-finger in 24.4 64 0.0014 17.8 1.7 24 74-100 1-24 (63)
331 PF02132 RecR: RecR protein; 24.4 19 0.00041 18.3 -0.5 12 69-80 27-38 (41)
332 COG2824 PhnA Uncharacterized Z 24.4 66 0.0014 20.3 1.8 12 72-83 4-15 (112)
333 PF09802 Sec66: Preprotein tra 24.2 1.5E+02 0.0033 20.7 3.8 30 4-33 5-34 (190)
334 PF07095 IgaA: Intracellular g 24.2 2.6E+02 0.0056 23.8 5.6 11 94-105 150-160 (705)
335 PF08209 Sgf11: Sgf11 (transcr 24.2 33 0.0007 16.7 0.4 12 111-122 6-17 (33)
336 TIGR02736 cbb3_Q_epsi cytochro 24.1 1.4E+02 0.003 16.4 3.4 14 19-32 14-27 (56)
337 PHA02681 ORF089 virion membran 24.0 1.7E+02 0.0038 17.5 4.9 10 47-56 51-60 (92)
338 KOG3352 Cytochrome c oxidase, 24.0 45 0.00098 22.4 1.1 7 73-80 113-119 (153)
339 PRK10557 hypothetical protein; 23.9 1.8E+02 0.0039 20.2 4.2 24 2-25 11-34 (192)
340 COG0353 RecR Recombinational D 23.9 69 0.0015 22.5 2.1 22 68-89 63-84 (198)
341 PF03966 Trm112p: Trm112p-like 23.5 52 0.0011 18.5 1.2 6 92-97 58-63 (68)
342 KOG1140 N-end rule pathway, re 23.4 54 0.0012 30.6 1.8 15 93-107 1151-1165(1738)
343 PF12191 stn_TNFRSF12A: Tumour 23.4 28 0.0006 22.6 0.1 6 8-13 84-89 (129)
344 PF13913 zf-C2HC_2: zinc-finge 23.3 26 0.00057 15.6 -0.0 11 111-121 4-14 (25)
345 PF09538 FYDLN_acid: Protein o 23.2 77 0.0017 20.0 2.0 11 72-82 10-20 (108)
346 TIGR02532 IV_pilin_GFxxxE prep 22.9 92 0.002 14.0 2.8 14 3-16 7-20 (26)
347 PHA00626 hypothetical protein 22.9 78 0.0017 17.5 1.7 10 112-121 26-35 (59)
348 PF07010 Endomucin: Endomucin; 22.7 2.9E+02 0.0063 20.1 5.0 10 16-25 205-214 (259)
349 PF07213 DAP10: DAP10 membrane 22.4 1.8E+02 0.004 17.2 4.1 23 7-29 37-59 (79)
350 PF02723 NS3_envE: Non-structu 22.3 1.9E+02 0.0041 17.3 4.3 22 6-27 21-42 (82)
351 PF06467 zf-FCS: MYM-type Zinc 22.3 1E+02 0.0022 15.2 2.1 34 71-104 6-42 (43)
352 COG4968 PilE Tfp pilus assembl 22.2 2E+02 0.0044 19.0 3.8 13 3-15 11-23 (139)
353 PF07620 SLEI_Leptospira: SLEI 22.2 35 0.00075 13.7 0.2 9 135-143 5-13 (16)
354 PF13172 PepSY_TM_1: PepSY-ass 22.0 1.1E+02 0.0024 14.5 2.9 14 5-18 14-27 (34)
355 PF10764 Gin: Inhibitor of sig 21.9 1.1E+02 0.0024 16.0 2.2 31 73-108 1-31 (46)
356 PF13894 zf-C2H2_4: C2H2-type 21.9 43 0.00094 13.7 0.6 9 112-120 3-11 (24)
357 PF10577 UPF0560: Uncharacteri 21.6 1.9E+02 0.004 25.1 4.4 18 12-29 282-299 (807)
358 KOG4583 Membrane-associated ER 21.6 2.4E+02 0.0053 21.8 4.6 17 13-29 289-305 (391)
359 PF13150 DUF3989: Protein of u 21.5 2E+02 0.0043 17.3 4.2 22 10-31 32-53 (85)
360 PRK00420 hypothetical protein; 21.5 85 0.0018 20.0 2.0 12 110-121 41-52 (112)
361 KOG1631 Translocon-associated 21.3 1.8E+02 0.004 21.1 3.7 9 7-15 187-195 (261)
362 PRK10506 hypothetical protein; 21.3 2.3E+02 0.005 18.9 4.2 21 2-22 13-33 (162)
363 COG0675 Transposase and inacti 21.1 74 0.0016 23.4 2.0 28 71-101 309-336 (364)
364 COG2212 MnhF Multisubunit Na+/ 21.1 2.1E+02 0.0045 17.4 4.2 28 1-28 1-28 (89)
365 PF15345 TMEM51: Transmembrane 20.9 56 0.0012 23.6 1.2 19 19-37 71-89 (233)
366 KOG1819 FYVE finger-containing 20.8 26 0.00056 28.4 -0.5 33 71-103 901-933 (990)
367 TIGR02194 GlrX_NrdH Glutaredox 20.8 19 0.0004 20.3 -1.1 13 108-120 5-17 (72)
368 PF11773 PulG: Type II secreto 20.7 1.8E+02 0.0039 17.4 3.1 21 2-22 2-22 (82)
369 KOG1973 Chromatin remodeling p 20.7 18 0.00039 26.7 -1.4 29 92-120 239-270 (274)
370 PRK00398 rpoP DNA-directed RNA 20.6 46 0.00099 17.1 0.5 14 109-122 21-34 (46)
371 COG5141 PHD zinc finger-contai 20.4 62 0.0013 26.2 1.4 34 69-102 191-225 (669)
372 KOG4430 Topoisomerase I-bindin 20.2 32 0.0007 28.0 -0.1 54 69-122 258-311 (553)
373 PF11781 RRN7: RNA polymerase 20.1 65 0.0014 15.9 1.0 16 111-126 10-25 (36)
374 KOG0803 Predicted E3 ubiquitin 20.1 38 0.00082 30.8 0.2 52 70-122 1060-1117(1312)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=1.7e-23 Score=153.74 Aligned_cols=79 Identities=34% Similarity=0.826 Sum_probs=69.6
Q ss_pred CCCCCCChHHhhcCCeeeecccccCCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCC-CccccCccCC
Q 032328 43 GGFKMISSDDLKQIPCFEYKAAADRGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPI-CPICRTRVSP 121 (143)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~-CP~CR~~i~~ 121 (143)
.+..++.++.+.++|...|+..++.... +.|+||||+|++||++++|| |+|.||..||++||....+ ||+||+++..
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 4556678899999999999997777655 89999999999999999999 9999999999999988755 9999998876
Q ss_pred CC
Q 032328 122 SK 123 (143)
Q Consensus 122 ~~ 123 (143)
..
T Consensus 280 ~~ 281 (348)
T KOG4628|consen 280 DS 281 (348)
T ss_pred CC
Confidence 64
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=99.77 E-value=1e-19 Score=97.39 Aligned_cols=44 Identities=48% Similarity=1.183 Sum_probs=40.4
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
++|+||++++..++.+..++ |||.||.+|+.+|++.+.+||+||
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 47999999999999999999 999999999999999999999997
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.63 E-value=3e-16 Score=92.51 Aligned_cols=46 Identities=35% Similarity=0.850 Sum_probs=36.0
Q ss_pred CCCccccccccccCC----------CeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 70 SPVDCVVCLENFRMG----------DKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~----------~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
.++.|+||++++.+. -.+...+ |||.||..||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 455699999999332 2344445 999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.62 E-value=4.3e-16 Score=110.31 Aligned_cols=75 Identities=29% Similarity=0.572 Sum_probs=54.3
Q ss_pred CCChHHhhcCCeeeeccccc-CCCCCCccccccccccCCCe----eeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 47 MISSDDLKQIPCFEYKAAAD-RGSSPVDCVVCLENFRMGDK----CRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~C~ICl~~~~~~~~----v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
+..++-+..+|....+.... ..+.+.+|+||++.+.++.. +.+++.|+|.||.+||.+|+..+.+||+||.++..
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 34555666677665443222 23457899999999876431 23444599999999999999999999999998874
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=1.9e-15 Score=111.11 Aligned_cols=52 Identities=35% Similarity=0.875 Sum_probs=43.3
Q ss_pred CCCCCccccccccccCCC----------eeeEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 68 GSSPVDCVVCLENFRMGD----------KCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~----------~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
.+.+..|+||++++-+.+ ....+| |||+||-+|++.|++++++||.||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 346788999999954333 335678 9999999999999999999999999954
No 6
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=7.9e-15 Score=101.87 Aligned_cols=66 Identities=30% Similarity=0.596 Sum_probs=55.6
Q ss_pred CCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC---CCCccccCccCCCCcceeecCCCCCCcc
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT---PICPICRTRVSPSKVGVILKDGSSVSSD 137 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~i~~~~~~~~~~~~~~~~~~ 137 (143)
.....+|-|||+.-+++ +++. |||+||+.||-+|+..+ +.||+||..+..+++.++++.++....+
T Consensus 44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~ 112 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSD 112 (230)
T ss_pred CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCC
Confidence 35677999999997664 5555 99999999999999864 4599999999999999999999865554
No 7
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=5.5e-15 Score=106.08 Aligned_cols=52 Identities=46% Similarity=1.179 Sum_probs=47.1
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh-CCCCCccccCccCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL-KTPICPICRTRVSP 121 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~i~~ 121 (143)
..+.+|+|||+.|..+|.++++| |+|.||..|++.|+. .+..||+||.++..
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 45679999999999999999999 999999999999998 46779999998864
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.53 E-value=2.1e-14 Score=98.09 Aligned_cols=63 Identities=30% Similarity=0.707 Sum_probs=51.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC----------------CCCCccccCccCCCCcceeecCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK----------------TPICPICRTRVSPSKVGVILKDGS 132 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~----------------~~~CP~CR~~i~~~~~~~~~~~~~ 132 (143)
..+.+|+||++.++++ .+++ |||.||+.||..|+.. ...||+||..+...++.++.+.+.
T Consensus 16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~ 91 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQ 91 (193)
T ss_pred CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCC
Confidence 3567899999998765 5566 9999999999999842 346999999999999998888776
Q ss_pred CCC
Q 032328 133 SVS 135 (143)
Q Consensus 133 ~~~ 135 (143)
...
T Consensus 92 ~~~ 94 (193)
T PLN03208 92 KAP 94 (193)
T ss_pred CCC
Confidence 544
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=1.9e-14 Score=102.77 Aligned_cols=53 Identities=38% Similarity=0.779 Sum_probs=45.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
.....|.+||+...++ ..+| |||+||+.||..|...+..||+||......++.
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 4567899999997664 6677 999999999999999999999999999877643
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.41 E-value=1.3e-13 Score=75.48 Aligned_cols=47 Identities=38% Similarity=0.902 Sum_probs=39.1
Q ss_pred CCccccccccccCCCeeeEcCCCCCc-ccHHhHHHHHhCCCCCccccCccCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHS-FHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
+..|.||++... .+..+| |||. |+..|..+|+.....||+||+++..
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 467999999944 357778 9998 9999999999999999999998863
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.40 E-value=2.5e-13 Score=80.94 Aligned_cols=53 Identities=32% Similarity=0.685 Sum_probs=40.0
Q ss_pred CCCccccccccccC--------CCe-eeEcCCCCCcccHHhHHHHHhC---CCCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRM--------GDK-CRLLPNCRHSFHAQCIDSWLLK---TPICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~--------~~~-v~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~~i~~~ 122 (143)
.++.|.||...|+. ++. -.++..|+|.||.+||.+|+.. +..||+||+++..+
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 37789999988852 222 2233469999999999999986 46799999987643
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=99.36 E-value=5.8e-13 Score=69.17 Aligned_cols=39 Identities=44% Similarity=1.138 Sum_probs=32.3
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccc
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~C 115 (143)
|+||++.+.+ .+..++ |||.|+++|+.+|++.+..||+|
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 8999999777 445566 99999999999999998899998
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=99.36 E-value=8.5e-13 Score=70.19 Aligned_cols=44 Identities=48% Similarity=1.180 Sum_probs=36.4
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCcc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRV 119 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i 119 (143)
.|+||++.+ .+.+...+ |||.||..|+..|+.. ...||.||..+
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 34445555 9999999999999987 77799999864
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=1.1e-12 Score=103.85 Aligned_cols=53 Identities=38% Similarity=0.885 Sum_probs=45.8
Q ss_pred CCCCccccccccccCCCe--eeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDK--CRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
..++.|+||+|++..+.+ ...+| |+|+||..|+..|++++++||.||..+...
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 457889999999988655 67788 999999999999999999999999954443
No 15
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.31 E-value=1.1e-12 Score=76.21 Aligned_cols=54 Identities=30% Similarity=0.659 Sum_probs=39.8
Q ss_pred Cccccccccc-----------cCCCe-eeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 72 VDCVVCLENF-----------RMGDK-CRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 72 ~~C~ICl~~~-----------~~~~~-v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
+.|+||...+ ..+++ ......|+|.||.+||.+||..+..||++|++....+.+
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~~ 86 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADGG 86 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEeccc
Confidence 5566666554 33333 333335999999999999999999999999998766543
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.29 E-value=2.3e-12 Score=89.22 Aligned_cols=54 Identities=35% Similarity=0.703 Sum_probs=41.3
Q ss_pred CCCCccccccccccCC-----CeeeEcCCCCCcccHHhHHHHHhCC------CCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMG-----DKCRLLPNCRHSFHAQCIDSWLLKT------PICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~-----~~v~~l~~C~H~FH~~Ci~~wl~~~------~~CP~CR~~i~~~ 122 (143)
+.+.+|+||+|..-+. ....+++.|+|.||..||..|...+ .+||+||.....-
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 5678999999986332 2234566699999999999999753 3599999987744
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=3.7e-12 Score=85.25 Aligned_cols=54 Identities=28% Similarity=0.671 Sum_probs=44.3
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKV 124 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~ 124 (143)
..-..|+|||+.+.+... +-++|||+||+.||+..++....||+||..|+.+..
T Consensus 129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 445689999999877533 323599999999999999999999999998887644
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.23 E-value=1.1e-11 Score=65.92 Aligned_cols=44 Identities=34% Similarity=0.831 Sum_probs=37.5
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
.|.||+++|.++....+++ |||.|+..|+..+......||+||+
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 4899999996666667777 9999999999998866678999985
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=99.17 E-value=1.7e-11 Score=64.27 Aligned_cols=39 Identities=46% Similarity=1.094 Sum_probs=32.9
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHh--CCCCCccc
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL--KTPICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~--~~~~CP~C 115 (143)
|+||++.+.++. ..++ |||.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987752 3666 999999999999998 46679998
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.17 E-value=2.2e-11 Score=64.07 Aligned_cols=38 Identities=37% Similarity=0.890 Sum_probs=29.4
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC----CCCccc
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT----PICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~----~~CP~C 115 (143)
|+||++-|.++ ..++ |||.|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999986 6677 99999999999999763 359987
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.14 E-value=7.1e-11 Score=67.56 Aligned_cols=50 Identities=20% Similarity=0.448 Sum_probs=42.9
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
..|+||.+.+.++ ..++ |||.|+++||.+|+..+..||.|+.++...+..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce
Confidence 4699999999886 5667 999999999999999888999999998765443
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.12 E-value=7.1e-11 Score=60.57 Aligned_cols=38 Identities=45% Similarity=1.094 Sum_probs=32.1
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHh-CCCCCccc
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL-KTPICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~-~~~~CP~C 115 (143)
|+||++. ......++ |||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998 34557777 999999999999998 56779987
No 23
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=3.4e-10 Score=86.37 Aligned_cols=51 Identities=37% Similarity=0.969 Sum_probs=39.3
Q ss_pred CCCccccccccccC--------------CCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCC
Q 032328 70 SPVDCVVCLENFRM--------------GDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSP 121 (143)
Q Consensus 70 ~~~~C~ICl~~~~~--------------~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~ 121 (143)
...+|+||+..+.- ..+....| |.|+||..|+.+|... +-.||+||.++..
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 45689999988632 12234457 9999999999999994 5589999998753
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=9.8e-11 Score=71.47 Aligned_cols=56 Identities=23% Similarity=0.585 Sum_probs=43.7
Q ss_pred CCCccccccccc-------------cCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 70 SPVDCVVCLENF-------------RMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 70 ~~~~C~ICl~~~-------------~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
.-+.|+||...+ ..++.......|+|.||..||.+|++.+..||+|.++...+.++
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr~g 113 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQRYG 113 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEeecC
Confidence 456799887543 23445555667999999999999999999999999988766544
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=99.00 E-value=3.4e-10 Score=85.80 Aligned_cols=50 Identities=34% Similarity=0.802 Sum_probs=42.9
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
....|+||++.+... .+++ |||.||..|+..|+.....||+||..+....
T Consensus 25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 467899999998765 4566 9999999999999998888999999987543
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=5.9e-11 Score=68.53 Aligned_cols=53 Identities=36% Similarity=0.800 Sum_probs=37.9
Q ss_pred CCCccccccccccC--------CCeee-EcCCCCCcccHHhHHHHHhCC---CCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRM--------GDKCR-LLPNCRHSFHAQCIDSWLLKT---PICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~--------~~~v~-~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~i~~~ 122 (143)
.++.|.||.-+|.. +|... ++..|.|.||.+||.+|+... ..||+||+++..+
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 34578888877743 23222 233599999999999999763 4599999987643
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=5.5e-10 Score=79.44 Aligned_cols=55 Identities=31% Similarity=0.725 Sum_probs=45.5
Q ss_pred CCCCCccccccccccCCC-------eeeEcCCCCCcccHHhHHHHHh--CCCCCccccCccCCCC
Q 032328 68 GSSPVDCVVCLENFRMGD-------KCRLLPNCRHSFHAQCIDSWLL--KTPICPICRTRVSPSK 123 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~-------~v~~l~~C~H~FH~~Ci~~wl~--~~~~CP~CR~~i~~~~ 123 (143)
..++..|+||-..+.... +...+. |+|.||..||+.|-. ++++||.|+..++.+.
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 346788999998886554 667787 999999999999974 5788999999998663
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=2.8e-10 Score=80.73 Aligned_cols=51 Identities=37% Similarity=0.833 Sum_probs=43.1
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHH-HHhCCCC-CccccCccCCCCc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDS-WLLKTPI-CPICRTRVSPSKV 124 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~-wl~~~~~-CP~CR~~i~~~~~ 124 (143)
.+..|+||++..... ..++ |||+||..||.. |-.++.. ||+||+.+..+++
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 467899999995553 6777 999999999999 8777766 9999999988765
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=3.2e-10 Score=86.95 Aligned_cols=62 Identities=24% Similarity=0.531 Sum_probs=48.3
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC-----CCCccccCccCCCCcceeecCCCCCCc
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT-----PICPICRTRVSPSKVGVILKDGSSVSS 136 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~-----~~CP~CR~~i~~~~~~~~~~~~~~~~~ 136 (143)
+..|+|||++.... ..+ .|||+||..||-+++... ..||+||..+...++.++.-....+..
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke 252 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKE 252 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccH
Confidence 77899999994442 444 499999999999987543 469999999999888877766655443
No 30
>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=98.86 E-value=2.5e-09 Score=58.02 Aligned_cols=42 Identities=26% Similarity=0.823 Sum_probs=32.2
Q ss_pred ccccccccccCCCeeeEcCCCC-----CcccHHhHHHHHhCC--CCCcccc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCR-----HSFHAQCIDSWLLKT--PICPICR 116 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~wl~~~--~~CP~CR 116 (143)
.|.||++. .+++...+.| |. |.+|.+|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 3344455778 74 899999999999654 4799995
No 31
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.79 E-value=5.2e-09 Score=55.04 Aligned_cols=38 Identities=34% Similarity=0.806 Sum_probs=22.1
Q ss_pred cccccccccCCC-eeeEcCCCCCcccHHhHHHHHhCC----CCCc
Q 032328 74 CVVCLENFRMGD-KCRLLPNCRHSFHAQCIDSWLLKT----PICP 113 (143)
Q Consensus 74 C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~wl~~~----~~CP 113 (143)
|+||.+ |.+++ .-.+|+ |||.|+++|+.+++... ..||
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 75544 446688 99999999999999743 3476
No 32
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=4.1e-09 Score=77.81 Aligned_cols=50 Identities=36% Similarity=0.806 Sum_probs=42.6
Q ss_pred CCCCccccccccccCCCeeeEcCCCCC-cccHHhHHHHHhCCCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.+..+|.||+.+ .....++| |.| +.|..|-+..-..+++||+||.++...
T Consensus 288 ~~gkeCVIClse---~rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSE---SRDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecC---CcceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 446789999999 55569999 999 999999988766678899999999865
No 33
>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=98.73 E-value=4.8e-09 Score=76.79 Aligned_cols=60 Identities=22% Similarity=0.499 Sum_probs=43.3
Q ss_pred CCcccccccc-ccCCCe-eeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCCCCcceeecCC
Q 032328 71 PVDCVVCLEN-FRMGDK-CRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSPSKVGVILKDG 131 (143)
Q Consensus 71 ~~~C~ICl~~-~~~~~~-v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~~~~~~~~~~~ 131 (143)
+..||+|... |..++. +.+.+ |||.||..|++..+.. ...||.|+..+.........-+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D 65 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFED 65 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccccccc
Confidence 4689999986 333332 23334 9999999999996644 56799999999888766544433
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.71 E-value=4.5e-09 Score=77.09 Aligned_cols=51 Identities=33% Similarity=0.822 Sum_probs=44.9
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
--.|.||.+-|..+ .+.| |+|.||.-||..+|..++.||.|+.++.+..+.
T Consensus 23 lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 23 LLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 35799999999886 6777 999999999999999999999999998876543
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.69 E-value=9.8e-09 Score=73.96 Aligned_cols=48 Identities=29% Similarity=0.665 Sum_probs=41.3
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
-..|-||-+.+..+ ..++ |||.||+-||...|..+..||+||.+.-+.
T Consensus 25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 45799999998875 5555 999999999999999999999999876543
No 36
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=5.3e-09 Score=56.62 Aligned_cols=47 Identities=26% Similarity=0.508 Sum_probs=35.6
Q ss_pred CCCccccccccccCCCeeeEcCCCCC-cccHHhHHHHHh-CCCCCccccCccC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLL-KTPICPICRTRVS 120 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~-~~~~CP~CR~~i~ 120 (143)
..++|.||.|.-.+ .++..||| +.+..|-.+.+. .+..||+||+++.
T Consensus 6 ~~dECTICye~pvd----sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVD----SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcch----HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 45899999998444 23334999 889999766555 6888999999875
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.66 E-value=3.9e-09 Score=61.57 Aligned_cols=51 Identities=25% Similarity=0.686 Sum_probs=24.5
Q ss_pred CCccccccccccCCCe--eeEcC--CCCCcccHHhHHHHHhC----C-------CCCccccCccCC
Q 032328 71 PVDCVVCLENFRMGDK--CRLLP--NCRHSFHAQCIDSWLLK----T-------PICPICRTRVSP 121 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~--v~~l~--~C~H~FH~~Ci~~wl~~----~-------~~CP~CR~~i~~ 121 (143)
+.+|.||.+...+++. ..+.+ .|++.||..|+.+|+.. + ..||.|+.+|.-
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 3579999998763322 23332 68999999999999963 1 249999998864
No 38
>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=98.63 E-value=2.4e-08 Score=58.81 Aligned_cols=52 Identities=25% Similarity=0.406 Sum_probs=40.5
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCCCCcc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSPSKVG 125 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~~~~~ 125 (143)
+...|+|+.+-|.++ ++++ +||.|.+.+|.+|+.. ...||+|+.++...++.
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence 356799999999987 7777 9999999999999999 78899999999876543
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.59 E-value=1.7e-08 Score=76.43 Aligned_cols=49 Identities=35% Similarity=0.771 Sum_probs=39.2
Q ss_pred CCCCccccccccccCCC-eeeEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 69 SSPVDCVVCLENFRMGD-KCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
.+.+.|++|||.+.+.- .+.... |.|.||-.|+..|.. .+||+||.-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhccc--CcChhhhhhcC
Confidence 46678999999998753 344444 999999999999964 45999998766
No 40
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.56 E-value=1.8e-08 Score=82.38 Aligned_cols=52 Identities=23% Similarity=0.816 Sum_probs=38.7
Q ss_pred CCCCcccccccccc-CCCee--eEcCCCCCcccHHhHHHHHhC--CCCCccccCccC
Q 032328 69 SSPVDCVVCLENFR-MGDKC--RLLPNCRHSFHAQCIDSWLLK--TPICPICRTRVS 120 (143)
Q Consensus 69 ~~~~~C~ICl~~~~-~~~~v--~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~i~ 120 (143)
+..++||||..-+. .+... ...+.|+|-||..|+-.|+.. +.+||+||.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56789999987765 22111 223358999999999999976 567999998775
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=2.4e-08 Score=74.41 Aligned_cols=52 Identities=23% Similarity=0.717 Sum_probs=36.6
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC---CCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT---PICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~i~~~ 122 (143)
...|.||.+-+.....+.-...|||+||..|+.+|+... ..||.||-.+...
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r 58 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER 58 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence 357999955444444444333599999999999999873 4699999444433
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.55 E-value=1.7e-08 Score=56.90 Aligned_cols=49 Identities=24% Similarity=0.649 Sum_probs=24.8
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
-.|++|.+-++++ ..+..|.|.|++.|+..-+.. .||+|+.+...++++
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence 4699999998875 445569999999999885543 499999998877654
No 43
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.2e-07 Score=69.45 Aligned_cols=44 Identities=39% Similarity=0.884 Sum_probs=38.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
.+...|+||++.|.++ .++| |+|.||..|+..++.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 3567899999999998 7777 999999999999988556799999
No 44
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=5.2e-08 Score=73.12 Aligned_cols=59 Identities=27% Similarity=0.719 Sum_probs=44.5
Q ss_pred CCCccccccccccC-CCeeeEcCCCCCcccHHhHHHHHhC--CCCCccccCccCCCCcceee
Q 032328 70 SPVDCVVCLENFRM-GDKCRLLPNCRHSFHAQCIDSWLLK--TPICPICRTRVSPSKVGVIL 128 (143)
Q Consensus 70 ~~~~C~ICl~~~~~-~~~v~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~i~~~~~~~~~ 128 (143)
....|+||++.+.. ++.....+.|||.|..+||+.|+-+ ...||.|........+...+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~ 64 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY 64 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence 45789999999974 5555555569999999999999953 24599998887765544433
No 45
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.2e-07 Score=67.31 Aligned_cols=49 Identities=22% Similarity=0.534 Sum_probs=40.0
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC-CCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT-PICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~-~~CP~CR~~i~~~ 122 (143)
...+|+||+....-+ ..++ |+|.||..||+.-.... .+||+||.++.+.
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 356899999995554 6666 99999999999876664 5599999999866
No 46
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.34 E-value=1.3e-07 Score=71.07 Aligned_cols=59 Identities=27% Similarity=0.678 Sum_probs=46.6
Q ss_pred cCCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC--CCCCccccCccCCCCcceee
Q 032328 66 DRGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK--TPICPICRTRVSPSKVGVIL 128 (143)
Q Consensus 66 ~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~i~~~~~~~~~ 128 (143)
++++.-+.|.||-|. +..|.+.| |||..|..|+..|-.. .+.||.||.+|.-.+...+.
T Consensus 364 eMgsTFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 364 EMGSTFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred HccchHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 344555679999998 66778888 9999999999999855 46799999999866544443
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=1.9e-07 Score=74.97 Aligned_cols=53 Identities=23% Similarity=0.619 Sum_probs=43.2
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCCCCccee
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSPSKVGVI 127 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~~~~~~~ 127 (143)
--.|+.|-..+++ .+++.|||+||..|+..-+.. +..||.|...+...++..+
T Consensus 643 ~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRI 696 (698)
T ss_pred ceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccccc
Confidence 3479999988777 555569999999999998865 5679999999888776544
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=6.4e-07 Score=66.99 Aligned_cols=54 Identities=37% Similarity=0.821 Sum_probs=41.2
Q ss_pred CCCCccccccccccCCC----eeeEcCCCCCcccHHhHHHHHhC-------CCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGD----KCRLLPNCRHSFHAQCIDSWLLK-------TPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~----~v~~l~~C~H~FH~~Ci~~wl~~-------~~~CP~CR~~i~~~ 122 (143)
..+..|.||++...+.. -..++|+|.|.||..||..|-.. .+.||.||......
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 45778999999876532 12345779999999999999833 36799999887744
No 49
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.16 E-value=6.9e-07 Score=64.79 Aligned_cols=56 Identities=27% Similarity=0.716 Sum_probs=45.6
Q ss_pred CCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh------------------C-----CCCCccccCccCCCCc
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL------------------K-----TPICPICRTRVSPSKV 124 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~------------------~-----~~~CP~CR~~i~~~~~ 124 (143)
+.....|+|||--|.+++...+++ |.|.||..|+.++|. . ...||+||..|..+..
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 345668999999999999888888 999999999998872 1 1249999999987643
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.15 E-value=3.6e-07 Score=73.66 Aligned_cols=51 Identities=22% Similarity=0.413 Sum_probs=42.3
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
...|++|+..+.++......+ |+|.||.+|+..|-....+||+||.++...
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 446888988877765555555 999999999999999999999999988754
No 51
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=98.06 E-value=2.6e-06 Score=72.84 Aligned_cols=66 Identities=26% Similarity=0.629 Sum_probs=50.7
Q ss_pred CCeeeecccccCCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC----------CCCccccCccCCC
Q 032328 56 IPCFEYKAAADRGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT----------PICPICRTRVSPS 122 (143)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~----------~~CP~CR~~i~~~ 122 (143)
+|-...+.++...+.++.|.||+.+--.....+.+. |+|+||.+|....|+++ -+||+|+.++.-.
T Consensus 3471 LPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3471 LPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred ccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 444444444555677889999999987777888887 99999999998866543 3599999988744
No 52
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=4.7e-07 Score=66.95 Aligned_cols=50 Identities=28% Similarity=0.568 Sum_probs=41.7
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~~ 122 (143)
.+..|+|||+-++.. +..+.|.|-||.+||..-+.. +..||.||+.+.+.
T Consensus 42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 466899999998775 555579999999999888765 67799999998865
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.95 E-value=5.4e-06 Score=46.28 Aligned_cols=42 Identities=21% Similarity=0.563 Sum_probs=26.9
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC--CCCCcc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK--TPICPI 114 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~--~~~CP~ 114 (143)
....|+|.+..|+++ +....|||.|-++.|.+|++. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 456899999998874 333359999999999999944 445998
No 54
>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=97.91 E-value=4.3e-06 Score=54.17 Aligned_cols=36 Identities=22% Similarity=0.577 Sum_probs=30.7
Q ss_pred CCCccccccccccCCCeeeEcCCCC------CcccHHhHHHHH
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCR------HSFHAQCIDSWL 106 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~------H~FH~~Ci~~wl 106 (143)
...+|+||++.+.+++.++.++ || |+||.+|+.+|-
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 3578999999999977777777 65 999999999994
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.88 E-value=5.7e-06 Score=62.20 Aligned_cols=50 Identities=32% Similarity=0.756 Sum_probs=40.0
Q ss_pred CCCccccccccccC-CCeeeEcCCCCCcccHHhHHHHHhCC--CCCccccCccC
Q 032328 70 SPVDCVVCLENFRM-GDKCRLLPNCRHSFHAQCIDSWLLKT--PICPICRTRVS 120 (143)
Q Consensus 70 ~~~~C~ICl~~~~~-~~~v~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~~i~ 120 (143)
.+-.|..|-+.+-. ++....+| |.|+||..|+...+..+ .+||.||+-..
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 34579999998854 45678888 99999999999999764 56999995444
No 56
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.1e-05 Score=61.73 Aligned_cols=49 Identities=33% Similarity=0.741 Sum_probs=42.6
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
..+..|.||..-+..+ ..+| |||.|+..||++-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 4577899999888775 6677 99999999999988888889999999886
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.79 E-value=1.4e-05 Score=61.24 Aligned_cols=54 Identities=24% Similarity=0.551 Sum_probs=44.0
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
..+..|++|...+.++ .....|||.||..|+..|+..+..||.||.++......
T Consensus 19 ~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 4567899999998885 22124999999999999999999999999988866433
No 58
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.66 E-value=4e-05 Score=40.97 Aligned_cols=45 Identities=29% Similarity=0.617 Sum_probs=22.4
Q ss_pred cccccccccCCCeeeEcC-CCCCcccHHhHHHHHh-CCCCCccccCcc
Q 032328 74 CVVCLENFRMGDKCRLLP-NCRHSFHAQCIDSWLL-KTPICPICRTRV 119 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci~~wl~-~~~~CP~CR~~i 119 (143)
|++|.+++...+. ...| .||+..+..|...-+. ....||-||++-
T Consensus 1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999954332 3334 4899999999988775 477899999863
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=7.1e-05 Score=53.91 Aligned_cols=51 Identities=31% Similarity=0.613 Sum_probs=38.0
Q ss_pred CCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC--CCCCccccCccCC
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK--TPICPICRTRVSP 121 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~--~~~CP~CR~~i~~ 121 (143)
...+.+|++|-+.=..+ ....+ |||+||+.|+..-... ..+||.|-.+...
T Consensus 236 ~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 46788999999883332 23334 9999999999886654 3689999887763
No 60
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.8e-05 Score=57.93 Aligned_cols=49 Identities=33% Similarity=0.718 Sum_probs=35.0
Q ss_pred cCCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 66 DRGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 66 ~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
.+.+..+.|.||+++..+ ...+| |||+-+ |.. .-+...+||+||+.+..
T Consensus 300 ~~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~-cs~~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTL-CSKHLPQCPVCRQRIRL 348 (355)
T ss_pred cccCCCCceEEecCCccc---eeeec-CCcEEE--chH-HHhhCCCCchhHHHHHH
Confidence 344667889999999554 57788 999754 332 23445669999998764
No 61
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=7.7e-05 Score=52.33 Aligned_cols=51 Identities=29% Similarity=0.703 Sum_probs=42.6
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC--------CCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT--------PICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~--------~~CP~CR~~i~~~ 122 (143)
-...|..|-..+.++|.++.. |-|.||++|+..|-..- ..||-|..+|...
T Consensus 49 Y~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 456799999999999998875 99999999999997541 3599999998755
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=8.7e-05 Score=55.34 Aligned_cols=50 Identities=26% Similarity=0.510 Sum_probs=43.6
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
++++.|+||... +-.....| |+|.-|+.||.+.+...+.|=.|+..+...
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~~ 469 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVIDV 469 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence 578889999987 55557788 999999999999999999999999988754
No 63
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00063 Score=50.30 Aligned_cols=51 Identities=22% Similarity=0.337 Sum_probs=38.9
Q ss_pred CCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
..+...|++|+..-+.+-.+.+ -|=+||+.|+-.++...+.||+=-.+..-
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGYPASV 347 (357)
T ss_pred CCccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCCcchH
Confidence 3567789999999666433222 58999999999999999999976555443
No 64
>PHA02862 5L protein; Provisional
Probab=97.44 E-value=0.00013 Score=47.70 Aligned_cols=49 Identities=20% Similarity=0.491 Sum_probs=36.1
Q ss_pred CCccccccccccCCCeeeEcC-CC---CCcccHHhHHHHHhC--CCCCccccCccCCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLP-NC---RHSFHAQCIDSWLLK--TPICPICRTRVSPSK 123 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~-~C---~H~FH~~Ci~~wl~~--~~~CP~CR~~i~~~~ 123 (143)
.+.|=||.++-+++ ..| .| ...-|.+|+.+|+.. +..||+|+.+...+.
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 46799999985442 345 23 257899999999976 456999999887543
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.43 E-value=8.8e-05 Score=39.73 Aligned_cols=41 Identities=29% Similarity=0.878 Sum_probs=26.4
Q ss_pred cccccccccCCCeeeEcC-CCC---CcccHHhHHHHHhC--CCCCccc
Q 032328 74 CVVCLENFRMGDKCRLLP-NCR---HSFHAQCIDSWLLK--TPICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~-~C~---H~FH~~Ci~~wl~~--~~~CP~C 115 (143)
|-||++.-.+++ ..+.| .|+ -.-|.+|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679998877655 34456 233 37899999999974 5669887
No 66
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=97.41 E-value=6.2e-05 Score=47.23 Aligned_cols=33 Identities=27% Similarity=0.664 Sum_probs=27.4
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHH
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCID 103 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~ 103 (143)
+....|++|-..+.. ....+.| |||+||..|+.
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 456779999999987 5566678 99999999985
No 67
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.39 E-value=3.3e-05 Score=63.12 Aligned_cols=51 Identities=25% Similarity=0.688 Sum_probs=39.6
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC-------CCCccccCcc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT-------PICPICRTRV 119 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~-------~~CP~CR~~i 119 (143)
....+|.||.+.+...+.+--...|-|+||..||..|-... -.||.|+...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 45678999999998776655544588999999999998642 2399998443
No 68
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.38 E-value=0.0002 Score=47.74 Aligned_cols=51 Identities=20% Similarity=0.585 Sum_probs=37.1
Q ss_pred CCCCCccccccccccCCCeeeEcC-CCCC---cccHHhHHHHHhC--CCCCccccCccCCC
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLP-NCRH---SFHAQCIDSWLLK--TPICPICRTRVSPS 122 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~-~C~H---~FH~~Ci~~wl~~--~~~CP~CR~~i~~~ 122 (143)
...+..|-||.++..+ -..| .|.. .-|.+|+.+|+.. ...||.|+.+....
T Consensus 5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 3467889999988432 1235 3544 5699999999976 45699999887654
No 69
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=3e-05 Score=56.26 Aligned_cols=42 Identities=29% Similarity=0.750 Sum_probs=34.4
Q ss_pred CCccccccccccCCCeeeEcCCCCC-cccHHhHHHHHhCCCCCccccCccC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
+..|+||++. +.....|+ ||| +-|.+|-... ..||+||+.+.
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 5679999999 66678888 999 7788898663 47999998764
No 70
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=7.3e-05 Score=49.84 Aligned_cols=30 Identities=37% Similarity=0.853 Sum_probs=27.2
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccH
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHA 99 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~ 99 (143)
.+..+|.||||++..++.+..|| |--+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 45668999999999999999999 9999996
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.26 E-value=0.00047 Score=49.09 Aligned_cols=62 Identities=15% Similarity=0.326 Sum_probs=52.6
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeecCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILKDG 131 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~ 131 (143)
....|++|.+.+...-....|..|||+|..+|.+..+.....||+|-.++.+.++.....-|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGG 281 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGG 281 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeeccc
Confidence 45679999999988777777766999999999999999999999999999988776655443
No 72
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.22 E-value=0.00065 Score=49.46 Aligned_cols=63 Identities=19% Similarity=0.365 Sum_probs=49.3
Q ss_pred CCCCCccccccccccCCCe-eeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeecCCC
Q 032328 68 GSSPVDCVVCLENFRMGDK-CRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILKDGS 132 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~~ 132 (143)
......|||...+|..... +.+.| |||+|...++... .....||+|-.++...++..+.+.+.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~-cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI~Lnp~~e 173 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRP-CGCVFSEKALKEL-KKSKKCPVCGKPFTEEDIIPLNPPEE 173 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcC-CCCEeeHHHHHhh-cccccccccCCccccCCEEEecCCcc
Confidence 3456789999999965444 55556 9999999999996 33567999999999888777666555
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.22 E-value=0.0004 Score=51.78 Aligned_cols=61 Identities=25% Similarity=0.537 Sum_probs=43.2
Q ss_pred CCeeeecccccCCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHH--HHhCCCCCccccCccC
Q 032328 56 IPCFEYKAAADRGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDS--WLLKTPICPICRTRVS 120 (143)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~--wl~~~~~CP~CR~~i~ 120 (143)
-|.......++...+...|.||-+.+.- ..++| |+|..|.-|--+ -|..++.||+||.+..
T Consensus 46 EPnlttsSaddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 46 EPNLTTSSADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred CCccccccccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3444444444445567789999998543 37788 999888888654 3456788999999865
No 74
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.22 E-value=0.00016 Score=56.67 Aligned_cols=52 Identities=23% Similarity=0.554 Sum_probs=40.3
Q ss_pred CCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-----CCCCccccCccCCC
Q 032328 67 RGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-----TPICPICRTRVSPS 122 (143)
Q Consensus 67 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-----~~~CP~CR~~i~~~ 122 (143)
++....+|.+|.++-++. .... |.|.||+-|+..+... +.+||.|...+..+
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 345677899999996652 4444 9999999999988753 46799998887755
No 75
>PHA03096 p28-like protein; Provisional
Probab=97.11 E-value=0.00027 Score=51.91 Aligned_cols=48 Identities=27% Similarity=0.577 Sum_probs=34.3
Q ss_pred CccccccccccCC----CeeeEcCCCCCcccHHhHHHHHhCC------CCCccccCcc
Q 032328 72 VDCVVCLENFRMG----DKCRLLPNCRHSFHAQCIDSWLLKT------PICPICRTRV 119 (143)
Q Consensus 72 ~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~wl~~~------~~CP~CR~~i 119 (143)
..|.||++..... ..--.++.|.|.|+..|+..|-... +.||.||.-+
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 6799999987643 2334567899999999999998542 2355555444
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.05 E-value=0.00054 Score=51.00 Aligned_cols=63 Identities=19% Similarity=0.367 Sum_probs=42.0
Q ss_pred CCCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh-CCCCCccccCccCCCCcceeec
Q 032328 67 RGSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL-KTPICPICRTRVSPSKVGVILK 129 (143)
Q Consensus 67 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~~i~~~~~~~~~~ 129 (143)
++++++.|+.|+|++...|+-..-..||-.-|.-|...--+ -+..||-||+...++.+.++.-
T Consensus 10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~~ 73 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVTL 73 (480)
T ss_pred cccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEec
Confidence 34456779999999987766443223886444444433222 2566999999999988877654
No 77
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=0.0003 Score=51.23 Aligned_cols=49 Identities=22% Similarity=0.477 Sum_probs=40.7
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
.-...|-||-..|..+ ++. .|+|.||..|-..-+++...|++|-+....
T Consensus 239 ~~Pf~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred cCCccccccccccccc---hhh-cCCceeehhhhccccccCCcceeccccccc
Confidence 4466799999999985 444 499999999998888888899999887653
No 78
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.05 E-value=0.00013 Score=53.89 Aligned_cols=51 Identities=22% Similarity=0.582 Sum_probs=42.9
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.....|.+|-.-+.+...+. .|-|.||+.||...+.....||.|...+...
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 35678999999988764433 4999999999999999999999999888765
No 79
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.03 E-value=0.00026 Score=48.81 Aligned_cols=45 Identities=24% Similarity=0.570 Sum_probs=36.7
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
...|.||-.+|..+ ++. .|||.||..|...=.+.-..|-+|-...
T Consensus 196 PF~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 44799999999985 444 4999999999988777778899996543
No 80
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00052 Score=52.15 Aligned_cols=39 Identities=28% Similarity=0.703 Sum_probs=34.0
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK 108 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~ 108 (143)
.....|.||+++.........+| |+|.||+.|...++..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTI 220 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHH
Confidence 45678999999988778889999 9999999999999853
No 81
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=3.1e-05 Score=58.23 Aligned_cols=53 Identities=23% Similarity=0.525 Sum_probs=45.6
Q ss_pred CCCccccccccccCC-CeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRMG-DKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
....|+||.+.++.. +++..+. |||.+|..|+.+|+.....||.||+++....
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 345799999999887 6677776 9999999999999999888999999998653
No 82
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.79 E-value=0.0022 Score=35.06 Aligned_cols=41 Identities=27% Similarity=0.652 Sum_probs=34.4
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPI 114 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~ 114 (143)
....|++|-+.|.+++.+.+.|.||--+|+.|-+. ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 45679999999999899999999999999999855 455644
No 83
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.74 E-value=0.00078 Score=47.85 Aligned_cols=53 Identities=25% Similarity=0.608 Sum_probs=35.6
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeec
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILK 129 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~ 129 (143)
.|--|.-.=. ++....+- |+|+||..|...- ....||+||..+.....+..++
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~slp 57 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNRSLP 57 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeeecccccc
Confidence 3555554433 56666665 9999999998652 2337999999977665554443
No 84
>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=96.69 E-value=0.0013 Score=34.51 Aligned_cols=41 Identities=27% Similarity=0.805 Sum_probs=23.1
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCC--CCccc
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTP--ICPIC 115 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~--~CP~C 115 (143)
|.+|-+-...|...... .|+=.+|..|+..++..+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 56777776666443332 3888999999999998755 69987
No 85
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.0015 Score=48.37 Aligned_cols=49 Identities=24% Similarity=0.636 Sum_probs=37.7
Q ss_pred CCccccccccccCC--CeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCcc
Q 032328 71 PVDCVVCLENFRMG--DKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRV 119 (143)
Q Consensus 71 ~~~C~ICl~~~~~~--~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i 119 (143)
-..|-||-++|..+ +.+.....|||.|+..|+...+.. ...||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 35799999999765 344444459999999999876655 34599999996
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.63 E-value=0.0011 Score=54.62 Aligned_cols=42 Identities=26% Similarity=0.638 Sum_probs=32.6
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
..|..|-..++-+-.-. .|||.||.+|+. .....||.|+.+.
T Consensus 841 skCs~C~~~LdlP~VhF---~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHF---LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeee---ecccHHHHHhhc---cCcccCCccchhh
Confidence 47999999877753322 399999999998 5557799998743
No 87
>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=96.58 E-value=0.0024 Score=42.58 Aligned_cols=52 Identities=31% Similarity=0.664 Sum_probs=34.8
Q ss_pred CCccccccccccCCCeeeEcC------C-----CCC-cccHHhHHHHHhC------------------------------
Q 032328 71 PVDCVVCLENFRMGDKCRLLP------N-----CRH-SFHAQCIDSWLLK------------------------------ 108 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~------~-----C~H-~FH~~Ci~~wl~~------------------------------ 108 (143)
+..|+||||- +-+.+.|. + |+. .=|..|+++..+.
T Consensus 2 d~~CpICme~---PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 2 DVTCPICMEH---PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CccCceeccC---CCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 5679999998 44334443 1 444 3478899998631
Q ss_pred -CCCCccccCccCCCCcc
Q 032328 109 -TPICPICRTRVSPSKVG 125 (143)
Q Consensus 109 -~~~CP~CR~~i~~~~~~ 125 (143)
+..||+||.+|.-+.+.
T Consensus 79 ~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTVV 96 (162)
T ss_pred ccccCccccCceeceEEc
Confidence 12499999999877544
No 88
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.003 Score=42.94 Aligned_cols=32 Identities=28% Similarity=0.805 Sum_probs=26.1
Q ss_pred CCCCcccHHhHHHHHhCC-----------CCCccccCccCCCC
Q 032328 92 NCRHSFHAQCIDSWLLKT-----------PICPICRTRVSPSK 123 (143)
Q Consensus 92 ~C~H~FH~~Ci~~wl~~~-----------~~CP~CR~~i~~~~ 123 (143)
.||.-||.-|+..||+.- ..||.|-.++..+.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 499999999999999641 35999999887653
No 89
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.32 E-value=0.0026 Score=46.73 Aligned_cols=43 Identities=33% Similarity=0.692 Sum_probs=33.4
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHh-CCCCCccccC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL-KTPICPICRT 117 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~-~~~~CP~CR~ 117 (143)
..|+.|..-+... ...|.|+|.||.+||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 4699998776554 44566999999999997664 5788999965
No 90
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.30 E-value=0.0019 Score=53.52 Aligned_cols=36 Identities=22% Similarity=0.573 Sum_probs=28.9
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHH
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWL 106 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl 106 (143)
..++.|.+|...+... .-.+-| |||.||++|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 3567899999988764 445667 99999999998765
No 91
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.25 E-value=0.0026 Score=47.15 Aligned_cols=45 Identities=24% Similarity=0.628 Sum_probs=35.3
Q ss_pred CCCCccccccccccCCCeeeEcCCC--CCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNC--RHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C--~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
.+-.+|+||.+.+..+ +.. | ||+-|..|-.+ ....||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCccc----cee-cCCCcEehhhhhhh---hcccCCcccccccc
Confidence 4556899999999884 444 6 79999999863 35679999999883
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.11 E-value=0.0043 Score=45.34 Aligned_cols=46 Identities=26% Similarity=0.732 Sum_probs=37.6
Q ss_pred CCccccccccccCCCe-eeEcCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 71 PVDCVVCLENFRMGDK-CRLLPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
...|+||.+.+-.... +..++ |||..|..|+........+||+|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 4449999999876544 44455 9999999999998888889999988
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.0029 Score=44.52 Aligned_cols=41 Identities=44% Similarity=0.890 Sum_probs=33.5
Q ss_pred cccccccccCCCeeeEcCCCCC-cccHHhHHHHHhCCCCCccccCccCCC
Q 032328 74 CVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
|-.|-+. +..|..+| |.| ++|..|-.. ...||+|+....+.
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhce
Confidence 8888888 78899999 998 888899865 35599999877654
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=96.02 E-value=0.0026 Score=46.83 Aligned_cols=43 Identities=37% Similarity=0.854 Sum_probs=31.6
Q ss_pred ccccccccccC-CCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 73 DCVVCLENFRM-GDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 73 ~C~ICl~~~~~-~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
-|.-|--.+.. + ++.| |+|+||.+|-.. ...+.||+|-.++..
T Consensus 92 fCd~Cd~PI~IYG---RmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 92 FCDRCDFPIAIYG---RMIP-CKHVFCLECARS--DSDKICPLCDDRVQR 135 (389)
T ss_pred eecccCCcceeee---cccc-cchhhhhhhhhc--CccccCcCcccHHHH
Confidence 47777665442 2 5677 999999999865 446789999877764
No 95
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.01 E-value=0.0016 Score=53.27 Aligned_cols=49 Identities=24% Similarity=0.625 Sum_probs=37.9
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC--CCCccccCccCCCCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT--PICPICRTRVSPSKVG 125 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~--~~CP~CR~~i~~~~~~ 125 (143)
..|.||++ .+.....+ |+|.|+.+|+..-+... ..||+||..+......
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 78999999 23345555 99999999999887653 3599999998876544
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=95.60 E-value=0.0082 Score=31.77 Aligned_cols=44 Identities=23% Similarity=0.579 Sum_probs=25.4
Q ss_pred ccccccccccCCCeeeEcCCC-CCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 73 DCVVCLENFRMGDKCRLLPNC-RHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C-~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.|.-|+-+ +...+. | .|..+..|+...+.....||+|..++...
T Consensus 4 nCKsCWf~---~k~Li~---C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFA---NKGLIK---CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S-----SSEEE----SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhc---CCCeee---ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 46677766 333333 6 59999999999999999999999887643
No 97
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.29 E-value=0.011 Score=32.38 Aligned_cols=46 Identities=30% Similarity=0.597 Sum_probs=32.5
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
..|..|... +.+-.++| |||+-+..|..-+ +-+-||.|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 446666665 34447788 9999988887653 3345999999887653
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.15 E-value=0.012 Score=48.27 Aligned_cols=40 Identities=25% Similarity=0.663 Sum_probs=27.8
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPI 114 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~ 114 (143)
.|+||.-....--.+ -.. |+|..|..|...|+.....||-
T Consensus 1030 ~C~~C~l~V~gss~~-Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNF-CGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchh-hcc-ccccccHHHHHHHHhcCCcCCC
Confidence 366665544332222 223 9999999999999999888883
No 99
>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=94.93 E-value=0.006 Score=43.45 Aligned_cols=67 Identities=22% Similarity=0.429 Sum_probs=45.4
Q ss_pred CCCcccccccc-ccCCC-eeeEcCCCCCcccHHhHHHHHhCC-CCCc--cccCccCCCCcceeecCCCCCCc
Q 032328 70 SPVDCVVCLEN-FRMGD-KCRLLPNCRHSFHAQCIDSWLLKT-PICP--ICRTRVSPSKVGVILKDGSSVSS 136 (143)
Q Consensus 70 ~~~~C~ICl~~-~~~~~-~v~~l~~C~H~FH~~Ci~~wl~~~-~~CP--~CR~~i~~~~~~~~~~~~~~~~~ 136 (143)
.+..||+|-.+ |-.++ ++.+-|.|-|-.|.+|+++-+..- ..|| -|..-+-.........+....+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~qtFeD~~vEk 80 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQTFEDITVEK 80 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccccccchhhhhh
Confidence 45689999866 33444 445556799999999999999774 4599 88766665555544444444333
No 100
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.62 E-value=0.024 Score=45.56 Aligned_cols=57 Identities=26% Similarity=0.702 Sum_probs=43.6
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeecCCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILKDGSS 133 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~~~ 133 (143)
...+.|.||+++. ..+..+ |. |..|+..|+..+..||+|+..+..++..........
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~~~ 533 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSEST 533 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccCccccccc
Confidence 4567899999998 225555 77 889999999999999999999887765544443333
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.56 E-value=0.011 Score=51.07 Aligned_cols=49 Identities=29% Similarity=0.683 Sum_probs=39.1
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
.....|.||++.+.....+. . |||.++..|...|+..+..||.|+....
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~--~-cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA--G-CGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred hcccchHHHHHHHHhcCCee--e-echhHhhhHHHHHHHHhccCcchhhhhh
Confidence 34558999999988433333 2 9999999999999999999999984443
No 102
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.41 E-value=0.035 Score=46.07 Aligned_cols=56 Identities=21% Similarity=0.473 Sum_probs=41.4
Q ss_pred CCCCCCccccccccccCCCeeeEcC-CCC---CcccHHhHHHHHhC--CCCCccccCccCCCC
Q 032328 67 RGSSPVDCVVCLENFRMGDKCRLLP-NCR---HSFHAQCIDSWLLK--TPICPICRTRVSPSK 123 (143)
Q Consensus 67 ~~~~~~~C~ICl~~~~~~~~v~~l~-~C~---H~FH~~Ci~~wl~~--~~~CP~CR~~i~~~~ 123 (143)
.+.++..|-||..+=..++... .| +|. ...|.+|+..|+.. ...|-+|+.+..-++
T Consensus 8 mN~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred CCccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 3456678999998866655544 45 342 47899999999976 456999999887654
No 103
>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=94.34 E-value=0.04 Score=41.87 Aligned_cols=29 Identities=28% Similarity=0.871 Sum_probs=21.1
Q ss_pred CCCcccHHhHHHHHhC-------------CCCCccccCccCC
Q 032328 93 CRHSFHAQCIDSWLLK-------------TPICPICRTRVSP 121 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~~-------------~~~CP~CR~~i~~ 121 (143)
|.-+.|.+|+.+|+.. +-.||.||+..=.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 4456678999999843 2359999997643
No 104
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=94.07 E-value=0.045 Score=38.41 Aligned_cols=42 Identities=29% Similarity=0.792 Sum_probs=30.8
Q ss_pred CCCcccccccc-----ccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 70 SPVDCVVCLEN-----FRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 70 ~~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
.+..|.+|-++ |+. +.+...+.|+.+||++|..+ ..||.|-+
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 46788899753 233 35566667999999999962 66999954
No 105
>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=94.05 E-value=0.053 Score=29.38 Aligned_cols=43 Identities=26% Similarity=0.523 Sum_probs=23.4
Q ss_pred cccccccccCC------CeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 74 CVVCLENFRMG------DKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 74 C~ICl~~~~~~------~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
|.-|+.++..+ .....-|.|++.|+.+|=.---+.--+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 55666666654 35677778999999999644334455699883
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.76 E-value=0.031 Score=40.26 Aligned_cols=53 Identities=21% Similarity=0.526 Sum_probs=35.7
Q ss_pred CCCCccccccccccCCCee-eEcC-CC---CCcccHHhHHHHHhCC--------CCCccccCccCC
Q 032328 69 SSPVDCVVCLENFRMGDKC-RLLP-NC---RHSFHAQCIDSWLLKT--------PICPICRTRVSP 121 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v-~~l~-~C---~H~FH~~Ci~~wl~~~--------~~CP~CR~~i~~ 121 (143)
..+..|-||+.-=+++... -+.| .| .|=-|..|+..|+..+ ..||-|+.+-..
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 4556799999875443222 2345 23 3788999999999643 249999887653
No 107
>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=93.72 E-value=0.34 Score=30.56 Aligned_cols=30 Identities=20% Similarity=0.416 Sum_probs=21.1
Q ss_pred eEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 88 RLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 88 ~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
...|+|+|. ...+.+...|+.|+++++.++
T Consensus 70 V~CP~C~K~------TKmLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 70 VECPNCGKQ------TKMLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred eECCCCCCh------HhhhchhhccCcCCCcCccCc
Confidence 334567764 355666678999999999773
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.44 E-value=0.047 Score=40.11 Aligned_cols=32 Identities=25% Similarity=0.701 Sum_probs=24.5
Q ss_pred CCCcccHHhHHHHHhC-------------CCCCccccCccCCCCc
Q 032328 93 CRHSFHAQCIDSWLLK-------------TPICPICRTRVSPSKV 124 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~~-------------~~~CP~CR~~i~~~~~ 124 (143)
|..+.|.+|+.+|+.. +-+||+||+..-..++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 6678889999999843 3469999998765543
No 109
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.36 E-value=0.025 Score=45.75 Aligned_cols=43 Identities=21% Similarity=0.563 Sum_probs=30.9
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
-.|.||+..|-...-..+.+.|||.-|.+|+.... +.+|| |++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 35999988876654444444699999999998743 45688 543
No 110
>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=93.26 E-value=0.041 Score=40.32 Aligned_cols=56 Identities=20% Similarity=0.466 Sum_probs=39.1
Q ss_pred cccccccc-ccCCCeeeEcCCCCCcccHHhHHHHHhC-CCCCccccCccCCCCcceee
Q 032328 73 DCVVCLEN-FRMGDKCRLLPNCRHSFHAQCIDSWLLK-TPICPICRTRVSPSKVGVIL 128 (143)
Q Consensus 73 ~C~ICl~~-~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-~~~CP~CR~~i~~~~~~~~~ 128 (143)
.|++|-.. |-.++.......|+|-.|.+|.+..+.. ...||-|-..+-.......+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~ 59 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQT 59 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhh
Confidence 48888755 3344433333349999999999998876 56799998877766555443
No 111
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.10 E-value=0.47 Score=36.39 Aligned_cols=53 Identities=21% Similarity=0.281 Sum_probs=41.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC---CCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT---PICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~i~~~ 122 (143)
..-..|||=-++-.+++....+. |||+-.++-+.+..+.. ..||.|=.+-...
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~ 387 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVEQLAS 387 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcccCHH
Confidence 34568999999988888888888 99999999999976552 4699995544433
No 112
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=92.96 E-value=0.078 Score=43.69 Aligned_cols=41 Identities=29% Similarity=0.540 Sum_probs=31.3
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPI 114 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~ 114 (143)
-.|++|-..+..-+.. .+.|||.-|.+|+.+|+.....||.
T Consensus 780 ~~CtVC~~vi~G~~~~--c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVW--CQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeeeeEee--cccccccccHHHHHHHHhcCCCCcc
Confidence 3688888775543222 2359999999999999999888876
No 113
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.26 E-value=0.14 Score=33.35 Aligned_cols=54 Identities=22% Similarity=0.456 Sum_probs=37.7
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC---CCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK---TPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~~i~~~~ 123 (143)
.-.+|-||.|.-.++.-+.--..||=.-|.-|....++. .+.||+|+....+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 456899999986665333222248887788887775554 577999999887653
No 114
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.24 E-value=0.053 Score=41.79 Aligned_cols=59 Identities=22% Similarity=0.537 Sum_probs=38.2
Q ss_pred CCCccccccccccCC-CeeeEcCCCCCcccHHhHHHHHhCC------CCCc--cccCccCCCCcceeec
Q 032328 70 SPVDCVVCLENFRMG-DKCRLLPNCRHSFHAQCIDSWLLKT------PICP--ICRTRVSPSKVGVILK 129 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~wl~~~------~~CP--~CR~~i~~~~~~~~~~ 129 (143)
....|.||..+.... +..... .|+|.|+.+|..+.+..+ ..|| .|...+........++
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt 212 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLT 212 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcC
Confidence 467899999555444 444434 599999999999988643 3464 3555555554444433
No 115
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.13 E-value=0.13 Score=37.11 Aligned_cols=59 Identities=17% Similarity=0.270 Sum_probs=43.3
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeec
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILK 129 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~ 129 (143)
.....|+|=--+|........+-.|||+|-..-+.+. ....|++|.......+...+-+
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg 167 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNG 167 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCC
Confidence 4456799998888776554444449999999988874 3567999999888876654433
No 116
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.95 E-value=0.11 Score=38.57 Aligned_cols=52 Identities=21% Similarity=0.564 Sum_probs=36.7
Q ss_pred CCccccccccccCCCe-eeEcC-CCC---CcccHHhHHHHHhC--CCCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDK-CRLLP-NCR---HSFHAQCIDSWLLK--TPICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~-v~~l~-~C~---H~FH~~Ci~~wl~~--~~~CP~CR~~i~~~ 122 (143)
+..|-||.++..+... ....| .|+ +..|..|+..|+.. +..|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 5789999998664332 23445 243 57799999999984 55699998766544
No 117
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=91.45 E-value=0.049 Score=44.49 Aligned_cols=50 Identities=24% Similarity=0.705 Sum_probs=38.9
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC---CCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT---PICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~---~~CP~CR~~i~~~~ 123 (143)
...+|+||++.+.++ ..+ .|.|.|+..|+..-+... ..||+|+..+....
T Consensus 20 k~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hhccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 356899999999886 344 499999999988766543 45999998877553
No 118
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=91.00 E-value=0.96 Score=22.81 Aligned_cols=22 Identities=14% Similarity=0.285 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032328 4 EILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 4 ~il~~~~~~~~~~~~~~~~~~~ 25 (143)
+++.+++..+..+++.++++.|
T Consensus 7 aIIv~V~vg~~iiii~~~~YaC 28 (38)
T PF02439_consen 7 AIIVAVVVGMAIIIICMFYYAC 28 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444433333333333
No 119
>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=90.52 E-value=0.65 Score=25.53 Aligned_cols=48 Identities=21% Similarity=0.617 Sum_probs=34.8
Q ss_pred CCccccccccccCCC-eeeEcCCCCC--cccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 71 PVDCVVCLENFRMGD-KCRLLPNCRH--SFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~-~v~~l~~C~H--~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
...|-.|-.++..+. ...+ |.+ .|+.+|.+..| +..||.|-.++...+
T Consensus 5 rpnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 456778888877665 3333 664 89999999976 466999988877553
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.03 E-value=0.26 Score=41.12 Aligned_cols=54 Identities=11% Similarity=0.110 Sum_probs=37.6
Q ss_pred CCCccccccccccC---CCeeeEcCCCCCcccHHhHHHHHhC------CCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRM---GDKCRLLPNCRHSFHAQCIDSWLLK------TPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~---~~~v~~l~~C~H~FH~~Ci~~wl~~------~~~CP~CR~~i~~~~ 123 (143)
..+.|.+|.-++.. +..+..+.+|+|-||..||..|... +-.|++|..-+..+.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 45568888877765 2233333369999999999999854 234899988776553
No 121
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.90 E-value=0.83 Score=26.91 Aligned_cols=67 Identities=19% Similarity=0.370 Sum_probs=22.1
Q ss_pred CCCcccccccccc---CCCeeeEcCCCCCcccHHhHHHHH-hCCCCCccccCccCCCCcceeecCCCCCCcc
Q 032328 70 SPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDSWL-LKTPICPICRTRVSPSKVGVILKDGSSVSSD 137 (143)
Q Consensus 70 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~i~~~~~~~~~~~~~~~~~~ 137 (143)
+...|.||-++.- +++.....-.|+---++.|.+-=. ..++.||-|+.+...... .....+++.++|
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kg-sp~V~gDeeedd 78 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKG-SPRVEGDEEEDD 78 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT-----TTS-----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccC-CCCCCCCccccC
Confidence 5678999999874 333322222466666778876433 346789999987775533 333444444444
No 122
>PF15050 SCIMP: SCIMP protein
Probab=89.87 E-value=0.97 Score=28.89 Aligned_cols=32 Identities=22% Similarity=0.503 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhccCccc
Q 032328 5 ILISLTLLFVGIAALVVIHVCVVGRAFRRGYEQ 37 (143)
Q Consensus 5 il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (143)
|++++.++++++++.+ +++|++++.+|+....
T Consensus 10 iiLAVaII~vS~~lgl-IlyCvcR~~lRqGkkw 41 (133)
T PF15050_consen 10 IILAVAIILVSVVLGL-ILYCVCRWQLRQGKKW 41 (133)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHccccc
Confidence 4555555555554433 3445555555555443
No 123
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.57 E-value=0.49 Score=30.02 Aligned_cols=45 Identities=20% Similarity=0.332 Sum_probs=34.9
Q ss_pred CccccccccccCC----------CeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 72 VDCVVCLENFRMG----------DKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 72 ~~C~ICl~~~~~~----------~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
..|.-|+..|.+. ......+.|++.|+.+|=.-+-+.--+||-|-
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 4699999988653 22344567999999999888877777899995
No 124
>PLN02189 cellulose synthase
Probab=88.75 E-value=0.78 Score=39.59 Aligned_cols=55 Identities=24% Similarity=0.388 Sum_probs=36.9
Q ss_pred CCCCcccccccccc---CCCeeeEcCCCCCcccHHhHHHH-HhCCCCCccccCccCCCC
Q 032328 69 SSPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDSW-LLKTPICPICRTRVSPSK 123 (143)
Q Consensus 69 ~~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~w-l~~~~~CP~CR~~i~~~~ 123 (143)
.+...|.||-+++. +++.-+....|+---|+.|.+-= -..++.||-|+++-..-+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 35668999999974 44444443346665788888431 123678999999888544
No 125
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=88.70 E-value=0.47 Score=25.52 Aligned_cols=42 Identities=29% Similarity=0.615 Sum_probs=16.2
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC-----CCCCccccCc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK-----TPICPICRTR 118 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~-----~~~CP~CR~~ 118 (143)
.|+|....+.. .++-. .|.|.-+.+ ++.|+.. .-.||.|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 57888777655 33444 488852211 2234432 2359999763
No 126
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=87.87 E-value=0.22 Score=36.21 Aligned_cols=52 Identities=29% Similarity=0.574 Sum_probs=36.5
Q ss_pred CCCccccccccccCCCeeeE-cC--CCCCcccHHhHHHHHhC---------CCCCccccCccCC
Q 032328 70 SPVDCVVCLENFRMGDKCRL-LP--NCRHSFHAQCIDSWLLK---------TPICPICRTRVSP 121 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~-l~--~C~H~FH~~Ci~~wl~~---------~~~CP~CR~~i~~ 121 (143)
...+|.+|.+++.+.+..+. .+ .|+-.+|..|+..-+.. ...||.|++.+.-
T Consensus 181 ~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w 244 (276)
T KOG3005|consen 181 LNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSW 244 (276)
T ss_pred cchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeH
Confidence 34689999999954444333 22 68889999999984421 2459999986553
No 127
>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=87.84 E-value=0.55 Score=30.50 Aligned_cols=7 Identities=29% Similarity=0.178 Sum_probs=2.9
Q ss_pred hhhccCc
Q 032328 29 RAFRRGY 35 (143)
Q Consensus 29 ~~~~~~~ 35 (143)
...||++
T Consensus 22 ~~rRR~r 28 (130)
T PF12273_consen 22 HNRRRRR 28 (130)
T ss_pred HHHHHhh
Confidence 3444433
No 128
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=87.77 E-value=0.32 Score=34.22 Aligned_cols=47 Identities=26% Similarity=0.585 Sum_probs=36.1
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
+-..|.+|..-...+ +....||=.+|..|+...+++...||-|..-+
T Consensus 180 nlk~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 445799999876654 33334777899999999999999999995443
No 129
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.17 E-value=0.27 Score=37.92 Aligned_cols=46 Identities=22% Similarity=0.408 Sum_probs=32.4
Q ss_pred CCccccccccccC--CCeeeEcCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 71 PVDCVVCLENFRM--GDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 71 ~~~C~ICl~~~~~--~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
-..|+.|.-.++. |=...... |||.|++.|...|...+..|..|-+
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCccc
Confidence 4568888766543 33344455 9999999999999888777754433
No 130
>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 PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=86.81 E-value=0.45 Score=23.87 Aligned_cols=26 Identities=35% Similarity=0.737 Sum_probs=14.7
Q ss_pred ccccccccccCCCe-------eeEcCCCCCccc
Q 032328 73 DCVVCLENFRMGDK-------CRLLPNCRHSFH 98 (143)
Q Consensus 73 ~C~ICl~~~~~~~~-------v~~l~~C~H~FH 98 (143)
.|+-|...|..++. ....+.|+|.|.
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 57777777754432 233345666664
No 132
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.75 E-value=0.25 Score=41.07 Aligned_cols=44 Identities=27% Similarity=0.580 Sum_probs=31.5
Q ss_pred CCCccccccccccC-C---CeeeEcCCCCCcccHHhHHHHHhCCCCCccc
Q 032328 70 SPVDCVVCLENFRM-G---DKCRLLPNCRHSFHAQCIDSWLLKTPICPIC 115 (143)
Q Consensus 70 ~~~~C~ICl~~~~~-~---~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~C 115 (143)
.+..|.-|.+.... + +.+.+.. |||+||+.|+..-..++. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 34579999988652 2 4556665 999999999987666654 5444
No 133
>PLN02400 cellulose synthase
Probab=86.36 E-value=1 Score=39.03 Aligned_cols=54 Identities=24% Similarity=0.460 Sum_probs=35.1
Q ss_pred CCCcccccccccc---CCCeeeEcCCCCCcccHHhHHH-HHhCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDS-WLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~-wl~~~~~CP~CR~~i~~~~ 123 (143)
+...|.||-++.. +++.-+....|+-=-|+.|.+- .-..++.||-|+.+-..-+
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~K 92 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHK 92 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccccc
Confidence 5568999999974 4444433334555478888842 1123678999999988553
No 134
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=85.94 E-value=0.41 Score=37.37 Aligned_cols=34 Identities=29% Similarity=0.699 Sum_probs=28.6
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL 107 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~ 107 (143)
++-.|+||..-|.++ +++| |+|-.|.-|-..-+.
T Consensus 3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence 456799999999887 8888 999999999876553
No 135
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.11 E-value=0.2 Score=40.48 Aligned_cols=53 Identities=30% Similarity=0.715 Sum_probs=31.1
Q ss_pred CCCCcccccccc-----ccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcc
Q 032328 69 SSPVDCVVCLEN-----FRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVG 125 (143)
Q Consensus 69 ~~~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~ 125 (143)
.....|.+|-.. |+ .+.++..-.|+++||++|... ....||.|-+.-..++.+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R~q~r~~~~ 566 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCERRQKRAEQG 566 (580)
T ss_pred cCeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchHHHHHHhhcc
Confidence 345678888211 22 223333334999999999855 234499996555444433
No 136
>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=84.95 E-value=0.59 Score=24.85 Aligned_cols=43 Identities=26% Similarity=0.510 Sum_probs=28.0
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHh------CCCCCcccc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL------KTPICPICR 116 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~------~~~~CP~CR 116 (143)
.|.||...-..+ .+..-..|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~-~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDG-DMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTS-SEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCC-CeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 388999844444 4444445999999999866432 134588775
No 137
>PLN02436 cellulose synthase A
Probab=84.66 E-value=1.8 Score=37.65 Aligned_cols=54 Identities=22% Similarity=0.434 Sum_probs=36.3
Q ss_pred CCCccccccccc---cCCCeeeEcCCCCCcccHHhHHHHH-hCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENF---RMGDKCRLLPNCRHSFHAQCIDSWL-LKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~---~~~~~v~~l~~C~H~FH~~Ci~~wl-~~~~~CP~CR~~i~~~~ 123 (143)
....|.||-++. .+++.-+....|+---|+.|.+-=- ..++.||-|+++-..-.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 456899999996 4455544433455557888884311 23677999999888443
No 138
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=84.51 E-value=1.7 Score=32.68 Aligned_cols=53 Identities=21% Similarity=0.524 Sum_probs=35.6
Q ss_pred CCCCccccccccc---------cCC-------CeeeEcCCCCCcccHHhHHHHHhC---------CCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENF---------RMG-------DKCRLLPNCRHSFHAQCIDSWLLK---------TPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~---------~~~-------~~v~~l~~C~H~FH~~Ci~~wl~~---------~~~CP~CR~~i~~~ 122 (143)
....+|++|+..= +.+ -.....| |||+.-.+=..-|-+. +..||.|-..+.-+
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 4567899999761 000 0112345 9999888888889754 34599998887754
No 139
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=84.38 E-value=3.6 Score=20.76 Aligned_cols=28 Identities=11% Similarity=0.199 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 032328 6 LISLTLLFVGIAALVVIHVCVVGRAFRR 33 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (143)
+..++.+.++++++.+..+++..++.+.
T Consensus 6 IaIIv~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 6 IAIIVAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 4445566666666666666665544443
No 140
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=82.17 E-value=2.5 Score=36.78 Aligned_cols=54 Identities=20% Similarity=0.407 Sum_probs=35.5
Q ss_pred CCCcccccccccc---CCCeeeEcCCCCCcccHHhHHH-HHhCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDS-WLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~-wl~~~~~CP~CR~~i~~~~ 123 (143)
+...|.||-++.. +|+.-+....|+-=-|+.|.+- .-..++.||-|+++-..-+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 4568999999974 4444443334554478888843 1133678999999888544
No 141
>PF15102 TMEM154: TMEM154 protein family
Probab=81.08 E-value=0.48 Score=31.42 Aligned_cols=6 Identities=33% Similarity=1.199 Sum_probs=2.6
Q ss_pred HHHHHh
Q 032328 102 IDSWLL 107 (143)
Q Consensus 102 i~~wl~ 107 (143)
+++|..
T Consensus 130 ldkwm~ 135 (146)
T PF15102_consen 130 LDKWMN 135 (146)
T ss_pred HHhHHH
Confidence 344543
No 142
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.91 E-value=1.3 Score=33.22 Aligned_cols=47 Identities=21% Similarity=0.325 Sum_probs=35.4
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC---CCCCccccC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK---TPICPICRT 117 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~---~~~CP~CR~ 117 (143)
.-..||+=-++-.+++....+. |||+--++-+++.-+. ...||.|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4457998888877777777777 9999999999885433 345999943
No 143
>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=80.91 E-value=0.58 Score=25.45 Aligned_cols=14 Identities=21% Similarity=0.743 Sum_probs=7.5
Q ss_pred CCCccccCccCCCC
Q 032328 110 PICPICRTRVSPSK 123 (143)
Q Consensus 110 ~~CP~CR~~i~~~~ 123 (143)
..||+|.+++....
T Consensus 21 ~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 21 GCCPLCGRPLDEEH 34 (54)
T ss_dssp EE-TTT--EE-HHH
T ss_pred CcCCCCCCCCCHHH
Confidence 37999999988653
No 144
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=80.61 E-value=0.96 Score=28.13 Aligned_cols=18 Identities=33% Similarity=0.285 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032328 6 LISLTLLFVGIAALVVIH 23 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~~ 23 (143)
+++++.++.++.++..++
T Consensus 65 li~lls~v~IlVily~Iy 82 (101)
T PF06024_consen 65 LISLLSFVCILVILYAIY 82 (101)
T ss_pred HHHHHHHHHHHHHHhhhe
Confidence 334444443333333333
No 145
>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=80.55 E-value=0.93 Score=20.89 Aligned_cols=23 Identities=22% Similarity=0.605 Sum_probs=11.4
Q ss_pred ccccccccccCCCeeeEcCCCCCcc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSF 97 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~F 97 (143)
.|+-|-.++... ....|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 356666554332 23334566665
No 146
>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=80.32 E-value=1.1 Score=25.48 Aligned_cols=12 Identities=25% Similarity=0.919 Sum_probs=8.7
Q ss_pred cccHHhHHHHHh
Q 032328 96 SFHAQCIDSWLL 107 (143)
Q Consensus 96 ~FH~~Ci~~wl~ 107 (143)
-||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
No 147
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.90 E-value=1.2 Score=35.01 Aligned_cols=59 Identities=25% Similarity=0.517 Sum_probs=41.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC--------CCC--ccccCccCCCCcceeecC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT--------PIC--PICRTRVSPSKVGVILKD 130 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~--------~~C--P~CR~~i~~~~~~~~~~~ 130 (143)
.....|.||.+.+.. .+..+. |||-|+..|....+..+ .+| +-|+..+...++......
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~ 136 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSD 136 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCC
Confidence 356789999999776 345555 99999999998888542 234 567777776666555544
No 148
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=79.06 E-value=2.9 Score=35.19 Aligned_cols=14 Identities=21% Similarity=0.287 Sum_probs=7.4
Q ss_pred hHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVG 15 (143)
Q Consensus 2 ~~~il~~~~~~~~~ 15 (143)
++.||+++++++++
T Consensus 275 Ll~ILG~~~livl~ 288 (807)
T PF10577_consen 275 LLAILGGTALIVLI 288 (807)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555555544
No 149
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=78.98 E-value=1.7 Score=30.95 Aligned_cols=14 Identities=21% Similarity=0.460 Sum_probs=6.5
Q ss_pred hHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVG 15 (143)
Q Consensus 2 ~~~il~~~~~~~~~ 15 (143)
+|.+++++++++++
T Consensus 15 iLNiaI~IV~lLIi 28 (217)
T PF07423_consen 15 ILNIAIGIVSLLII 28 (217)
T ss_pred hHHHHHHHHHHHHH
Confidence 44555555444333
No 150
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=78.51 E-value=2.7 Score=25.07 Aligned_cols=6 Identities=67% Similarity=0.844 Sum_probs=2.3
Q ss_pred HHHHHH
Q 032328 3 MEILIS 8 (143)
Q Consensus 3 ~~il~~ 8 (143)
|.|+++
T Consensus 28 MtILiv 33 (85)
T PF10717_consen 28 MTILIV 33 (85)
T ss_pred HHHHHH
Confidence 333333
No 151
>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=78.13 E-value=1.6 Score=21.27 Aligned_cols=37 Identities=22% Similarity=0.545 Sum_probs=24.0
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
.|+.|-+.+..++..... =+..||.+|. .|..|+..+
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 377888887776343333 4778888775 466676655
No 152
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.34 E-value=1.9 Score=31.21 Aligned_cols=35 Identities=20% Similarity=0.242 Sum_probs=28.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL 107 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~ 107 (143)
..-+.|..||+++.++ .+.| =||+|.++||-+++.
T Consensus 41 K~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 4567899999998885 5555 799999999998874
No 153
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=77.22 E-value=3.1 Score=31.33 Aligned_cols=52 Identities=23% Similarity=0.514 Sum_probs=37.8
Q ss_pred CCccccccccccCCCe-eeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 71 PVDCVVCLENFRMGDK-CRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
...|+||-+.....+. ..-.| |++.-|..|+..-...+..||.||.+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccCc
Confidence 4789999998744332 22233 8888888888887788899999996665443
No 154
>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=75.85 E-value=1.2 Score=25.26 Aligned_cols=37 Identities=16% Similarity=0.483 Sum_probs=18.3
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHH
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWL 106 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl 106 (143)
+...|.+|...|.--..-.....||++|+..|.....
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 3467999999996533333333599999999986543
No 155
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.67 E-value=1.6 Score=32.22 Aligned_cols=39 Identities=21% Similarity=0.423 Sum_probs=28.9
Q ss_pred CCCccccccccccCCCeeeEcC-CCCCcccHHhHHHHHhCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLP-NCRHSFHAQCIDSWLLKT 109 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci~~wl~~~ 109 (143)
....|.+|.|.+++..-|. .| -=.|.||.-|-++-++.+
T Consensus 267 apLcCTLC~ERLEDTHFVQ-CPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceee-cCCCcccceecccCHHHHHhh
Confidence 4467999999999864443 22 126999999999988654
No 156
>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=75.60 E-value=0.85 Score=30.40 Aligned_cols=37 Identities=32% Similarity=0.556 Sum_probs=25.2
Q ss_pred ccHHhHHHHHhCCC----CCccccCccCCCCcceeecCCCC
Q 032328 97 FHAQCIDSWLLKTP----ICPICRTRVSPSKVGVILKDGSS 133 (143)
Q Consensus 97 FH~~Ci~~wl~~~~----~CP~CR~~i~~~~~~~~~~~~~~ 133 (143)
||-.|+++=|..-+ .||.|+..-.........+....
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~~~~~~~~ 42 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQLPPTSR 42 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCcccccCCCcch
Confidence 78889888765533 49999887777666555444333
No 157
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=75.39 E-value=2.9 Score=31.54 Aligned_cols=46 Identities=20% Similarity=0.417 Sum_probs=32.8
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCcccc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICR 116 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR 116 (143)
....|-.|.++.......+- +.|+|.||.+|=.---..--.||.|-
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C-~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRC-ESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccCCCCcEEc-hhccceeeccchHHHHhhhhcCCCcC
Confidence 44569999777766544443 45999999999755445556699995
No 158
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.89 E-value=0.64 Score=30.37 Aligned_cols=59 Identities=22% Similarity=0.553 Sum_probs=33.6
Q ss_pred CCCCcccccccc-ccCCCeeeEcCCCCCcccH-------HhHHHHHhC-CC---CCccccCccC--CCCcceeecCCCCC
Q 032328 69 SSPVDCVVCLEN-FRMGDKCRLLPNCRHSFHA-------QCIDSWLLK-TP---ICPICRTRVS--PSKVGVILKDGSSV 134 (143)
Q Consensus 69 ~~~~~C~ICl~~-~~~~~~v~~l~~C~H~FH~-------~Ci~~wl~~-~~---~CP~CR~~i~--~~~~~~~~~~~~~~ 134 (143)
.++..|.||+.. |.++ |||..|+ .|--+.-.+ ++ .|.+||.... .+...|-..+++.+
T Consensus 63 ~ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q~il~ksg~wf~~sgs~~ 134 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQEILTKSGAWFYNSGSNT 134 (169)
T ss_pred CcCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHHHHHHhcchHHHhcCCCC
Confidence 467789999954 4443 8885443 222221122 22 3899987544 45566666666554
Q ss_pred C
Q 032328 135 S 135 (143)
Q Consensus 135 ~ 135 (143)
+
T Consensus 135 ~ 135 (169)
T KOG3799|consen 135 P 135 (169)
T ss_pred C
Confidence 4
No 159
>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=74.84 E-value=6.5 Score=24.62 Aligned_cols=51 Identities=20% Similarity=0.344 Sum_probs=29.2
Q ss_pred CCCccccccccccCCCeee----EcCCC---CCcccHHhHHHHHhC---------CCCCccccCccC
Q 032328 70 SPVDCVVCLENFRMGDKCR----LLPNC---RHSFHAQCIDSWLLK---------TPICPICRTRVS 120 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~----~l~~C---~H~FH~~Ci~~wl~~---------~~~CP~CR~~i~ 120 (143)
....|..|...-.+....- ..+.| .=.|+..|+..++.. +-.||.||.--+
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCn 72 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICN 72 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeC
Confidence 3456777776533211110 11235 457999999888743 234999987443
No 160
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=74.33 E-value=6.3 Score=34.40 Aligned_cols=53 Identities=21% Similarity=0.382 Sum_probs=35.2
Q ss_pred CCCcccccccccc---CCCeeeEcCCCCCcccHHhHHHH-HhCCCCCccccCccCCC
Q 032328 70 SPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDSW-LLKTPICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~w-l~~~~~CP~CR~~i~~~ 122 (143)
....|.||-++.. +|+.-+....|+---|+.|.+-= -..++.||-|+.+...-
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~ 70 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRH 70 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhh
Confidence 5678999999974 34444433345555788898431 12367899999988744
No 161
>PLN02195 cellulose synthase A
Probab=73.88 E-value=5.4 Score=34.51 Aligned_cols=51 Identities=18% Similarity=0.401 Sum_probs=34.9
Q ss_pred CCCCcccccccccc---CCCeeeEcCCCCCcccHHhHHHHHh--CCCCCccccCccC
Q 032328 69 SSPVDCVVCLENFR---MGDKCRLLPNCRHSFHAQCIDSWLL--KTPICPICRTRVS 120 (143)
Q Consensus 69 ~~~~~C~ICl~~~~---~~~~v~~l~~C~H~FH~~Ci~~wl~--~~~~CP~CR~~i~ 120 (143)
+....|.||-++.. +++.-+....|+---|+.|.+- =. .++.||-|+.+-.
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyey-er~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEY-EIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhh-hhhcCCccCCccCCccc
Confidence 45678999999874 3444443334666678888843 22 3677999999887
No 162
>PF15179 Myc_target_1: Myc target protein 1
Probab=73.44 E-value=12 Score=25.85 Aligned_cols=25 Identities=12% Similarity=0.163 Sum_probs=9.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVCV 26 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~~ 26 (143)
||++-+++++.+++-+++.+++.|+
T Consensus 22 IlaF~vSm~iGLviG~li~~Lltwl 46 (197)
T PF15179_consen 22 ILAFCVSMAIGLVIGALIWALLTWL 46 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444433333333333333
No 163
>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=72.14 E-value=0.63 Score=34.46 Aligned_cols=46 Identities=22% Similarity=0.351 Sum_probs=20.4
Q ss_pred CCCccccccccccCCCeeeEcCC----CCCcccHHhHHHHHhCCCCCccccCc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPN----CRHSFHAQCIDSWLLKTPICPICRTR 118 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~----C~H~FH~~Ci~~wl~~~~~CP~CR~~ 118 (143)
....|++|-..-.-. .+... -.|.+|.-|-..|-..+..||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 346899998773221 11111 23567777999998888899999443
No 164
>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=71.90 E-value=3.8 Score=22.15 Aligned_cols=36 Identities=19% Similarity=0.493 Sum_probs=23.9
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHh
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL 107 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~ 107 (143)
..|.+|-..|.....-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 468888887765322222235999999999876543
No 165
>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=70.27 E-value=2.4 Score=28.49 Aligned_cols=45 Identities=24% Similarity=0.541 Sum_probs=31.5
Q ss_pred ccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 75 VVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 75 ~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.||+.--...+.+-.-|.=.+-||.+|-.+-+.. ||.|..+|.-.
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~~---Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTITS---CPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHHH---CcCCCCCCCCc
Confidence 3677665555555555545688999999876544 99999888744
No 166
>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=70.00 E-value=5 Score=18.80 Aligned_cols=29 Identities=17% Similarity=0.422 Sum_probs=10.7
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhH
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCI 102 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci 102 (143)
.|.+|-++... +....-+.|.-.+|.+|+
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 47788888665 445555568888898885
No 167
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=69.82 E-value=1.3 Score=24.53 Aligned_cols=22 Identities=27% Similarity=0.541 Sum_probs=16.0
Q ss_pred CeeeEcCCCCCcccHHhHHHHH
Q 032328 85 DKCRLLPNCRHSFHAQCIDSWL 106 (143)
Q Consensus 85 ~~v~~l~~C~H~FH~~Ci~~wl 106 (143)
......+.|+|.|+..|...|-
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCeeECCCCCCeECCCCCCcCC
Confidence 3445554589999999988873
No 168
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=67.92 E-value=13 Score=22.94 Aligned_cols=24 Identities=25% Similarity=0.502 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 032328 5 ILISLTLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 5 il~~~~~~~~~~~~~~~~~~~~~~ 28 (143)
+|+.++.+++++.+++.+++|++.
T Consensus 21 fLItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 21 FLITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Confidence 566677777777778888877744
No 169
>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=67.65 E-value=8.6 Score=26.14 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 032328 10 TLLFVGIAALVVIHVCVVGRAFRR 33 (143)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~ 33 (143)
+.+++++.+++++|+.+..++.++
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 344445555555555544444444
No 170
>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=67.57 E-value=3.3 Score=20.00 Aligned_cols=20 Identities=20% Similarity=0.668 Sum_probs=11.6
Q ss_pred CCCCcccHHhHHHHHhCCCCCccccC
Q 032328 92 NCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 92 ~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
.|||++-..- ....||.|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 3676653322 3457999965
No 171
>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=67.29 E-value=5.1 Score=25.88 Aligned_cols=12 Identities=17% Similarity=0.304 Sum_probs=4.5
Q ss_pred HHhhhhccCccc
Q 032328 26 VVGRAFRRGYEQ 37 (143)
Q Consensus 26 ~~~~~~~~~~~~ 37 (143)
++.+..||++.+
T Consensus 83 li~y~irR~~Kk 94 (122)
T PF01102_consen 83 LISYCIRRLRKK 94 (122)
T ss_dssp HHHHHHHHHS--
T ss_pred HHHHHHHHHhcc
Confidence 334455444443
No 172
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.06 E-value=8.2 Score=22.44 Aligned_cols=51 Identities=20% Similarity=0.535 Sum_probs=33.0
Q ss_pred CccccccccccCCCeeeEcCCC--CCcccHHhHHHHHhCCCCCccccCccCCCCcce
Q 032328 72 VDCVVCLENFRMGDKCRLLPNC--RHSFHAQCIDSWLLKTPICPICRTRVSPSKVGV 126 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C--~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~ 126 (143)
..|--|-.++..+..-... | .|.|+..|...-| +..||.|-.++....+.+
T Consensus 6 PnCECCDrDLpp~s~dA~I--CtfEcTFCadCae~~l--~g~CPnCGGelv~RP~RP 58 (84)
T COG3813 6 PNCECCDRDLPPDSTDARI--CTFECTFCADCAENRL--HGLCPNCGGELVARPIRP 58 (84)
T ss_pred CCCcccCCCCCCCCCceeE--EEEeeehhHhHHHHhh--cCcCCCCCchhhcCcCCh
Confidence 3466666665443322222 4 4899999998744 466999988887665543
No 173
>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=67.02 E-value=1.8 Score=33.41 Aligned_cols=51 Identities=20% Similarity=0.468 Sum_probs=0.0
Q ss_pred CCCccccccccc-------------cCC---CeeeEcCCCCCcccHHhHHHHHhC---------CCCCccccCccCC
Q 032328 70 SPVDCVVCLENF-------------RMG---DKCRLLPNCRHSFHAQCIDSWLLK---------TPICPICRTRVSP 121 (143)
Q Consensus 70 ~~~~C~ICl~~~-------------~~~---~~v~~l~~C~H~FH~~Ci~~wl~~---------~~~CP~CR~~i~~ 121 (143)
....|++|+..- ..+ -.....| |||+--.+...-|-+. +..||.|-..+..
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 367899999652 111 1223456 9999888889889753 2459999888874
No 174
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=66.75 E-value=3.2 Score=20.60 Aligned_cols=14 Identities=21% Similarity=0.812 Sum_probs=9.2
Q ss_pred CccccccccccCCC
Q 032328 72 VDCVVCLENFRMGD 85 (143)
Q Consensus 72 ~~C~ICl~~~~~~~ 85 (143)
..|+=|...|..++
T Consensus 3 i~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 3 ITCPNCQAKYEIDD 16 (36)
T ss_pred EECCCCCCEEeCCH
Confidence 35777887776543
No 176
>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=65.92 E-value=1.6 Score=25.25 Aligned_cols=41 Identities=20% Similarity=0.475 Sum_probs=20.2
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
..|+.|..++.... +|.++..|-.. +.....||-|..++..
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46888988865532 44444556544 3445668888887764
No 177
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=65.85 E-value=6.6 Score=33.08 Aligned_cols=29 Identities=38% Similarity=0.761 Sum_probs=20.6
Q ss_pred EcCCCCCcccHHhHHHHHhCCCCCccccCccCC
Q 032328 89 LLPNCRHSFHAQCIDSWLLKTPICPICRTRVSP 121 (143)
Q Consensus 89 ~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~ 121 (143)
+.|.|+|.-|.+=|. +...||+|...+..
T Consensus 1158 lC~~CkH~a~~~EIs----~y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1158 LCPRCKHRAHQHEIS----KYNCCPLCHSMESF 1186 (1189)
T ss_pred Ecccccccccccccc----ccccCccccChhhc
Confidence 344699988877663 35789999876543
No 178
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.79 E-value=2.9 Score=31.18 Aligned_cols=52 Identities=25% Similarity=0.547 Sum_probs=40.7
Q ss_pred CCCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 68 GSSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
...++.|-||...+...... ..|.|.|+..|-..|....+.||.||.....-
T Consensus 102 ~~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred cCCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 35677899999887664322 24999999999999999989999998876644
No 179
>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=65.61 E-value=16 Score=21.43 Aligned_cols=10 Identities=20% Similarity=0.305 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 032328 6 LISLTLLFVG 15 (143)
Q Consensus 6 l~~~~~~~~~ 15 (143)
+++.+++|++
T Consensus 6 l~~plivf~i 15 (75)
T PF06667_consen 6 LFVPLIVFMI 15 (75)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 180
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=65.34 E-value=4.5 Score=29.46 Aligned_cols=41 Identities=15% Similarity=0.240 Sum_probs=30.4
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCC--CCcc
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTP--ICPI 114 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~--~CP~ 114 (143)
...|+|=...+..+ .+-.+|||+|-++=|.+.+.... .||+
T Consensus 176 s~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 34699887777664 33346999999999999887633 4876
No 181
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=64.96 E-value=7.2 Score=25.85 Aligned_cols=15 Identities=27% Similarity=0.625 Sum_probs=11.7
Q ss_pred CCCCccccCccCCCC
Q 032328 109 TPICPICRTRVSPSK 123 (143)
Q Consensus 109 ~~~CP~CR~~i~~~~ 123 (143)
...||.|...+...+
T Consensus 123 ~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 123 TFTCPRCGEELEEDD 137 (147)
T ss_pred cEECCCCCCEEEEcC
Confidence 367999999887654
No 182
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=64.68 E-value=1.4 Score=23.93 Aligned_cols=37 Identities=35% Similarity=0.765 Sum_probs=20.1
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHh--CCCCCccccCc
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLL--KTPICPICRTR 118 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~--~~~~CP~CR~~ 118 (143)
...||.|-+.+.. ..| +.| |.+.-.. ....||+|...
T Consensus 2 ~f~CP~C~~~~~~----~~L--~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSE----SSL--VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCH----HHH--HHH-----HHhHCcCCCCCccCCCchhh
Confidence 3568888885444 222 344 2232222 23559999764
No 183
>PF00539 Tat: Transactivating regulatory protein (Tat); InterPro: IPR001831 Like other lentiviruses, Human immunodeficiency virus 1 (HIV-1) encodes a trans-activating regulatory protein (Tat), which is essential for efficient transcription of the viral genome [, ]. Tat acts by binding to an RNA stem-loop structure, the trans-activating response element (TAR), found at the 5' ends of nascent HIV-1 transcripts. In binding to TAR, Tat alters the properties of the transcription complex, recruits a positive transcription elongation complex (P-TEFb) and hence increases the production of full-length viral RNA []. Tat protein also associates with RNA polymerase II complexes during early transcription elongation after the promoter clearance and before the synthesis of full-length TAR RNA transcript. This interaction of Tat with RNA polymerase II elongation complexes is P-TEFb-independent. There are two Tat binding sites on each transcription elongation complex; one is located on TAR RNA and the other one on RNA polymerase II near the exit site for nascent mRNA transcripts which suggests that two Tat molecules are involved in performing various functions during a single round of HIV-1 mRNA synthesis []. The minimum Tat sequence that can mediate specific TAR binding in vitro has been mapped to a basic domain of 10 amino acids, comprising mostly Arg and Lys residues. Regulatory activity, however, also requires the 47 N-terminal residues, which interact with components of the transcription complex and function as a transcriptional activation domain [, , ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 2W2H_D 1ZBN_B 1TVS_A 1TVT_A 3O6L_C 3O6M_C 3MI9_C 3MIA_C 1JFW_A 1TBC_A ....
Probab=64.65 E-value=5.2 Score=23.00 Aligned_cols=43 Identities=21% Similarity=0.539 Sum_probs=27.8
Q ss_pred cccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeecCC
Q 032328 78 LENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILKDG 131 (143)
Q Consensus 78 l~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~ 131 (143)
++++..+-.-...+ |+.+|++.|. ..|.+| +..+.+|..+...
T Consensus 13 ~e~w~~p~s~P~t~-Cn~CyCK~Cc-------yHCqlC---Fl~KgLGI~Y~r~ 55 (68)
T PF00539_consen 13 LEPWKHPGSQPLTP-CNKCYCKKCC-------YHCQLC---FLQKGLGISYGRK 55 (68)
T ss_dssp SSTTSS-SSSTTSS-SSSSSSTTST-------SSSSCC---CCCTSSSTSSSSS
T ss_pred cccccCCCCCCCCC-cCCcccCcce-------eeceee---eeeCCCccccccc
Confidence 34444433335555 9889998886 568998 7767666665543
No 184
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=64.60 E-value=3.9 Score=30.71 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=29.2
Q ss_pred CCCccccccccccCCCeeeE--cCCCCCcccHHhHHHHHhCCCCCccccC
Q 032328 70 SPVDCVVCLENFRMGDKCRL--LPNCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~--l~~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
....|++|-..=... .+.. ...=.|.+|.-|-..|-..+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 467899998762111 0000 0012345556688899888889999975
No 185
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=64.23 E-value=4.2 Score=22.70 Aligned_cols=14 Identities=29% Similarity=1.158 Sum_probs=10.5
Q ss_pred CCCCccccCccCCC
Q 032328 109 TPICPICRTRVSPS 122 (143)
Q Consensus 109 ~~~CP~CR~~i~~~ 122 (143)
.+.||+|..+....
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 36699998887654
No 186
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=63.47 E-value=7.6 Score=23.92 Aligned_cols=29 Identities=17% Similarity=0.458 Sum_probs=18.0
Q ss_pred CCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 93 CRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
||++=|.-=+.++.. -.+||.|+.+.+..
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCcc
Confidence 777544444444432 35699999988753
No 187
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=62.89 E-value=26 Score=20.74 Aligned_cols=10 Identities=20% Similarity=0.673 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 032328 10 TLLFVGIAAL 19 (143)
Q Consensus 10 ~~~~~~~~~~ 19 (143)
+++..|+..+
T Consensus 49 iI~~~gv~~~ 58 (84)
T PRK13718 49 VILYSGVLLF 58 (84)
T ss_pred HHHHHhHHHH
Confidence 3333444333
No 188
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=62.36 E-value=7.3 Score=21.07 Aligned_cols=23 Identities=30% Similarity=0.709 Sum_probs=11.9
Q ss_pred CCCCcccHHhHHHHHhCCCCCccc
Q 032328 92 NCRHSFHAQCIDSWLLKTPICPIC 115 (143)
Q Consensus 92 ~C~H~FH~~Ci~~wl~~~~~CP~C 115 (143)
.|||.|-..=-.+ ......||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-ccCCCCCCCC
Confidence 4677554332111 2445669987
No 189
>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=61.36 E-value=3.1 Score=20.68 Aligned_cols=29 Identities=17% Similarity=0.466 Sum_probs=17.5
Q ss_pred cCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 90 LPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 90 l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
.+.||++||..---+ .....|..|..++.
T Consensus 4 C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp ETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred cCCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 346999998544322 33456888876554
No 190
>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=61.11 E-value=5.1 Score=21.54 Aligned_cols=40 Identities=15% Similarity=0.391 Sum_probs=29.8
Q ss_pred cccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
|+-|-..+..++.+... -+..||.+|. .|-.|+.++....
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCCCe
Confidence 67788888876655433 6788998775 5889998887765
No 191
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=60.24 E-value=5.1 Score=26.77 Aligned_cols=32 Identities=19% Similarity=0.488 Sum_probs=22.0
Q ss_pred CCCcccHHhHHHHHhC-----------CCCCccccCccCCCCcceeec
Q 032328 93 CRHSFHAQCIDSWLLK-----------TPICPICRTRVSPSKVGVILK 129 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~~-----------~~~CP~CR~~i~~~~~~~~~~ 129 (143)
+||.| +.|+.. ..+||+|-..-..+.++...-
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~K~lmAP~v 52 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEVSKALMAPAV 52 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeEeeecCCCee
Confidence 57988 789853 356999987766665554433
No 192
>PRK09458 pspB phage shock protein B; Provisional
Probab=59.68 E-value=23 Score=20.81 Aligned_cols=12 Identities=25% Similarity=0.099 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 032328 4 EILISLTLLFVG 15 (143)
Q Consensus 4 ~il~~~~~~~~~ 15 (143)
.++++-+++|++
T Consensus 4 ~fl~~PliiF~i 15 (75)
T PRK09458 4 LFLAIPLTIFVL 15 (75)
T ss_pred hHHHHhHHHHHH
Confidence 333333333333
No 193
>PRK05978 hypothetical protein; Provisional
Probab=59.47 E-value=7.4 Score=26.03 Aligned_cols=25 Identities=16% Similarity=0.432 Sum_probs=19.7
Q ss_pred CCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 94 RHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 94 ~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
||+|+ .+++-+..||.|-.++...+
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCC
Confidence 47774 67888899999988887663
No 194
>PF07379 DUF1494: Protein of unknown function (DUF1494); InterPro: IPR009968 This family consists of several bacterial proteins of around 175 residues in length. Members of this family seem to be found exclusively in Chlamydia species. The function of this family is unknown.
Probab=59.06 E-value=16 Score=24.69 Aligned_cols=23 Identities=35% Similarity=0.478 Sum_probs=18.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHH
Q 032328 1 MVMEILISLTLLFVGIAALVVIH 23 (143)
Q Consensus 1 ~~~~il~~~~~~~~~~~~~~~~~ 23 (143)
++|+++++++++.+.++++.+++
T Consensus 6 lL~EllIs~tL~alLlgvLg~w~ 28 (170)
T PF07379_consen 6 LLMELLISMTLIALLLGVLGFWY 28 (170)
T ss_pred eHHHHHHHHHHHHHHHHhhhHHH
Confidence 36889999998888888776654
No 195
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=58.45 E-value=3.2 Score=30.87 Aligned_cols=21 Identities=10% Similarity=0.298 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032328 6 LISLTLLFVGIAALVVIHVCV 26 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~~~~~ 26 (143)
+.+++++++.+++.+++.+|+
T Consensus 150 IpaVVI~~iLLIA~iIa~icy 170 (290)
T PF05454_consen 150 IPAVVIAAILLIAGIIACICY 170 (290)
T ss_dssp ---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 333344444433333333333
No 196
>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=57.71 E-value=2.2 Score=21.89 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=14.2
Q ss_pred CCCCcccHHhHHHHHhCCCCCccccC
Q 032328 92 NCRHSFHAQCIDSWLLKTPICPICRT 117 (143)
Q Consensus 92 ~C~H~FH~~Ci~~wl~~~~~CP~CR~ 117 (143)
.|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 58888754321110 22456999987
No 197
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=57.32 E-value=26 Score=18.36 Aligned_cols=9 Identities=22% Similarity=0.327 Sum_probs=3.2
Q ss_pred HHHHHHHHH
Q 032328 7 ISLTLLFVG 15 (143)
Q Consensus 7 ~~~~~~~~~ 15 (143)
+.+.+++.+
T Consensus 7 ip~sl~l~~ 15 (45)
T PF03597_consen 7 IPVSLILGL 15 (45)
T ss_pred HHHHHHHHH
Confidence 333333333
No 198
>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=57.31 E-value=22 Score=24.23 Aligned_cols=34 Identities=21% Similarity=0.068 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCccc
Q 032328 4 EILISLTLLFVGIAALVVIHVCVVGRAFRRGYEQ 37 (143)
Q Consensus 4 ~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 (143)
-.+++++.+...+++.+++..+...++.++.+.+
T Consensus 96 R~~~Vl~g~s~l~i~yfvir~~R~r~~~rktRkY 129 (163)
T PF06679_consen 96 RALYVLVGLSALAILYFVIRTFRLRRRNRKTRKY 129 (163)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhccccccceee
Confidence 3455555555555555556666555545543333
No 199
>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=57.07 E-value=8.1 Score=23.54 Aligned_cols=39 Identities=26% Similarity=0.479 Sum_probs=30.7
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
...|+-|...+.--|.+.++ .|+..+..|..|+.++...
T Consensus 33 rS~C~~C~~~L~~~~lIPi~-------------S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIPIL-------------SYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCcCcCCCCcCcccccchHH-------------HHHHhCCCCcccCCCCChH
Confidence 45699999888877666654 7888889999999988743
No 200
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.51 E-value=11 Score=31.33 Aligned_cols=52 Identities=23% Similarity=0.503 Sum_probs=36.1
Q ss_pred ccccccccccCCCeeeEcCCCCC-cccHHhHHHHHhC------CCCCccccCccCCCCcceee
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLK------TPICPICRTRVSPSKVGVIL 128 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~------~~~CP~CR~~i~~~~~~~~~ 128 (143)
.|+||-..+.- .....||| --+..|..+.... ...||+||.++.....+...
T Consensus 2 ~c~ic~~s~~~----~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~~~~ 60 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNGDSS 60 (669)
T ss_pred CcceeecCccc----cccccccccccchhhhhhhhhhcccccccccCcccccceeeecccccc
Confidence 59999888443 33445999 8889998876532 23479999988766555433
No 201
>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=56.14 E-value=6.3 Score=29.60 Aligned_cols=48 Identities=19% Similarity=0.267 Sum_probs=29.0
Q ss_pred CCCccccccccccCCCeeeEc---CCCCCcccHHhHHHHHhCCCCCccccCc
Q 032328 70 SPVDCVVCLENFRMGDKCRLL---PNCRHSFHAQCIDSWLLKTPICPICRTR 118 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l---~~C~H~FH~~Ci~~wl~~~~~CP~CR~~ 118 (143)
....|++|-..=... .++.. ..=.+.+|.-|-..|-..+..||.|-..
T Consensus 183 ~~~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 355899998762110 00110 0112455555888998888999999753
No 202
>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=55.91 E-value=8.1 Score=21.55 Aligned_cols=12 Identities=33% Similarity=1.232 Sum_probs=9.2
Q ss_pred CCCCccccCccC
Q 032328 109 TPICPICRTRVS 120 (143)
Q Consensus 109 ~~~CP~CR~~i~ 120 (143)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 456999988874
No 203
>COG4967 PilV Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=53.37 E-value=34 Score=23.29 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=19.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
++|++++++++.+|+..++.+...
T Consensus 14 LIEVLIA~lll~vglLgla~lQ~~ 37 (162)
T COG4967 14 LIEVLIAMLLLSVGLLGLAGLQAR 37 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999998887777633
No 204
>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=53.23 E-value=13 Score=27.39 Aligned_cols=49 Identities=27% Similarity=0.453 Sum_probs=27.7
Q ss_pred CccccccccccCCCeeeEcCCCCC-cccHHhHHHHHhC-CCCCccccCccCCC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLK-TPICPICRTRVSPS 122 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~-~~~CP~CR~~i~~~ 122 (143)
.-|.||++--.+|-.-.-+..-+- -=|++|.++|-.. ++.|| |..+...
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk~skS 81 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSKLSKS 81 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--ccccccc
Confidence 347777766544322221111111 3468999999654 77899 6665544
No 205
>PRK11827 hypothetical protein; Provisional
Probab=53.03 E-value=5.7 Score=22.26 Aligned_cols=19 Identities=26% Similarity=0.620 Sum_probs=11.4
Q ss_pred HHHhCCCCCccccCccCCC
Q 032328 104 SWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 104 ~wl~~~~~CP~CR~~i~~~ 122 (143)
+|+..--.||+|+.++...
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 3444445677777776643
No 206
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=52.99 E-value=2.2 Score=31.71 Aligned_cols=37 Identities=24% Similarity=0.582 Sum_probs=28.6
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT 109 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~ 109 (143)
.+|.+|+++|..+....... |.-.||..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 38999999998654445554 66699999999998764
No 207
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=52.97 E-value=9 Score=26.12 Aligned_cols=25 Identities=24% Similarity=0.587 Sum_probs=14.6
Q ss_pred eeEcCCCCCcccHHhHHHHHhCCCCCccccCc
Q 032328 87 CRLLPNCRHSFHAQCIDSWLLKTPICPICRTR 118 (143)
Q Consensus 87 v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~ 118 (143)
+.+.+.|||.+ .. ..-..||+|..+
T Consensus 134 ~~vC~vCGy~~----~g---e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTH----EG---EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcc----cC---CCCCcCCCCCCh
Confidence 45556688853 11 234569999643
No 208
>TIGR02523 type_IV_pilV type IV pilus modification protein PilV. Pilus systems categorized as type IV pilins differ greatly from one another, with some showing greater similarty to type II or type III secretion systems than to each other. Members of this protein family represent the PilV protein of type IV pilus systems as found in Pseudomonas aeruginosa PAO1, Pseudomonas syringae DC3000, Neisseria meningitidis MC58, Xylella fastidiosa 9a5c, etc.
Probab=52.76 E-value=28 Score=22.96 Aligned_cols=25 Identities=20% Similarity=0.579 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVCV 26 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~~ 26 (143)
++|++++++++.+++..++.+....
T Consensus 6 LIEvLVAl~Ilaigllg~~~~~~~~ 30 (139)
T TIGR02523 6 MIEVLVALLVLAIGVLGMAALQLKA 30 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788999988888887777666543
No 209
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.47 E-value=7.8 Score=23.59 Aligned_cols=13 Identities=23% Similarity=0.899 Sum_probs=11.1
Q ss_pred cccHHhHHHHHhC
Q 032328 96 SFHAQCIDSWLLK 108 (143)
Q Consensus 96 ~FH~~Ci~~wl~~ 108 (143)
-||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999854
No 210
>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=51.78 E-value=11 Score=27.10 Aligned_cols=26 Identities=23% Similarity=0.710 Sum_probs=18.5
Q ss_pred cHHhHHHHHhCCCCCccccCccCCCC
Q 032328 98 HAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 98 H~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
|..|-.+--...+.||+|+..--+..
T Consensus 197 C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hHhHHHHHhcCCCCCcccccccccCC
Confidence 45677776666788999987665553
No 211
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.73 E-value=2.2 Score=31.56 Aligned_cols=49 Identities=24% Similarity=0.512 Sum_probs=36.1
Q ss_pred CCCccccccccccCC--CeeeEcCC--------CCCcccHHhHHHHHhCC-CCCccccCc
Q 032328 70 SPVDCVVCLENFRMG--DKCRLLPN--------CRHSFHAQCIDSWLLKT-PICPICRTR 118 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~--~~v~~l~~--------C~H~FH~~Ci~~wl~~~-~~CP~CR~~ 118 (143)
....|.||...|..+ ..+..... |||..+..|+..-+... ..||.||..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346799999999843 23333334 99999999999977553 579999875
No 212
>PF13633 N_methyl_3: Prokaryotic N-terminal methylation site
Probab=51.29 E-value=23 Score=15.59 Aligned_cols=16 Identities=25% Similarity=0.455 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIA 17 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~ 17 (143)
+.+++++++++.++..
T Consensus 3 LIEvlIa~~i~~i~~~ 18 (22)
T PF13633_consen 3 LIEVLIAIAILGILAL 18 (22)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456666665555543
No 213
>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=50.87 E-value=14 Score=20.75 Aligned_cols=34 Identities=15% Similarity=0.316 Sum_probs=22.7
Q ss_pred CCccccccccccC--CCeeeEcCCCCCcccHHhHHH
Q 032328 71 PVDCVVCLENFRM--GDKCRLLPNCRHSFHAQCIDS 104 (143)
Q Consensus 71 ~~~C~ICl~~~~~--~~~v~~l~~C~H~FH~~Ci~~ 104 (143)
-..|+.|-..... .......|.||+.+|.+--..
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 3569999888766 445555566888777765443
No 214
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=50.57 E-value=5.4 Score=30.44 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=26.8
Q ss_pred CCCCccccccccccCCCeeeEcCCCC---Ccc--------cHHhHHHHH-----hCCCCCccccCc
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCR---HSF--------HAQCIDSWL-----LKTPICPICRTR 118 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~---H~F--------H~~Ci~~wl-----~~~~~CP~CR~~ 118 (143)
..++-|++|-+.... ...-.++ |. -.| |+.|+..-- ..++.||.||..
T Consensus 13 dl~ElCPVCGDkVSG-YHYGLLT-CESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG-YHYGLLT-CESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred ccccccccccCcccc-ceeeeee-hhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 456789999988543 4445555 43 233 233433210 113569999864
No 215
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=49.98 E-value=12 Score=27.26 Aligned_cols=25 Identities=20% Similarity=0.634 Sum_probs=17.9
Q ss_pred CccccccccccCCCeeeEcCCCCCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSF 97 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~F 97 (143)
..||+|-+.+...+.-...+ .||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999997655544444 58877
No 216
>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=49.72 E-value=14 Score=23.23 Aligned_cols=24 Identities=17% Similarity=0.451 Sum_probs=15.6
Q ss_pred CccccccccccC-CCeeeEcCCCCC
Q 032328 72 VDCVVCLENFRM-GDKCRLLPNCRH 95 (143)
Q Consensus 72 ~~C~ICl~~~~~-~~~v~~l~~C~H 95 (143)
+.|+-|-.+|.- .....+.|.|+|
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~ 27 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLY 27 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccc
Confidence 468889888742 223456667777
No 217
>PLN02248 cellulose synthase-like protein
Probab=49.62 E-value=22 Score=31.47 Aligned_cols=36 Identities=25% Similarity=0.564 Sum_probs=28.6
Q ss_pred EcC-CCCCcccHHhHHHHHhCCCCCccccCccCCCCc
Q 032328 89 LLP-NCRHSFHAQCIDSWLLKTPICPICRTRVSPSKV 124 (143)
Q Consensus 89 ~l~-~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~ 124 (143)
..| .|++.-|++|...-+.....||-|+.+....+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (1135)
T PLN02248 145 LLPCECGFKICRDCYIDAVKSGGICPGCKEPYKVTDL 181 (1135)
T ss_pred CCcccccchhHHhHhhhhhhcCCCCCCCccccccccc
Confidence 344 478889999999988888899999988855443
No 218
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.12 E-value=5.1 Score=31.59 Aligned_cols=40 Identities=20% Similarity=0.456 Sum_probs=28.2
Q ss_pred CCCccccccccccCCCeeeE----cCCCCCcccHHhHHHHHhCC
Q 032328 70 SPVDCVVCLENFRMGDKCRL----LPNCRHSFHAQCIDSWLLKT 109 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~----l~~C~H~FH~~Ci~~wl~~~ 109 (143)
+...|+.|....+.+..... .+.|+|.||+.|+..|-...
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 34459999998877653221 11399999999999987663
No 219
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=48.91 E-value=7.3 Score=30.92 Aligned_cols=53 Identities=19% Similarity=0.476 Sum_probs=34.6
Q ss_pred CCccccccccc-cCCCeeeEcCCCCCcccHHhHHHHHhC----C----CCCccccCccCCCC
Q 032328 71 PVDCVVCLENF-RMGDKCRLLPNCRHSFHAQCIDSWLLK----T----PICPICRTRVSPSK 123 (143)
Q Consensus 71 ~~~C~ICl~~~-~~~~~v~~l~~C~H~FH~~Ci~~wl~~----~----~~CP~CR~~i~~~~ 123 (143)
+..|.+|..-. -..+.+.....|+-.||..|....... . ..|-+|++......
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~ 229 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVP 229 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhcc
Confidence 34599998443 334445555568889999998775432 1 23999987766553
No 220
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=48.39 E-value=8.4 Score=19.50 Aligned_cols=12 Identities=42% Similarity=1.016 Sum_probs=8.0
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
.||.|+..+...
T Consensus 1 ~CP~C~~~l~~~ 12 (41)
T PF13453_consen 1 KCPRCGTELEPV 12 (41)
T ss_pred CcCCCCcccceE
Confidence 488887766544
No 221
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=48.17 E-value=8 Score=28.75 Aligned_cols=30 Identities=20% Similarity=0.422 Sum_probs=23.2
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHH
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCID 103 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~ 103 (143)
.|.||+.+..+.+.+.--- |...||.-|+-
T Consensus 316 lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred hhhccCCcccchheecccc-ccCCCCccccc
Confidence 6899999988766655444 88899998974
No 222
>PF15616 TerY-C: TerY-C metal binding domain
Probab=48.04 E-value=8.6 Score=25.16 Aligned_cols=44 Identities=25% Similarity=0.558 Sum_probs=31.7
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
..+.||-|-..+-- .+.. ||++| |+.. ....+||-|-+......
T Consensus 76 g~PgCP~CGn~~~f----a~C~-CGkl~---Ci~g--~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 76 GAPGCPHCGNQYAF----AVCG-CGKLF---CIDG--EGEVTCPWCGNEGSFGA 119 (131)
T ss_pred CCCCCCCCcChhcE----EEec-CCCEE---EeCC--CCCEECCCCCCeeeecc
Confidence 34789999888544 5555 99988 6554 44677999988776553
No 223
>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=48.04 E-value=15 Score=17.20 Aligned_cols=28 Identities=21% Similarity=0.401 Sum_probs=17.0
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHh
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQC 101 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~C 101 (143)
.|.+|-++..... ...-..|+-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4788877655543 333334666777766
No 224
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=47.48 E-value=47 Score=19.62 Aligned_cols=24 Identities=21% Similarity=0.423 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 032328 7 ISLTLLFVGIAALVVIHVCVVGRA 30 (143)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~ 30 (143)
++++++.+++..++++++....++
T Consensus 50 IALl~~~~AfsgLL~lHLvv~~~r 73 (77)
T PF12292_consen 50 IALLFFCFAFSGLLFLHLVVFPWR 73 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555556666666554443
No 225
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=47.37 E-value=10 Score=31.78 Aligned_cols=33 Identities=30% Similarity=0.729 Sum_probs=22.3
Q ss_pred eEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 88 RLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 88 ~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
...|.|.-+||.+=.+--..++..||.||..-.
T Consensus 1045 t~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1045 TMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 334456777777655555556688999998654
No 226
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=46.44 E-value=18 Score=27.35 Aligned_cols=44 Identities=5% Similarity=-0.107 Sum_probs=32.1
Q ss_pred CCccccccccccCCCeeeEcCCCCC-cccHHhHHHHHhCCCCCccccCccC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRH-SFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H-~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
..+|..|-+..... ...+ |+| +|+-+|-. +.....||.|.....
T Consensus 343 ~~~~~~~~~~~~st---~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 343 SLKGTSAGFGLLST---IWSG-GNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred hcccccccCceeee---Eeec-CCcccChhhhhh--cccCCccccccccce
Confidence 34788887775553 4445 999 99999987 566788999976543
No 227
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=46.26 E-value=18 Score=22.37 Aligned_cols=32 Identities=25% Similarity=0.695 Sum_probs=21.8
Q ss_pred CCCccccccccccCCCeeeEcC--CCCCcccHHhHHH
Q 032328 70 SPVDCVVCLENFRMGDKCRLLP--NCRHSFHAQCIDS 104 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~--~C~H~FH~~Ci~~ 104 (143)
....|.||... .|. ..... .|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~-~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGA-CIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--Cce-eEEcCCCCCCcCCCHHHHHH
Confidence 45689999998 221 12222 4888999999865
No 228
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.97 E-value=16 Score=32.03 Aligned_cols=49 Identities=18% Similarity=0.314 Sum_probs=33.2
Q ss_pred CCCCccccccccccCCCeeeEcCCCC-----CcccHHhHHHHHhCCCCCccccCccCCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCR-----HSFHAQCIDSWLLKTPICPICRTRVSPSK 123 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~ 123 (143)
.....|+-|-..... ...|.|| ..||.+|-.+ .....||.|-.++....
T Consensus 624 Vg~RfCpsCG~~t~~----frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 624 IGRRKCPSCGKETFY----RRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPTPYS 677 (1121)
T ss_pred ccCccCCCCCCcCCc----ccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCCccc
Confidence 345679999888533 5666787 3688888433 44466999988877553
No 229
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=45.94 E-value=9.2 Score=21.40 Aligned_cols=13 Identities=23% Similarity=0.756 Sum_probs=10.0
Q ss_pred CCCccccCccCCC
Q 032328 110 PICPICRTRVSPS 122 (143)
Q Consensus 110 ~~CP~CR~~i~~~ 122 (143)
-.||+||.++.-.
T Consensus 9 LaCP~~kg~L~~~ 21 (60)
T COG2835 9 LACPVCKGPLVYD 21 (60)
T ss_pred eeccCcCCcceEe
Confidence 4599999997644
No 230
>PF15050 SCIMP: SCIMP protein
Probab=45.85 E-value=25 Score=22.61 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=20.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032328 1 MVMEILISLTLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 1 ~~~~il~~~~~~~~~~~~~~~~~~~~~~ 28 (143)
+|+++.+.++.+.+|++++..+...++.
T Consensus 10 iiLAVaII~vS~~lglIlyCvcR~~lRq 37 (133)
T PF15050_consen 10 IILAVAIILVSVVLGLILYCVCRWQLRQ 37 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3677788888888888887766655543
No 231
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=45.61 E-value=47 Score=21.51 Aligned_cols=21 Identities=24% Similarity=0.295 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVI 22 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~ 22 (143)
+++++++++++.++.++++-.
T Consensus 5 LiEllivlaIigil~~i~~p~ 25 (134)
T TIGR01710 5 LLEIMVVLVILGLLAALVAPK 25 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467777776665555544433
No 232
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=45.53 E-value=8.1 Score=35.04 Aligned_cols=50 Identities=26% Similarity=0.511 Sum_probs=37.4
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCC----CCccccCccC
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTP----ICPICRTRVS 120 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~----~CP~CR~~i~ 120 (143)
....|.+|....++.+.+.-. .|.-.||..|+++-+...+ .||-||..-.
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 456799999997775444433 4788999999999876533 4999988773
No 233
>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=45.44 E-value=38 Score=23.68 Aligned_cols=19 Identities=32% Similarity=0.508 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032328 4 EILISLTLLFVGIAALVVI 22 (143)
Q Consensus 4 ~il~~~~~~~~~~~~~~~~ 22 (143)
.|+++++.+++|+++..++
T Consensus 2 ~ii~~i~~~~vG~~~G~~~ 20 (201)
T PF12072_consen 2 IIIIAIVALIVGIGIGYLV 20 (201)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4555555555555554444
No 234
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=44.51 E-value=12 Score=17.09 Aligned_cols=12 Identities=33% Similarity=0.841 Sum_probs=8.6
Q ss_pred CCCccccCccCC
Q 032328 110 PICPICRTRVSP 121 (143)
Q Consensus 110 ~~CP~CR~~i~~ 121 (143)
..||+|.+.+..
T Consensus 2 v~CPiC~~~v~~ 13 (26)
T smart00734 2 VQCPVCFREVPE 13 (26)
T ss_pred CcCCCCcCcccH
Confidence 359999877743
No 235
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=44.50 E-value=36 Score=23.41 Aligned_cols=17 Identities=18% Similarity=0.317 Sum_probs=13.2
Q ss_pred HhCCCCCccccCccCCC
Q 032328 106 LLKTPICPICRTRVSPS 122 (143)
Q Consensus 106 l~~~~~CP~CR~~i~~~ 122 (143)
+.....||.|-..+...
T Consensus 133 ~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEY 149 (178)
T ss_pred hhcCCcCCCCCCCCeec
Confidence 34578899998888765
No 236
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=44.41 E-value=21 Score=22.76 Aligned_cols=29 Identities=7% Similarity=-0.053 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 032328 3 MEILISLTLLFVGIAALVVIHVCVVGRAF 31 (143)
Q Consensus 3 ~~il~~~~~~~~~~~~~~~~~~~~~~~~~ 31 (143)
+.++-+|..-.++..+++++.++|.++..
T Consensus 54 lg~ysawgagsfiatliillviffviy~r 82 (150)
T PF06084_consen 54 LGIYSAWGAGSFIATLIILLVIFFVIYSR 82 (150)
T ss_pred hhhhhhcccchHHHHHHHHHHHhheeEec
Confidence 44555565555555555555555555443
No 237
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=44.39 E-value=19 Score=18.50 Aligned_cols=20 Identities=25% Similarity=0.660 Sum_probs=13.7
Q ss_pred HHHHhCCCCCccccCccCCC
Q 032328 103 DSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 103 ~~wl~~~~~CP~CR~~i~~~ 122 (143)
.-|-.-...||.|..++...
T Consensus 11 ~G~~ML~~~Cp~C~~PL~~~ 30 (41)
T PF06677_consen 11 QGWTMLDEHCPDCGTPLMRD 30 (41)
T ss_pred HhHhHhcCccCCCCCeeEEe
Confidence 34555567799997777663
No 238
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=44.31 E-value=30 Score=21.29 Aligned_cols=36 Identities=25% Similarity=0.402 Sum_probs=28.5
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK 108 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~ 108 (143)
.-.|.||-+.+.+|+.....+ .-.-|++|+..=...
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 457999999999999888876 445689999875543
No 239
>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=44.15 E-value=32 Score=23.11 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=12.8
Q ss_pred hCCCCCccccCccCCCC
Q 032328 107 LKTPICPICRTRVSPSK 123 (143)
Q Consensus 107 ~~~~~CP~CR~~i~~~~ 123 (143)
.....||.|-..+...+
T Consensus 126 ~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 126 ELNFTCPRCGAMLDYLD 142 (158)
T ss_pred HcCCcCCCCCCEeeecc
Confidence 45788999988876553
No 240
>PF15128 T_cell_tran_alt: T-cell leukemia translocation-altered
Probab=43.97 E-value=71 Score=19.22 Aligned_cols=21 Identities=29% Similarity=0.368 Sum_probs=13.5
Q ss_pred CCCCCCChHHhhcCCeeeecc
Q 032328 43 GGFKMISSDDLKQIPCFEYKA 63 (143)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~ 63 (143)
.+.++.+++....+|......
T Consensus 63 ggqNggTPd~~~~~~~We~~~ 83 (92)
T PF15128_consen 63 GGQNGGTPDTSSHFPGWESAA 83 (92)
T ss_pred CccCCCCCCCcccCCcccccc
Confidence 346666777777777666544
No 241
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=43.90 E-value=22 Score=25.64 Aligned_cols=27 Identities=22% Similarity=0.650 Sum_probs=18.6
Q ss_pred cHHhHHHHHhCCCCCccccCccCCCCc
Q 032328 98 HAQCIDSWLLKTPICPICRTRVSPSKV 124 (143)
Q Consensus 98 H~~Ci~~wl~~~~~CP~CR~~i~~~~~ 124 (143)
|..|-.+--...+.||+|+..--+.+.
T Consensus 252 ClsChqqIHRNAPiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHhcCCCCCcchhhccccCCC
Confidence 455666665667889999877665543
No 242
>PF15353 HECA: Headcase protein family homologue
Probab=43.87 E-value=16 Score=22.89 Aligned_cols=14 Identities=21% Similarity=0.783 Sum_probs=12.4
Q ss_pred CCCcccHHhHHHHH
Q 032328 93 CRHSFHAQCIDSWL 106 (143)
Q Consensus 93 C~H~FH~~Ci~~wl 106 (143)
.++..|.+|.+.|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 47899999999995
No 243
>PRK10220 hypothetical protein; Provisional
Probab=43.63 E-value=23 Score=22.41 Aligned_cols=24 Identities=21% Similarity=0.640 Sum_probs=15.5
Q ss_pred CccccccccccC-CCeeeEcCCCCC
Q 032328 72 VDCVVCLENFRM-GDKCRLLPNCRH 95 (143)
Q Consensus 72 ~~C~ICl~~~~~-~~~v~~l~~C~H 95 (143)
+.|+-|-.+|.- .....+.|.|+|
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~h 28 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAH 28 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccC
Confidence 568888888753 233455666777
No 244
>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=43.37 E-value=9.2 Score=17.79 Aligned_cols=12 Identities=25% Similarity=1.010 Sum_probs=5.8
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
.||.|-..+...
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 488888877744
No 245
>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=43.05 E-value=6.4 Score=20.92 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=13.7
Q ss_pred CCCCCcccHHhHHHHHh----CCCCCccccC
Q 032328 91 PNCRHSFHAQCIDSWLL----KTPICPICRT 117 (143)
Q Consensus 91 ~~C~H~FH~~Ci~~wl~----~~~~CP~CR~ 117 (143)
++|||.|- .|.. ....||.|..
T Consensus 9 ~~Cg~~fe-----~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFE-----VLQKMSDDPLATCPECGG 34 (52)
T ss_pred CCCCCEeE-----EEEecCCCCCCCCCCCCC
Confidence 35888774 2321 2346999987
No 246
>PRK01343 zinc-binding protein; Provisional
Probab=42.99 E-value=16 Score=20.20 Aligned_cols=12 Identities=33% Similarity=0.711 Sum_probs=8.1
Q ss_pred CCCCccccCccC
Q 032328 109 TPICPICRTRVS 120 (143)
Q Consensus 109 ~~~CP~CR~~i~ 120 (143)
...||.|+++..
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 355888877754
No 247
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=42.87 E-value=13 Score=26.91 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=30.7
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCC--CCCc
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKT--PICP 113 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~--~~CP 113 (143)
-+..|+|-+.++..+ ..-.+|+|.|-.+-|...++.- ..||
T Consensus 188 ~~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 188 LSNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred hcccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecc
Confidence 355799999986653 3333799999999999988854 3476
No 248
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=42.74 E-value=23 Score=28.01 Aligned_cols=57 Identities=19% Similarity=0.246 Sum_probs=43.4
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCCCcceeecCCC
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPSKVGVILKDGS 132 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~~ 132 (143)
.|+|--+- ++...+-|.-||+|-+.-|.+++....++|+=..++..+++..+...+.
T Consensus 2 ~CaISgEv---P~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~Ik~~~~ 58 (506)
T KOG0289|consen 2 VCAISGEV---PEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVEIKVPAQ 58 (506)
T ss_pred eecccCCC---CCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeeecccccc
Confidence 36666555 3333555668999999999999999999999999999887766655443
No 249
>PRK11677 hypothetical protein; Provisional
Probab=42.42 E-value=38 Score=22.26 Aligned_cols=20 Identities=35% Similarity=0.232 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032328 3 MEILISLTLLFVGIAALVVI 22 (143)
Q Consensus 3 ~~il~~~~~~~~~~~~~~~~ 22 (143)
|.++++++.+++|+++-+++
T Consensus 1 M~W~~a~i~livG~iiG~~~ 20 (134)
T PRK11677 1 MTWEYALIGLVVGIIIGAVA 20 (134)
T ss_pred CcHHHHHHHHHHHHHHHHHH
Confidence 34555555555555554433
No 250
>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=41.94 E-value=9.3 Score=20.71 Aligned_cols=11 Identities=36% Similarity=1.038 Sum_probs=4.6
Q ss_pred CCccccCccCC
Q 032328 111 ICPICRTRVSP 121 (143)
Q Consensus 111 ~CP~CR~~i~~ 121 (143)
+||.|...+..
T Consensus 26 tCP~C~a~~~~ 36 (54)
T PF09237_consen 26 TCPICGAVIRQ 36 (54)
T ss_dssp E-TTT--EESS
T ss_pred CCCcchhhccc
Confidence 37777665543
No 251
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=41.67 E-value=20 Score=23.65 Aligned_cols=22 Identities=18% Similarity=0.602 Sum_probs=15.9
Q ss_pred cCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 90 LPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 90 l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
.++|||.|+ =.+..||.|.++.
T Consensus 32 C~~CG~v~~--------PPr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYF--------PPRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEc--------CCcccCCCCCCCC
Confidence 346898774 3466799998885
No 252
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=41.16 E-value=89 Score=19.48 Aligned_cols=35 Identities=14% Similarity=0.319 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH-HHHhhhhccCcccCC
Q 032328 5 ILISLTLLFVGIAALVVIHV-CVVGRAFRRGYEQSG 39 (143)
Q Consensus 5 il~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 39 (143)
+|.++++..+++++++++.+ |-.+++.+..++..+
T Consensus 19 ~LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H~r 54 (102)
T PF15176_consen 19 FLVGVVVTALVTSLLIALAAKCPVWYKYLASYRHHR 54 (102)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccccc
Confidence 34555555555555444433 445565555555443
No 253
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=40.97 E-value=1e+02 Score=20.12 Aligned_cols=16 Identities=6% Similarity=0.090 Sum_probs=7.1
Q ss_pred CChHHhhcCCeeeecc
Q 032328 48 ISSDDLKQIPCFEYKA 63 (143)
Q Consensus 48 ~~~~~~~~~~~~~~~~ 63 (143)
...+....+.+..+.-
T Consensus 54 F~~D~eaGLsSs~FDl 69 (128)
T PF09435_consen 54 FEDDIEAGLSSSNFDL 69 (128)
T ss_pred HHHHHHccccccccCh
Confidence 3444444554444433
No 254
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=40.49 E-value=21 Score=21.13 Aligned_cols=34 Identities=26% Similarity=0.663 Sum_probs=22.0
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHH
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDS 104 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~ 104 (143)
....|.+|-...-..-... .+.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 4568999997722211112 225899999999855
No 255
>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=40.12 E-value=13 Score=17.73 Aligned_cols=23 Identities=22% Similarity=0.668 Sum_probs=7.9
Q ss_pred cccccccccc-CCCeeeEcCCCCC
Q 032328 73 DCVVCLENFR-MGDKCRLLPNCRH 95 (143)
Q Consensus 73 ~C~ICl~~~~-~~~~v~~l~~C~H 95 (143)
.|+-|-.++. .+..+.+.|.|+|
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGH 27 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTE
T ss_pred CCCCCCCcceeccCCEEeCCcccc
Confidence 4677776654 2233444455666
No 256
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.89 E-value=17 Score=23.76 Aligned_cols=24 Identities=21% Similarity=0.398 Sum_probs=15.2
Q ss_pred CccccccccccCCCeeeEcCCCCCcccH
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHA 99 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~ 99 (143)
+.=-||.+. ...+.... |||.|+.
T Consensus 58 ~hlfi~qs~---~~rv~rce-cghsf~d 81 (165)
T COG4647 58 DHLFICQSA---QKRVIRCE-CGHSFGD 81 (165)
T ss_pred CcEEEEecc---cccEEEEe-ccccccC
Confidence 344566665 34456665 9999974
No 257
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=39.58 E-value=55 Score=20.65 Aligned_cols=27 Identities=15% Similarity=0.183 Sum_probs=16.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032328 2 VMEILISLTLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~~~~ 28 (143)
+++++++++++.+..++++.-+.-...
T Consensus 12 LiElLVvl~Iigil~~~~~p~~~~~~~ 38 (149)
T COG2165 12 LIELLVVLAIIGILAALALPSLQGSID 38 (149)
T ss_pred hHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 467777777766666665555544433
No 258
>PHA03255 BDLF3; Provisional
Probab=39.22 E-value=39 Score=23.22 Aligned_cols=22 Identities=36% Similarity=0.606 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 032328 8 SLTLLFVGIAALVVIHVCVVGR 29 (143)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~ 29 (143)
.|.++|+|+.++++++++-...
T Consensus 184 lwtlvfvgltflmlilifaagi 205 (234)
T PHA03255 184 LWTLVFVGLTFLMLILIFAAGL 205 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHhhH
Confidence 4778888888888888776543
No 259
>PHA03286 envelope glycoprotein E; Provisional
Probab=38.76 E-value=70 Score=25.56 Aligned_cols=11 Identities=36% Similarity=0.833 Sum_probs=5.7
Q ss_pred HHHhCCCCCcccc
Q 032328 104 SWLLKTPICPICR 116 (143)
Q Consensus 104 ~wl~~~~~CP~CR 116 (143)
.||... ||.=|
T Consensus 476 ~~~~~~--~p~~~ 486 (492)
T PHA03286 476 AWLADG--GPAAR 486 (492)
T ss_pred hhhhcC--Cchhh
Confidence 566543 66443
No 260
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=38.60 E-value=7.7 Score=28.85 Aligned_cols=40 Identities=23% Similarity=0.585 Sum_probs=29.0
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
+..|+-|.+-+...+.|+.- -.|+||.+|.. |-+|++.+.
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~ 131 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLA 131 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccc
Confidence 55799999888877777664 47999999974 555555554
No 261
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=38.52 E-value=44 Score=27.38 Aligned_cols=18 Identities=6% Similarity=0.213 Sum_probs=8.2
Q ss_pred ChHHHHHHHHHHHHHHHH
Q 032328 1 MVMEILISLTLLFVGIAA 18 (143)
Q Consensus 1 ~~~~il~~~~~~~~~~~~ 18 (143)
|+|.++++++++++++.+
T Consensus 1 ~~~~~ii~i~ii~i~~~~ 18 (569)
T PRK04778 1 GMIYLIIAIVVIIIIAYL 18 (569)
T ss_pred ChhhHHHHHHHHHHHHHH
Confidence 345555554444444333
No 262
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=38.33 E-value=86 Score=24.60 Aligned_cols=14 Identities=21% Similarity=0.325 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHH
Q 032328 5 ILISLTLLFVGIAA 18 (143)
Q Consensus 5 il~~~~~~~~~~~~ 18 (143)
+++++..+.+++.+
T Consensus 21 ~la~v~~~~l~l~L 34 (406)
T PF04906_consen 21 ILASVAAACLALSL 34 (406)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444443
No 263
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=37.83 E-value=16 Score=19.71 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=9.2
Q ss_pred CCCccccCccCC
Q 032328 110 PICPICRTRVSP 121 (143)
Q Consensus 110 ~~CP~CR~~i~~ 121 (143)
..|++|++++..
T Consensus 2 ~iCvvCK~Pi~~ 13 (53)
T PHA02610 2 KICVVCKQPIEK 13 (53)
T ss_pred ceeeeeCCchhh
Confidence 359999999853
No 264
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=37.65 E-value=30 Score=21.38 Aligned_cols=15 Identities=20% Similarity=0.339 Sum_probs=6.1
Q ss_pred HHHHHHHHHhhhhcc
Q 032328 19 LVVIHVCVVGRAFRR 33 (143)
Q Consensus 19 ~~~~~~~~~~~~~~~ 33 (143)
++.+++++.+|..++
T Consensus 18 ~~~ifyFli~RPQrK 32 (97)
T COG1862 18 IFAIFYFLIIRPQRK 32 (97)
T ss_pred HHHHHHHhhcCHHHH
Confidence 333444444444443
No 265
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=37.30 E-value=18 Score=22.59 Aligned_cols=23 Identities=26% Similarity=0.585 Sum_probs=13.0
Q ss_pred CCCCcccHHhHHHHHhCCCCCccccCc
Q 032328 92 NCRHSFHAQCIDSWLLKTPICPICRTR 118 (143)
Q Consensus 92 ~C~H~FH~~Ci~~wl~~~~~CP~CR~~ 118 (143)
.|||+|-.. -...++ -||.|-..
T Consensus 7 rCG~vf~~g-~~~il~---GCp~CG~n 29 (112)
T COG3364 7 RCGEVFDDG-SEEILS---GCPKCGCN 29 (112)
T ss_pred ccccccccc-cHHHHc---cCccccch
Confidence 388888665 222222 28877544
No 266
>PRK10332 hypothetical protein; Provisional
Probab=37.22 E-value=69 Score=20.19 Aligned_cols=25 Identities=20% Similarity=0.353 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVCV 26 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~~ 26 (143)
++++++++.++.+++..+..++-.+
T Consensus 13 L~EvlvAm~i~~i~~~al~~~~p~L 37 (107)
T PRK10332 13 LPEVLLAMVLMVMIVTALSGYQRTL 37 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888877666655554443
No 267
>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=37.02 E-value=25 Score=22.32 Aligned_cols=46 Identities=24% Similarity=0.622 Sum_probs=27.5
Q ss_pred CCCccccccccccC--CCeeeEcCCCCCcccHHhHHHHHhCCC--CCccccC
Q 032328 70 SPVDCVVCLENFRM--GDKCRLLPNCRHSFHAQCIDSWLLKTP--ICPICRT 117 (143)
Q Consensus 70 ~~~~C~ICl~~~~~--~~~v~~l~~C~H~FH~~Ci~~wl~~~~--~CP~CR~ 117 (143)
....|++|..+|.- +.. .....|+|.+|..|-.. ..... .|.+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCC-CcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 56689999988642 223 34445999999998754 11222 2777754
No 268
>PRK12705 hypothetical protein; Provisional
Probab=36.90 E-value=67 Score=26.10 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 3 MEILISLTLLFVGIAALVVIHVCV 26 (143)
Q Consensus 3 ~~il~~~~~~~~~~~~~~~~~~~~ 26 (143)
|+++++++++++++.+..++.+.+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~ 26 (508)
T PRK12705 3 MSILLVILLLLIGLLLGVLVVLLK 26 (508)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666666666665544444443
No 269
>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=36.53 E-value=19 Score=28.88 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=11.2
Q ss_pred CCCccccccccccCCC
Q 032328 70 SPVDCVVCLENFRMGD 85 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~ 85 (143)
+-..|+-||+++...+
T Consensus 25 ~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE 40 (483)
T ss_pred ceeECccccccCChhh
Confidence 4456999998886543
No 270
>PRK00523 hypothetical protein; Provisional
Probab=36.46 E-value=90 Score=18.18 Aligned_cols=12 Identities=33% Similarity=0.528 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 032328 5 ILISLTLLFVGI 16 (143)
Q Consensus 5 il~~~~~~~~~~ 16 (143)
|+++++.+++|+
T Consensus 8 I~l~i~~li~G~ 19 (72)
T PRK00523 8 LGLGIPLLIVGG 19 (72)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 271
>PRK01844 hypothetical protein; Provisional
Probab=36.14 E-value=91 Score=18.16 Aligned_cols=11 Identities=27% Similarity=0.667 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 032328 6 LISLTLLFVGI 16 (143)
Q Consensus 6 l~~~~~~~~~~ 16 (143)
++.++.+++|+
T Consensus 8 ~l~I~~li~G~ 18 (72)
T PRK01844 8 LVGVVALVAGV 18 (72)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 272
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=35.63 E-value=87 Score=19.94 Aligned_cols=25 Identities=20% Similarity=0.404 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 032328 4 EILISLTLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 4 ~il~~~~~~~~~~~~~~~~~~~~~~ 28 (143)
++.++++++++|..+++.-.+.+..
T Consensus 43 ~I~la~~Lli~G~~li~~g~l~~~~ 67 (115)
T PF05915_consen 43 SIALAVFLLIFGTVLIIIGLLLFFG 67 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566666666666655555444433
No 273
>PF09777 OSTMP1: Osteopetrosis-associated transmembrane protein 1 precursor; InterPro: IPR019172 Osteopetrosis-associated transmembrane protein 1 (OSTM1) is required for osteoclast and melanocyte maturation and function. Mutations in OSTM1 give rise to autosomal recessive osteopetrosis, also called autosomal recessive Albers-Schonberg disease [, ].
Probab=35.11 E-value=62 Score=23.39 Aligned_cols=17 Identities=12% Similarity=0.387 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032328 6 LISLTLLFVGIAALVVI 22 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~ 22 (143)
++++.++++.+.+++.+
T Consensus 192 ~i~v~~~vl~lpv~FY~ 208 (237)
T PF09777_consen 192 VIAVSVFVLFLPVLFYL 208 (237)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33343333333333333
No 274
>PF15179 Myc_target_1: Myc target protein 1
Probab=34.47 E-value=1.4e+02 Score=20.78 Aligned_cols=25 Identities=16% Similarity=0.147 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Q 032328 9 LTLLFVGIAALVVIHVCVVGRAFRR 33 (143)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (143)
-+..++|+++..++|+.+.+-..||
T Consensus 26 ~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 26 CVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3455566666666666665555444
No 275
>PF14851 FAM176: FAM176 family
Probab=34.40 E-value=1.1e+02 Score=20.70 Aligned_cols=14 Identities=7% Similarity=0.159 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHH
Q 032328 10 TLLFVGIAALVVIH 23 (143)
Q Consensus 10 ~~~~~~~~~~~~~~ 23 (143)
..+++|+.+.++++
T Consensus 28 ~gVC~GLlLtLcll 41 (153)
T PF14851_consen 28 SGVCAGLLLTLCLL 41 (153)
T ss_pred HHHHHHHHHHHHHH
Confidence 33344444433333
No 276
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=34.06 E-value=26 Score=28.71 Aligned_cols=35 Identities=26% Similarity=0.605 Sum_probs=23.5
Q ss_pred CCCCccccccccccC-----C------CeeeEcCCCCCcccHHhHHHH
Q 032328 69 SSPVDCVVCLENFRM-----G------DKCRLLPNCRHSFHAQCIDSW 105 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~-----~------~~v~~l~~C~H~FH~~Ci~~w 105 (143)
.....|+||-|.|+. . +.|... =|-+||..|+..-
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 345679999999853 1 122221 3889999998763
No 277
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=34.01 E-value=42 Score=23.97 Aligned_cols=22 Identities=9% Similarity=0.265 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032328 6 LISLTLLFVGIAALVVIHVCVV 27 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~~~~~~ 27 (143)
++.+++.+++++++++.+..|+
T Consensus 15 iLNiaI~IV~lLIiiva~~lf~ 36 (217)
T PF07423_consen 15 ILNIAIGIVSLLIIIVAYQLFF 36 (217)
T ss_pred hHHHHHHHHHHHHHHHhhhhee
Confidence 4444444444444444443333
No 278
>PHA02657 hypothetical protein; Provisional
Probab=33.94 E-value=97 Score=18.68 Aligned_cols=10 Identities=10% Similarity=0.225 Sum_probs=4.4
Q ss_pred hcCCeeeecc
Q 032328 54 KQIPCFEYKA 63 (143)
Q Consensus 54 ~~~~~~~~~~ 63 (143)
.++...-|.+
T Consensus 76 ~qLD~VYYTd 85 (95)
T PHA02657 76 TRLDGVYYTD 85 (95)
T ss_pred HhhcceEEcC
Confidence 3444444444
No 279
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=33.92 E-value=51 Score=17.62 Aligned_cols=39 Identities=23% Similarity=0.564 Sum_probs=19.8
Q ss_pred ccccccccccCC--CeeeEcCCCCCcccHHhHHHHHhCCCCCccccCc
Q 032328 73 DCVVCLENFRMG--DKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTR 118 (143)
Q Consensus 73 ~C~ICl~~~~~~--~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~ 118 (143)
.|.+|.-.|.+. +.-.-.+ =|..| .. |-..-.||+|...
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~-pGt~f-----~~-Lp~~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIP-PGTPF-----ED-LPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcC-CCCCH-----hH-CCCCCCCCCCCCc
Confidence 577887776642 2212222 34432 11 2334579999653
No 280
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=33.72 E-value=1e+02 Score=20.67 Aligned_cols=19 Identities=11% Similarity=0.141 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032328 9 LTLLFVGIAALVVIHVCVV 27 (143)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~ 27 (143)
+++-++++++++++.+.++
T Consensus 84 ~imPlYtiGI~~f~lY~l~ 102 (152)
T PF15361_consen 84 QIMPLYTIGIVLFILYTLF 102 (152)
T ss_pred hHhHHHHHHHHHHHHHHHH
Confidence 4455566655555444433
No 281
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=33.62 E-value=22 Score=20.10 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=9.1
Q ss_pred CCCccccCccC
Q 032328 110 PICPICRTRVS 120 (143)
Q Consensus 110 ~~CP~CR~~i~ 120 (143)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 56999999875
No 282
>TIGR01707 gspI general secretion pathway protein I. Both GspI and GspJ are proteins of the type II secretion pathway, or main terminal branch of the general secretion pathway. This pathway carries proteins across the outer membrane. Note that proteins of type II secretion are cryptic in E. coli K-12 - present but not yet demonstrated to act on any target.
Probab=33.54 E-value=84 Score=19.38 Aligned_cols=22 Identities=23% Similarity=0.454 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIH 23 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~ 23 (143)
++++++++.++.++..+++-..
T Consensus 4 LiEvlvAlaI~ai~~~~~~~~~ 25 (101)
T TIGR01707 4 LLEVLVALAIFAAAALALISSV 25 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888777777766655544
No 283
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=33.50 E-value=18 Score=29.95 Aligned_cols=49 Identities=22% Similarity=0.521 Sum_probs=30.0
Q ss_pred CCccccccccccCCC--eeeEcCCCCCcccHHhHHHHHhCC-----CCCccccCccC
Q 032328 71 PVDCVVCLENFRMGD--KCRLLPNCRHSFHAQCIDSWLLKT-----PICPICRTRVS 120 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~--~v~~l~~C~H~FH~~Ci~~wl~~~-----~~CP~CR~~i~ 120 (143)
..-|++|-..=.... .+..- .|+-.+|..|+..|+... -.||-||.-..
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~ 73 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACS-DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA 73 (694)
T ss_pred hhhhhhhccccccccCcchhhh-hhcccCCcchhhHHHhHHHhcCCcccCCceeeee
Confidence 345666654422222 22222 489999999999998653 34888875443
No 284
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=33.40 E-value=42 Score=20.93 Aligned_cols=32 Identities=16% Similarity=0.398 Sum_probs=25.8
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHH
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWL 106 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl 106 (143)
.|.||-.++..|+..-.+. +=.-|+.|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHH
Confidence 5999999999988877775 3567899997744
No 285
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=33.25 E-value=1e+02 Score=20.10 Aligned_cols=6 Identities=33% Similarity=0.722 Sum_probs=2.2
Q ss_pred HHHHHH
Q 032328 13 FVGIAA 18 (143)
Q Consensus 13 ~~~~~~ 18 (143)
++++.+
T Consensus 53 fFgff~ 58 (129)
T PF02060_consen 53 FFGFFT 58 (129)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 333333
No 286
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=33.19 E-value=51 Score=22.14 Aligned_cols=19 Identities=26% Similarity=0.712 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 032328 10 TLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~ 28 (143)
+.+.+|+.+++++.+|-++
T Consensus 10 v~i~igi~Ll~lLl~cgiG 28 (158)
T PF11770_consen 10 VAISIGISLLLLLLLCGIG 28 (158)
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 3445555555555555544
No 287
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=33.08 E-value=82 Score=16.74 Aligned_cols=6 Identities=67% Similarity=1.016 Sum_probs=2.5
Q ss_pred hhhhcc
Q 032328 28 GRAFRR 33 (143)
Q Consensus 28 ~~~~~~ 33 (143)
.+.+|+
T Consensus 26 crafrq 31 (54)
T PF13260_consen 26 CRAFRQ 31 (54)
T ss_pred HHHHhh
Confidence 344444
No 288
>PF07234 DUF1426: Protein of unknown function (DUF1426); InterPro: IPR009871 This family consists of several Banana bunchy top virus proteins of around 120 residues in length. Q9IGU4 from SWISSPROT is annotated a movement protein whereas most other family members are hypothetical. The function of this family is unknown.
Probab=32.30 E-value=1.3e+02 Score=18.71 Aligned_cols=14 Identities=21% Similarity=0.513 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q 032328 4 EILISLTLLFVGIA 17 (143)
Q Consensus 4 ~il~~~~~~~~~~~ 17 (143)
+.++.+..+|+.+.
T Consensus 13 EwFLF~~AIFiAIt 26 (117)
T PF07234_consen 13 EWFLFFGAIFIAIT 26 (117)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444433443333
No 289
>TIGR02598 Verrucomicrobium spinosum paralogous family TIGR02598. This family consists of a paralogous family of proteins in the bacterium Verrucomicrobium spinosum. All members contain the prepilin-type N-terminal cleavage/methylation domain (TIGR02532) at the N-terminus. The mature protein would be about 150 amino acids long.
Probab=32.21 E-value=82 Score=21.17 Aligned_cols=24 Identities=8% Similarity=0.239 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
++++++++.++.+++..++.+.-.
T Consensus 4 LvEV~vALgI~A~A~laLl~llp~ 27 (151)
T TIGR02598 4 LVEVVLAVGIAATVLLTLIGLLPT 27 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHH
Confidence 567888888777777666655433
No 290
>PF15378 DUF4605: Domain of unknown function (DUF4605)
Probab=32.20 E-value=98 Score=17.34 Aligned_cols=23 Identities=30% Similarity=0.610 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 032328 3 MEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 3 ~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
+.+++.+.+.++|+..+++....
T Consensus 29 ~~~~~~~lL~flG~~glllv~~l 51 (60)
T PF15378_consen 29 MSIFFLVLLWFLGIRGLLLVGLL 51 (60)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHH
Confidence 45566666666666554444333
No 291
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=31.68 E-value=16 Score=25.91 Aligned_cols=28 Identities=25% Similarity=0.519 Sum_probs=16.9
Q ss_pred CCCcccHHhHHHHHhC---CCCCccccCccC
Q 032328 93 CRHSFHAQCIDSWLLK---TPICPICRTRVS 120 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~~---~~~CP~CR~~i~ 120 (143)
|.|+||..=+...-.. ...||.|..-..
T Consensus 195 C~~C~hhngl~~~~ek~~~efiC~~Cn~~n~ 225 (251)
T COG5415 195 CPQCHHHNGLYRLAEKPIIEFICPHCNHKND 225 (251)
T ss_pred cccccccccccccccccchheecccchhhcC
Confidence 8888877533232222 356999977653
No 292
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=31.17 E-value=1.2e+02 Score=19.97 Aligned_cols=24 Identities=13% Similarity=0.292 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
+|.+++.++++.+++.++..++.+
T Consensus 6 Fm~fI~~W~~vli~l~~IGGfFMF 29 (141)
T PF11084_consen 6 FMWFILFWVVVLIGLMAIGGFFMF 29 (141)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHH
Confidence 455666666666666665555544
No 293
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=30.75 E-value=21 Score=19.75 Aligned_cols=9 Identities=56% Similarity=1.346 Sum_probs=2.8
Q ss_pred CccccCccC
Q 032328 112 CPICRTRVS 120 (143)
Q Consensus 112 CP~CR~~i~ 120 (143)
||.|++.+.
T Consensus 5 CP~C~k~~~ 13 (57)
T PF03884_consen 5 CPICGKPVE 13 (57)
T ss_dssp -TTT--EEE
T ss_pred CCCCCCeec
Confidence 444444443
No 294
>PF05083 LST1: LST-1 protein; InterPro: IPR007775 B144/LST1 is a gene encoded in the human major histocompatibility complex that produces multiple forms of alternatively spliced mRNA and encodes peptides fewer than 100 amino acids in length. B144/LST1 is strongly expressed in dendritic cells. Transfection of B144/LST1 into a variety of cells induces morphologic changes including the production of long, thin filopodia []. A possible role in modulating immune responses. Induces morphological changes including production of filopodia and microspikes when overexpressed in a variety of cell types and may be involved in dendritic cell maturation. Isoform 1 and isoform 2 have an inhibitory effect on lymphocyte proliferation [, ]. ; GO: 0000902 cell morphogenesis, 0006955 immune response, 0016020 membrane
Probab=30.64 E-value=1e+02 Score=17.88 Aligned_cols=16 Identities=13% Similarity=0.216 Sum_probs=8.6
Q ss_pred CCCCChHHhhcCCeee
Q 032328 45 FKMISSDDLKQIPCFE 60 (143)
Q Consensus 45 ~~~~~~~~~~~~~~~~ 60 (143)
.....-..++++|...
T Consensus 36 eQE~hyasLqrLPv~~ 51 (74)
T PF05083_consen 36 EQELHYASLQRLPVPS 51 (74)
T ss_pred ccchHHHHHHhCCCCC
Confidence 3344455666676543
No 295
>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=30.19 E-value=57 Score=22.70 Aligned_cols=15 Identities=27% Similarity=0.541 Sum_probs=8.6
Q ss_pred HHhHHHHH--hCCCCCc
Q 032328 99 AQCIDSWL--LKTPICP 113 (143)
Q Consensus 99 ~~Ci~~wl--~~~~~CP 113 (143)
.+-+..|| .++..+|
T Consensus 126 G~~~R~~L~~Lr~~~~p 142 (186)
T PF07406_consen 126 GENFRSYLLDLRNSSTP 142 (186)
T ss_pred cccHHHHHHHHHhccCC
Confidence 34667888 4444454
No 296
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=30.16 E-value=29 Score=24.35 Aligned_cols=24 Identities=29% Similarity=0.398 Sum_probs=15.1
Q ss_pred HHhHHHHHh-CCCCCccccCccCCC
Q 032328 99 AQCIDSWLL-KTPICPICRTRVSPS 122 (143)
Q Consensus 99 ~~Ci~~wl~-~~~~CP~CR~~i~~~ 122 (143)
+.||++--. ...-||+||.+-.--
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL~~ 121 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYLYF 121 (239)
T ss_pred hHHHhhcCeecCCCCCccccceEEE
Confidence 348877433 134599999876533
No 297
>PRK02935 hypothetical protein; Provisional
Probab=30.06 E-value=1.2e+02 Score=19.10 Aligned_cols=19 Identities=16% Similarity=0.338 Sum_probs=13.8
Q ss_pred HHHhCCCCCccccCccCCC
Q 032328 104 SWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 104 ~wl~~~~~CP~CR~~i~~~ 122 (143)
+.+.+-..|..|+.+++.+
T Consensus 81 KmLGrvD~CM~C~~PLTLd 99 (110)
T PRK02935 81 KMLGRVDACMHCNQPLTLD 99 (110)
T ss_pred hhccceeecCcCCCcCCcC
Confidence 4455556699999888876
No 298
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=29.94 E-value=1.4e+02 Score=21.73 Aligned_cols=12 Identities=17% Similarity=0.617 Sum_probs=7.7
Q ss_pred HHHHHhCCCCCc
Q 032328 102 IDSWLLKTPICP 113 (143)
Q Consensus 102 i~~wl~~~~~CP 113 (143)
.+.|++..+.=|
T Consensus 216 f~~W~~~~~~~~ 227 (247)
T COG1622 216 FDAWVAEVKAAA 227 (247)
T ss_pred HHHHHHhhhhcc
Confidence 778887654444
No 299
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.87 E-value=31 Score=22.45 Aligned_cols=24 Identities=25% Similarity=0.754 Sum_probs=16.4
Q ss_pred cccHHhHHHHHhCCCCCccccCccCCC
Q 032328 96 SFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 96 ~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.||++|-..=+ .+||.|..++--.
T Consensus 29 afcskcgeati---~qcp~csasirgd 52 (160)
T COG4306 29 AFCSKCGEATI---TQCPICSASIRGD 52 (160)
T ss_pred HHHhhhchHHH---hcCCccCCccccc
Confidence 57777776543 3499998877643
No 300
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.76 E-value=1e+02 Score=20.21 Aligned_cols=20 Identities=30% Similarity=0.220 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVV 21 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~ 21 (143)
+|....+.+.+++|+++-++
T Consensus 5 ~~~W~~a~igLvvGi~IG~l 24 (138)
T COG3105 5 FMTWEYALIGLVVGIIIGAL 24 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666555433
No 301
>PF07214 DUF1418: Protein of unknown function (DUF1418); InterPro: IPR010815 This family consists of several hypothetical Enterobacterial proteins of around 100 residues in length. Members of this family are often described as YbjC. In Escherichia coli the ybjC gene is located downstream of nfsA (which encodes the major oxygen-insensitive nitroreductase). It is thought that nfsA and ybjC form an operon an its promoter is a class I SoxS-dependent promoter []. The function of this family is unknown.
Probab=29.38 E-value=1.4e+02 Score=18.39 Aligned_cols=26 Identities=27% Similarity=0.515 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 032328 7 ISLTLLFVGIAALVVIHVCVVGRAFR 32 (143)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (143)
.+++.+|+|+...+-..+++.+|.-+
T Consensus 44 aai~MIf~Gi~lMlPAav~ivWR~a~ 69 (96)
T PF07214_consen 44 AAIAMIFVGIGLMLPAAVNIVWRVAK 69 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666655555555554433
No 302
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=29.32 E-value=27 Score=24.15 Aligned_cols=16 Identities=31% Similarity=0.812 Sum_probs=12.0
Q ss_pred CCCccccCccCCCCcc
Q 032328 110 PICPICRTRVSPSKVG 125 (143)
Q Consensus 110 ~~CP~CR~~i~~~~~~ 125 (143)
..||+|++.+..++.+
T Consensus 170 ~~c~~~~~~~~~~~~~ 185 (187)
T TIGR01367 170 HECPLCLAGIPAEKPG 185 (187)
T ss_pred ccCChhhcCCCCcCCC
Confidence 3499999988876543
No 303
>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=29.28 E-value=70 Score=17.83 Aligned_cols=22 Identities=9% Similarity=-0.041 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHhhhhccCc
Q 032328 14 VGIAALVVIHVCVVGRAFRRGY 35 (143)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~ 35 (143)
+.+++++..+++...-.+..+.
T Consensus 16 ISfiIlfgRl~Y~~I~a~~hHq 37 (59)
T PF11119_consen 16 ISFIILFGRLIYSAIGAWVHHQ 37 (59)
T ss_pred HHHHHHHHHHHHHHHhHHHHHH
Confidence 3333333333333333344333
No 304
>PF14768 RPA_interact_C: Replication protein A interacting C-terminal
Probab=29.24 E-value=40 Score=19.96 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=5.5
Q ss_pred CccccCccCCC
Q 032328 112 CPICRTRVSPS 122 (143)
Q Consensus 112 CP~CR~~i~~~ 122 (143)
||+|++.-...
T Consensus 2 CPVC~~~~L~~ 12 (82)
T PF14768_consen 2 CPVCQKGNLRE 12 (82)
T ss_pred CCccCCCcccc
Confidence 55555544433
No 305
>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=29.20 E-value=42 Score=26.63 Aligned_cols=31 Identities=23% Similarity=0.384 Sum_probs=20.0
Q ss_pred ccccccccccCC---CeeeEcCCCCCcccHHhHHH
Q 032328 73 DCVVCLENFRMG---DKCRLLPNCRHSFHAQCIDS 104 (143)
Q Consensus 73 ~C~ICl~~~~~~---~~v~~l~~C~H~FH~~Ci~~ 104 (143)
.|.||.. |..+ --+.....|||.-|.+|--+
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 4788854 5432 23344446899999999754
No 306
>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=29.13 E-value=34 Score=16.57 Aligned_cols=8 Identities=50% Similarity=1.315 Sum_probs=5.4
Q ss_pred CCCccccC
Q 032328 110 PICPICRT 117 (143)
Q Consensus 110 ~~CP~CR~ 117 (143)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46888854
No 307
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=28.80 E-value=35 Score=19.40 Aligned_cols=14 Identities=29% Similarity=0.494 Sum_probs=8.3
Q ss_pred CCCccccCccCCCC
Q 032328 110 PICPICRTRVSPSK 123 (143)
Q Consensus 110 ~~CP~CR~~i~~~~ 123 (143)
..||.|+..=..+.
T Consensus 5 ~kCpKCgn~~~~ek 18 (68)
T COG3478 5 FKCPKCGNTNYEEK 18 (68)
T ss_pred ccCCCcCCcchhhc
Confidence 34777776655443
No 308
>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=28.60 E-value=60 Score=16.27 Aligned_cols=35 Identities=20% Similarity=0.466 Sum_probs=23.2
Q ss_pred CCCccccccccccCCCeeeEcCCCCCcccHHhHHH
Q 032328 70 SPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDS 104 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~ 104 (143)
....|.+|.+.+.....-..-+.|+=..|.+|...
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 34569999988765321122234777899999876
No 309
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=28.21 E-value=34 Score=18.73 Aligned_cols=12 Identities=25% Similarity=0.946 Sum_probs=9.3
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
.|.+|+.++...
T Consensus 3 ~CvVCKqpi~~a 14 (54)
T PF10886_consen 3 ICVVCKQPIDDA 14 (54)
T ss_pred eeeeeCCccCcc
Confidence 488888888765
No 310
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=27.69 E-value=30 Score=22.59 Aligned_cols=16 Identities=31% Similarity=0.667 Sum_probs=12.0
Q ss_pred CCCCccccCccCCCCc
Q 032328 109 TPICPICRTRVSPSKV 124 (143)
Q Consensus 109 ~~~CP~CR~~i~~~~~ 124 (143)
.+.||.|+.-+.+...
T Consensus 110 eK~C~~C~tGiYS~e~ 125 (128)
T PF11682_consen 110 EKYCPKCGTGIYSIEV 125 (128)
T ss_pred CEecCCCCCcccceec
Confidence 3679999988877643
No 311
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=27.36 E-value=1.5e+02 Score=17.94 Aligned_cols=11 Identities=27% Similarity=0.329 Sum_probs=4.3
Q ss_pred HHhhhhccCcc
Q 032328 26 VVGRAFRRGYE 36 (143)
Q Consensus 26 ~~~~~~~~~~~ 36 (143)
...++.++...
T Consensus 51 ~~~~k~K~~~~ 61 (95)
T PF07178_consen 51 WGYRKFKKGRG 61 (95)
T ss_pred HHHHHHHccCC
Confidence 33344444333
No 312
>PF12773 DZR: Double zinc ribbon
Probab=27.21 E-value=63 Score=16.70 Aligned_cols=11 Identities=36% Similarity=0.890 Sum_probs=7.1
Q ss_pred CCCccccCccC
Q 032328 110 PICPICRTRVS 120 (143)
Q Consensus 110 ~~CP~CR~~i~ 120 (143)
..||.|...+.
T Consensus 30 ~~C~~Cg~~~~ 40 (50)
T PF12773_consen 30 KICPNCGAENP 40 (50)
T ss_pred CCCcCCcCCCc
Confidence 45887776644
No 313
>TIGR01708 typeII_sec_gspH general secretion pathway protein H. This model represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=26.71 E-value=1.1e+02 Score=19.73 Aligned_cols=21 Identities=24% Similarity=0.369 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVI 22 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~ 22 (143)
++|+++++.++.+..++.+..
T Consensus 8 LiEllvvlaIiail~~~~~~~ 28 (143)
T TIGR01708 8 LIELLVVLAIMGLVAAAAALS 28 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467777776666665554443
No 314
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=26.63 E-value=28 Score=24.47 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032328 7 ISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~ 25 (143)
+++++++++++..+.+-.|
T Consensus 106 vSlImViaAliTtlvlK~C 124 (205)
T PF15298_consen 106 VSLIMVIAALITTLVLKNC 124 (205)
T ss_pred eehhHHHHHhhhhhhhhhh
Confidence 3444444443343444444
No 315
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=26.60 E-value=51 Score=22.11 Aligned_cols=22 Identities=18% Similarity=0.282 Sum_probs=10.5
Q ss_pred eeeecccccCCCCCCcccccccc
Q 032328 58 CFEYKAAADRGSSPVDCVVCLEN 80 (143)
Q Consensus 58 ~~~~~~~~~~~~~~~~C~ICl~~ 80 (143)
..+|..-.+. +.+-.-++++-+
T Consensus 85 vvRYnAF~dm-Gg~LSFslAlLD 106 (151)
T PF14584_consen 85 VVRYNAFEDM-GGDLSFSLALLD 106 (151)
T ss_pred EEEccCcccc-cccceeeeEEEe
Confidence 3444443333 345556666654
No 316
>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=26.54 E-value=5.8 Score=21.69 Aligned_cols=33 Identities=24% Similarity=0.532 Sum_probs=16.6
Q ss_pred cccc--ccccccCCCe--e--eEcCCCCCcccHHhHHHH
Q 032328 73 DCVV--CLENFRMGDK--C--RLLPNCRHSFHAQCIDSW 105 (143)
Q Consensus 73 ~C~I--Cl~~~~~~~~--v--~~l~~C~H~FH~~Ci~~w 105 (143)
.|+- |-.-+...+. . ..-+.|++.|+..|-.+|
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 5655 6655543222 1 334458898888887776
No 317
>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=26.50 E-value=58 Score=17.00 Aligned_cols=34 Identities=24% Similarity=0.412 Sum_probs=22.2
Q ss_pred CCCccccccccc--cCCCeeeEcCCCCCcccHHhHHH
Q 032328 70 SPVDCVVCLENF--RMGDKCRLLPNCRHSFHAQCIDS 104 (143)
Q Consensus 70 ~~~~C~ICl~~~--~~~~~v~~l~~C~H~FH~~Ci~~ 104 (143)
....|..|-+.+ .....+.=. .|+-..|++|...
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 456799999988 333333333 4999999999854
No 318
>PRK10574 putative major pilin subunit; Provisional
Probab=26.47 E-value=1.5e+02 Score=19.69 Aligned_cols=24 Identities=8% Similarity=0.160 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
++++++++.++.++.++.+-.+.-
T Consensus 9 LIELmIViaIigILaaiaiP~~~~ 32 (146)
T PRK10574 9 LIELMVVIAIIAILSAIGIPAYQN 32 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677666665555554444433
No 319
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=26.35 E-value=44 Score=17.89 Aligned_cols=12 Identities=33% Similarity=0.888 Sum_probs=6.4
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
.||.|...+..+
T Consensus 26 rCp~Cg~rIl~K 37 (49)
T COG1996 26 RCPYCGSRILVK 37 (49)
T ss_pred eCCCCCcEEEEe
Confidence 366665555533
No 320
>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=25.81 E-value=70 Score=15.49 Aligned_cols=8 Identities=25% Similarity=0.567 Sum_probs=3.9
Q ss_pred CCccccCc
Q 032328 111 ICPICRTR 118 (143)
Q Consensus 111 ~CP~CR~~ 118 (143)
.||.|...
T Consensus 27 ~C~~C~~~ 34 (38)
T TIGR02098 27 RCGKCGHV 34 (38)
T ss_pred ECCCCCCE
Confidence 35555444
No 321
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=25.36 E-value=32 Score=18.84 Aligned_cols=12 Identities=25% Similarity=0.742 Sum_probs=8.9
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
-||.||.+....
T Consensus 30 yCpKCK~EtlI~ 41 (55)
T PF14205_consen 30 YCPKCKQETLID 41 (55)
T ss_pred cCCCCCceEEEE
Confidence 499999876533
No 322
>PF05795 Plasmodium_Vir: Plasmodium vivax Vir protein; InterPro: IPR008780 This family consists of several Vir proteins specific to the genus Plasmodium and Plasmodium vivax in particular. The vir genes are present at about 600-1,000 copies per haploid genome and encode proteins that are immunovariant in natural infections, indicating that they may have a functional role in establishing chronic infection through antigenic variation [].
Probab=25.21 E-value=77 Score=23.58 Aligned_cols=11 Identities=18% Similarity=0.465 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 032328 12 LFVGIAALVVI 22 (143)
Q Consensus 12 ~~~~~~~~~~~ 22 (143)
.++|+.+++++
T Consensus 290 ~~~G~~~~~f~ 300 (354)
T PF05795_consen 290 SVLGIPLIFFL 300 (354)
T ss_pred hhHHHHHHHHH
Confidence 33333333333
No 323
>PRK11595 DNA utilization protein GntX; Provisional
Probab=25.18 E-value=88 Score=22.20 Aligned_cols=39 Identities=15% Similarity=0.367 Sum_probs=19.7
Q ss_pred CccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCcc
Q 032328 72 VDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRV 119 (143)
Q Consensus 72 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i 119 (143)
..|.+|-..+..+ .+..|..|...|-.....||.|-.++
T Consensus 6 ~~C~~C~~~~~~~---------~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 6 GLCWLCRMPLALS---------HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred CcCccCCCccCCC---------CCcccHHHHhhCCcccCcCccCCCcC
Confidence 4588887654321 11234446555422234577776554
No 324
>PF03954 Lectin_N: Hepatic lectin, N-terminal domain; InterPro: IPR005640 Animal lectins display a wide variety of architectures. They are classified according to the carbohydrate-recognition domain (CRD) of which there are two main types, S-type and C-type. C-type lectins display a wide range of specificities. They require Ca2+ for their activity They are found predominantly but not exclusively in vertebrates. This entry presents N-terminal domain, which is found in C-type lectins.; GO: 0005529 sugar binding, 0016020 membrane
Probab=24.94 E-value=1.1e+02 Score=20.26 Aligned_cols=21 Identities=38% Similarity=0.876 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 032328 9 LTLLFVGIAALVVIHVCVVGR 29 (143)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~ 29 (143)
+.++.+|+.+++++.+|+++.
T Consensus 35 l~LlsLgl~~LLLV~IcVigs 55 (138)
T PF03954_consen 35 LLLLSLGLSLLLLVVICVIGS 55 (138)
T ss_pred HHHHHHHHHHHHHHHHHhhcC
Confidence 456778888888888888764
No 325
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=24.83 E-value=63 Score=16.73 Aligned_cols=13 Identities=23% Similarity=0.386 Sum_probs=7.6
Q ss_pred CCCccccCccCCC
Q 032328 110 PICPICRTRVSPS 122 (143)
Q Consensus 110 ~~CP~CR~~i~~~ 122 (143)
..||.|-..+.-+
T Consensus 20 irC~~CG~rIlyK 32 (44)
T smart00659 20 VRCRECGYRILYK 32 (44)
T ss_pred eECCCCCceEEEE
Confidence 3477776666533
No 326
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.70 E-value=32 Score=20.43 Aligned_cols=13 Identities=31% Similarity=0.585 Sum_probs=10.0
Q ss_pred CCCccccCccCCC
Q 032328 110 PICPICRTRVSPS 122 (143)
Q Consensus 110 ~~CP~CR~~i~~~ 122 (143)
..||.||..+...
T Consensus 22 D~CPrCrGVWLDr 34 (88)
T COG3809 22 DYCPRCRGVWLDR 34 (88)
T ss_pred eeCCccccEeecc
Confidence 3499999988754
No 327
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=24.56 E-value=84 Score=23.45 Aligned_cols=33 Identities=18% Similarity=0.484 Sum_probs=15.1
Q ss_pred CeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccC
Q 032328 85 DKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVS 120 (143)
Q Consensus 85 ~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~ 120 (143)
..+...|.|+++.+.+=+.. ....||.|..-..
T Consensus 26 ~lw~KCp~c~~~~y~~eL~~---n~~vcp~c~~h~r 58 (294)
T COG0777 26 GLWTKCPSCGEMLYRKELES---NLKVCPKCGHHMR 58 (294)
T ss_pred CceeECCCccceeeHHHHHh---hhhcccccCcccc
Confidence 33445555666433333322 1234666655443
No 328
>PF14353 CpXC: CpXC protein
Probab=24.55 E-value=74 Score=20.27 Aligned_cols=13 Identities=23% Similarity=0.606 Sum_probs=8.6
Q ss_pred CCCccccCccCCC
Q 032328 110 PICPICRTRVSPS 122 (143)
Q Consensus 110 ~~CP~CR~~i~~~ 122 (143)
.+||.|.......
T Consensus 39 ~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 39 FTCPSCGHKFRLE 51 (128)
T ss_pred EECCCCCCceecC
Confidence 3588887776543
No 329
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=24.51 E-value=70 Score=19.50 Aligned_cols=39 Identities=18% Similarity=0.575 Sum_probs=28.8
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
...|.||-..... =||-||..|- ..+..|.+|=..+...
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CA----YkkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCA----YKKGICAMCGKKILDT 82 (90)
T ss_pred Ccccccccccccc---------CCCccChhhh----cccCcccccCCeeccc
Confidence 4579999887444 4788888886 4467899998877543
No 330
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=24.44 E-value=64 Score=17.83 Aligned_cols=24 Identities=21% Similarity=0.310 Sum_probs=14.1
Q ss_pred cccccccccCCCeeeEcCCCCCcccHH
Q 032328 74 CVVCLENFRMGDKCRLLPNCRHSFHAQ 100 (143)
Q Consensus 74 C~ICl~~~~~~~~v~~l~~C~H~FH~~ 100 (143)
|..|... .++...-|. ||++++..
T Consensus 1 C~~C~~~--~~~lw~CL~-Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLT-CGYVGCGR 24 (63)
T ss_dssp -SSSHTC--SSSEEEETT-TS-EEETT
T ss_pred CCCCCCc--CCceEEeCC-CCcccccC
Confidence 5566644 345556666 99988774
No 331
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=24.40 E-value=19 Score=18.27 Aligned_cols=12 Identities=25% Similarity=0.617 Sum_probs=7.3
Q ss_pred CCCCcccccccc
Q 032328 69 SSPVDCVVCLEN 80 (143)
Q Consensus 69 ~~~~~C~ICl~~ 80 (143)
.+.+.|+||.++
T Consensus 27 se~~~C~IC~d~ 38 (41)
T PF02132_consen 27 SEEDPCEICSDP 38 (41)
T ss_dssp ESSSS-HHHH-T
T ss_pred CCCCcCcCCCCC
Confidence 356789999876
No 332
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=24.40 E-value=66 Score=20.28 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=8.3
Q ss_pred CccccccccccC
Q 032328 72 VDCVVCLENFRM 83 (143)
Q Consensus 72 ~~C~ICl~~~~~ 83 (143)
+.|+.|-++|.-
T Consensus 4 p~cp~c~sEytY 15 (112)
T COG2824 4 PPCPKCNSEYTY 15 (112)
T ss_pred CCCCccCCceEE
Confidence 468888777653
No 333
>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=24.25 E-value=1.5e+02 Score=20.74 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 032328 4 EILISLTLLFVGIAALVVIHVCVVGRAFRR 33 (143)
Q Consensus 4 ~il~~~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (143)
+++..++-+.+.++.+..+...|+.|+.+.
T Consensus 5 s~~~P~~Y~~vl~~sl~~Fs~~YRkr~~~~ 34 (190)
T PF09802_consen 5 SLYTPLAYVAVLVGSLATFSSIYRKRKAAK 34 (190)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444444444444444444444444444433
No 334
>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins. IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane
Probab=24.23 E-value=2.6e+02 Score=23.80 Aligned_cols=11 Identities=18% Similarity=0.217 Sum_probs=4.9
Q ss_pred CCcccHHhHHHH
Q 032328 94 RHSFHAQCIDSW 105 (143)
Q Consensus 94 ~H~FH~~Ci~~w 105 (143)
||.. .+....|
T Consensus 150 GHsL-~e~~~e~ 160 (705)
T PF07095_consen 150 GHSL-KEYRQER 160 (705)
T ss_pred chhh-hhhhhhc
Confidence 5643 3444443
No 335
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=24.16 E-value=33 Score=16.71 Aligned_cols=12 Identities=42% Similarity=0.833 Sum_probs=7.9
Q ss_pred CCccccCccCCC
Q 032328 111 ICPICRTRVSPS 122 (143)
Q Consensus 111 ~CP~CR~~i~~~ 122 (143)
.||.|.+.+...
T Consensus 6 ~C~nC~R~v~a~ 17 (33)
T PF08209_consen 6 ECPNCGRPVAAS 17 (33)
T ss_dssp E-TTTSSEEEGG
T ss_pred ECCCCcCCcchh
Confidence 599998877643
No 336
>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=24.06 E-value=1.4e+02 Score=16.44 Aligned_cols=14 Identities=7% Similarity=0.097 Sum_probs=5.5
Q ss_pred HHHHHHHHHhhhhc
Q 032328 19 LVVIHVCVVGRAFR 32 (143)
Q Consensus 19 ~~~~~~~~~~~~~~ 32 (143)
++.-+++...+..+
T Consensus 14 ~LYgY~yhLYrsek 27 (56)
T TIGR02736 14 FLYAYIYHLYRSQK 27 (56)
T ss_pred HHHHHHHHhhhhhc
Confidence 33334444444333
No 337
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=24.01 E-value=1.7e+02 Score=17.52 Aligned_cols=10 Identities=10% Similarity=0.468 Sum_probs=4.9
Q ss_pred CCChHHhhcC
Q 032328 47 MISSDDLKQI 56 (143)
Q Consensus 47 ~~~~~~~~~~ 56 (143)
.+++++++.+
T Consensus 51 ~lTpDQVrAl 60 (92)
T PHA02681 51 KMTDDQVRAF 60 (92)
T ss_pred cCCHHHHHHH
Confidence 3455555543
No 338
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=24.00 E-value=45 Score=22.37 Aligned_cols=7 Identities=43% Similarity=1.085 Sum_probs=4.0
Q ss_pred cccccccc
Q 032328 73 DCVVCLEN 80 (143)
Q Consensus 73 ~C~ICl~~ 80 (143)
.| +|.++
T Consensus 113 GC-~c~eD 119 (153)
T KOG3352|consen 113 GC-GCEED 119 (153)
T ss_pred ee-cccCC
Confidence 36 66655
No 339
>PRK10557 hypothetical protein; Provisional
Probab=23.91 E-value=1.8e+02 Score=20.21 Aligned_cols=24 Identities=13% Similarity=0.196 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVIHVC 25 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~~~~ 25 (143)
++++++++++..+++.++.-++..
T Consensus 11 LiElmIAm~Ig~illl~~~~~~~~ 34 (192)
T PRK10557 11 LLEVLLAMAIGSVLLLGAARFLPA 34 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777766666665555543
No 340
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=23.91 E-value=69 Score=22.54 Aligned_cols=22 Identities=14% Similarity=0.255 Sum_probs=16.3
Q ss_pred CCCCCccccccccccCCCeeeE
Q 032328 68 GSSPVDCVVCLENFRMGDKCRL 89 (143)
Q Consensus 68 ~~~~~~C~ICl~~~~~~~~v~~ 89 (143)
-.+.+.|.||.++..+...+.+
T Consensus 63 ~te~d~C~ICsd~~Rd~~~icV 84 (198)
T COG0353 63 LTESDPCDICSDESRDKSQLCV 84 (198)
T ss_pred cCCCCcCcCcCCcccCCceEEE
Confidence 3567799999999877664443
No 341
>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=23.48 E-value=52 Score=18.54 Aligned_cols=6 Identities=17% Similarity=0.960 Sum_probs=2.5
Q ss_pred CCCCcc
Q 032328 92 NCRHSF 97 (143)
Q Consensus 92 ~C~H~F 97 (143)
.|||.|
T Consensus 58 ~c~r~Y 63 (68)
T PF03966_consen 58 ECGREY 63 (68)
T ss_dssp TTTEEE
T ss_pred CCCCEE
Confidence 344433
No 342
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=23.40 E-value=54 Score=30.63 Aligned_cols=15 Identities=27% Similarity=0.840 Sum_probs=13.6
Q ss_pred CCCcccHHhHHHHHh
Q 032328 93 CRHSFHAQCIDSWLL 107 (143)
Q Consensus 93 C~H~FH~~Ci~~wl~ 107 (143)
|||..|.+|......
T Consensus 1151 c~h~mh~~c~~~~~~ 1165 (1738)
T KOG1140|consen 1151 CGHHMHYGCFKRYVQ 1165 (1738)
T ss_pred cCCcchHHHHHHHHH
Confidence 999999999998873
No 343
>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins. Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.
Probab=23.37 E-value=28 Score=22.61 Aligned_cols=6 Identities=17% Similarity=-0.025 Sum_probs=0.0
Q ss_pred HHHHHH
Q 032328 8 SLTLLF 13 (143)
Q Consensus 8 ~~~~~~ 13 (143)
+...++
T Consensus 84 sal~v~ 89 (129)
T PF12191_consen 84 SALSVV 89 (129)
T ss_dssp ------
T ss_pred hHHHHH
Confidence 333333
No 344
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=23.34 E-value=26 Score=15.62 Aligned_cols=11 Identities=45% Similarity=1.274 Sum_probs=6.8
Q ss_pred CCccccCccCC
Q 032328 111 ICPICRTRVSP 121 (143)
Q Consensus 111 ~CP~CR~~i~~ 121 (143)
.||.|.+....
T Consensus 4 ~C~~CgR~F~~ 14 (25)
T PF13913_consen 4 PCPICGRKFNP 14 (25)
T ss_pred cCCCCCCEECH
Confidence 47777666543
No 345
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=23.21 E-value=77 Score=19.95 Aligned_cols=11 Identities=27% Similarity=0.600 Sum_probs=5.3
Q ss_pred Ccccccccccc
Q 032328 72 VDCVVCLENFR 82 (143)
Q Consensus 72 ~~C~ICl~~~~ 82 (143)
..|+-|-..|.
T Consensus 10 R~Cp~CG~kFY 20 (108)
T PF09538_consen 10 RTCPSCGAKFY 20 (108)
T ss_pred ccCCCCcchhc
Confidence 34555555543
No 346
>TIGR02532 IV_pilin_GFxxxE prepilin-type N-terminal cleavage/methylation domain. This model describes many but not all examples of the N-terminal region of bacterial proteins that resemble type IV pilins at their N-terminus, with a cleavage site G^FxxxE followed by a hydrophobic stretch. The new N-terminal residue, usually Phe, is methylated. Separate domains of the prepilin peptidase appear responsible for cleavage and methylation. Proteins with this N-terminal region include type IV pilins and other components of pilus biogenesis, competence proteins, and type II secretion proteins. Typically several proteins in a single operon have this N-terminal domain. The N-terminal cleavage and methylation site is described by PROSITE motif PS00409 as [KRHEQSTAG]-G-[FYLIVM]-[ST]-[LT]-[LIVP]-E-[LIVMFWSTAG](14).
Probab=22.89 E-value=92 Score=13.98 Aligned_cols=14 Identities=29% Similarity=0.456 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHH
Q 032328 3 MEILISLTLLFVGI 16 (143)
Q Consensus 3 ~~il~~~~~~~~~~ 16 (143)
+++++++.++.+..
T Consensus 7 iEllial~i~~i~~ 20 (26)
T TIGR02532 7 IELLVVLAILGILA 20 (26)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555554444443
No 347
>PHA00626 hypothetical protein
Probab=22.86 E-value=78 Score=17.51 Aligned_cols=10 Identities=30% Similarity=0.408 Sum_probs=4.4
Q ss_pred CccccCccCC
Q 032328 112 CPICRTRVSP 121 (143)
Q Consensus 112 CP~CR~~i~~ 121 (143)
||-|-...+.
T Consensus 26 CkdCGY~ft~ 35 (59)
T PHA00626 26 CCDCGYNDSK 35 (59)
T ss_pred cCCCCCeech
Confidence 4444444443
No 348
>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=22.72 E-value=2.9e+02 Score=20.07 Aligned_cols=10 Identities=10% Similarity=0.458 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 032328 16 IAALVVIHVC 25 (143)
Q Consensus 16 ~~~~~~~~~~ 25 (143)
+.++.++.+|
T Consensus 205 f~LvgLyr~C 214 (259)
T PF07010_consen 205 FTLVGLYRMC 214 (259)
T ss_pred HHHHHHHHHh
Confidence 3334444444
No 349
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=22.40 E-value=1.8e+02 Score=17.23 Aligned_cols=23 Identities=17% Similarity=0.187 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 032328 7 ISLTLLFVGIAALVVIHVCVVGR 29 (143)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~ 29 (143)
..+++.=+.+++++....+++.+
T Consensus 37 aGiV~~D~vlTLLIv~~vy~car 59 (79)
T PF07213_consen 37 AGIVAADAVLTLLIVLVVYYCAR 59 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Confidence 33333333333333333333333
No 350
>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=22.28 E-value=1.9e+02 Score=17.32 Aligned_cols=22 Identities=41% Similarity=0.697 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032328 6 LISLTLLFVGIAALVVIHVCVV 27 (143)
Q Consensus 6 l~~~~~~~~~~~~~~~~~~~~~ 27 (143)
++.+++++++.+++..+-+|+.
T Consensus 21 lvc~~~liv~~AlL~~IqLC~~ 42 (82)
T PF02723_consen 21 LVCLVVLIVCIALLQLIQLCFQ 42 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555555554
No 351
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=22.26 E-value=1e+02 Score=15.20 Aligned_cols=34 Identities=18% Similarity=0.262 Sum_probs=17.7
Q ss_pred CCccccccccccCCCe--eeEcCCCCCcccHH-hHHH
Q 032328 71 PVDCVVCLENFRMGDK--CRLLPNCRHSFHAQ-CIDS 104 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~-Ci~~ 104 (143)
...|.-|-..+..... +.....-.|.|+.. |+..
T Consensus 6 ~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~~~ 42 (43)
T PF06467_consen 6 MKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCLSS 42 (43)
T ss_dssp CEE-TTT--EEECCC----EE-TTTTSCCSSHHHHHH
T ss_pred CCcCcccCCcccCCCccccccccCcccChhCHHHHhh
Confidence 4568999988876654 22222356777764 7654
No 352
>COG4968 PilE Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=22.21 E-value=2e+02 Score=19.04 Aligned_cols=13 Identities=15% Similarity=0.391 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHH
Q 032328 3 MEILISLTLLFVG 15 (143)
Q Consensus 3 ~~il~~~~~~~~~ 15 (143)
++++++++++.+.
T Consensus 11 IELmIvVaIv~IL 23 (139)
T COG4968 11 IELMIVVAIVGIL 23 (139)
T ss_pred HHHHHHHHHHHHH
Confidence 4555554444443
No 353
>PF07620 SLEI_Leptospira: SLEI; InterPro: IPR011512 This entry represents a highly conserved sequence motif found at the C-terminal of some hypothetical proteins from Leptospira interrogans.
Probab=22.21 E-value=35 Score=13.74 Aligned_cols=9 Identities=22% Similarity=0.445 Sum_probs=5.2
Q ss_pred CcccccccC
Q 032328 135 SSDVAIELT 143 (143)
Q Consensus 135 ~~~~~~~~~ 143 (143)
..|+.+||+
T Consensus 5 ~rdNsLeIs 13 (16)
T PF07620_consen 5 LRDNSLEIS 13 (16)
T ss_pred ccCCeEEEe
Confidence 446666664
No 354
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=22.01 E-value=1.1e+02 Score=14.54 Aligned_cols=14 Identities=14% Similarity=0.541 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 032328 5 ILISLTLLFVGIAA 18 (143)
Q Consensus 5 il~~~~~~~~~~~~ 18 (143)
++.++.+++++++.
T Consensus 14 ~~~~~~ll~~~lTG 27 (34)
T PF13172_consen 14 LIAAIFLLLLALTG 27 (34)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444433
No 355
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=21.95 E-value=1.1e+02 Score=16.02 Aligned_cols=31 Identities=13% Similarity=0.348 Sum_probs=22.0
Q ss_pred ccccccccccCCCeeeEcCCCCCcccHHhHHHHHhC
Q 032328 73 DCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLK 108 (143)
Q Consensus 73 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~ 108 (143)
.|.||-++-.+| ..+ .|+..|.+|-......
T Consensus 1 ~CiiC~~~~~~G---I~I--~~~fIC~~CE~~iv~~ 31 (46)
T PF10764_consen 1 KCIICGKEKEEG---IHI--YGKFICSDCEKEIVNT 31 (46)
T ss_pred CeEeCCCcCCCC---EEE--ECeEehHHHHHHhccC
Confidence 388898886664 333 6888888888776554
No 356
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=21.93 E-value=43 Score=13.66 Aligned_cols=9 Identities=44% Similarity=1.235 Sum_probs=4.1
Q ss_pred CccccCccC
Q 032328 112 CPICRTRVS 120 (143)
Q Consensus 112 CP~CR~~i~ 120 (143)
||.|.....
T Consensus 3 C~~C~~~~~ 11 (24)
T PF13894_consen 3 CPICGKSFR 11 (24)
T ss_dssp -SSTS-EES
T ss_pred CcCCCCcCC
Confidence 666655544
No 357
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=21.60 E-value=1.9e+02 Score=25.06 Aligned_cols=18 Identities=17% Similarity=0.329 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 032328 12 LFVGIAALVVIHVCVVGR 29 (143)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~ 29 (143)
+++++++++.+++|+++|
T Consensus 282 ~~livl~lL~vLl~yCrr 299 (807)
T PF10577_consen 282 TALIVLILLCVLLCYCRR 299 (807)
T ss_pred HHHHHHHHHHHHHHhhhc
Confidence 344444445555555544
No 358
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=21.59 E-value=2.4e+02 Score=21.78 Aligned_cols=17 Identities=18% Similarity=0.280 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 032328 13 FVGIAALVVIHVCVVGR 29 (143)
Q Consensus 13 ~~~~~~~~~~~~~~~~~ 29 (143)
++++.+.+++|+.-.++
T Consensus 289 llVm~aal~iYl~q~g~ 305 (391)
T KOG4583|consen 289 LLVMGAALFIYLHQLGW 305 (391)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 34444444444444443
No 359
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=21.53 E-value=2e+02 Score=17.27 Aligned_cols=22 Identities=18% Similarity=0.114 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhh
Q 032328 10 TLLFVGIAALVVIHVCVVGRAF 31 (143)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~ 31 (143)
+.++++++++.++.+.-..+.+
T Consensus 32 l~ml~~fa~l~ly~~~~ai~~~ 53 (85)
T PF13150_consen 32 LVMLVLFAALCLYMTVSAIYDI 53 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3333344444444433333444
No 360
>PRK00420 hypothetical protein; Validated
Probab=21.49 E-value=85 Score=19.95 Aligned_cols=12 Identities=17% Similarity=0.407 Sum_probs=6.7
Q ss_pred CCCccccCccCC
Q 032328 110 PICPICRTRVSP 121 (143)
Q Consensus 110 ~~CP~CR~~i~~ 121 (143)
..||.|-..+.-
T Consensus 41 ~~Cp~Cg~~~~v 52 (112)
T PRK00420 41 VVCPVHGKVYIV 52 (112)
T ss_pred eECCCCCCeeee
Confidence 347777665443
No 361
>KOG1631 consensus Translocon-associated complex TRAP, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.34 E-value=1.8e+02 Score=21.10 Aligned_cols=9 Identities=11% Similarity=0.231 Sum_probs=3.2
Q ss_pred HHHHHHHHH
Q 032328 7 ISLTLLFVG 15 (143)
Q Consensus 7 ~~~~~~~~~ 15 (143)
+.++++.++
T Consensus 187 L~~lligl~ 195 (261)
T KOG1631|consen 187 LYILLIGLS 195 (261)
T ss_pred HHHHHHHHH
Confidence 333333333
No 362
>PRK10506 hypothetical protein; Provisional
Probab=21.25 E-value=2.3e+02 Score=18.92 Aligned_cols=21 Identities=19% Similarity=0.183 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVI 22 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~ 22 (143)
++|++++++++.+.+++.+..
T Consensus 13 LiEllvvl~Ii~il~~~a~p~ 33 (162)
T PRK10506 13 LIELLVVMTIVSILSAWGLYG 33 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 466777776655555544433
No 363
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.13 E-value=74 Score=23.40 Aligned_cols=28 Identities=14% Similarity=0.367 Sum_probs=18.6
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHh
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQC 101 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~C 101 (143)
-..|+.|-. + .......|.||+.+|.+=
T Consensus 309 S~~C~~cg~-~--~~r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 309 SKTCPCCGH-L--SGRLFKCPRCGFVHDRDV 336 (364)
T ss_pred cccccccCC-c--cceeEECCCCCCeehhhH
Confidence 357999988 2 223344556899888873
No 364
>COG2212 MnhF Multisubunit Na+/H+ antiporter, MnhF subunit [Inorganic ion transport and metabolism]
Probab=21.11 E-value=2.1e+02 Score=17.40 Aligned_cols=28 Identities=29% Similarity=0.680 Sum_probs=14.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032328 1 MVMEILISLTLLFVGIAALVVIHVCVVG 28 (143)
Q Consensus 1 ~~~~il~~~~~~~~~~~~~~~~~~~~~~ 28 (143)
|.++..+.+.++++++++++.++-...+
T Consensus 1 ~~~~~~~~ial~i~~la~~l~~yRvi~G 28 (89)
T COG2212 1 MILEIMLLIALIILGLALLLALYRVIRG 28 (89)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3445555555555555555555444333
No 365
>PF15345 TMEM51: Transmembrane protein 51
Probab=20.91 E-value=56 Score=23.56 Aligned_cols=19 Identities=26% Similarity=0.518 Sum_probs=10.8
Q ss_pred HHHHHHHHHhhhhccCccc
Q 032328 19 LVVIHVCVVGRAFRRGYEQ 37 (143)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~ 37 (143)
++++-+|+.+|..|+++..
T Consensus 71 LLLLSICL~IR~KRr~rq~ 89 (233)
T PF15345_consen 71 LLLLSICLSIRDKRRRRQG 89 (233)
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 4555666666655555443
No 366
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=20.80 E-value=26 Score=28.37 Aligned_cols=33 Identities=21% Similarity=0.432 Sum_probs=19.2
Q ss_pred CCccccccccccCCCeeeEcCCCCCcccHHhHH
Q 032328 71 PVDCVVCLENFRMGDKCRLLPNCRHSFHAQCID 103 (143)
Q Consensus 71 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~ 103 (143)
.+.|..|.-.|..=..--...+||-+||..|-.
T Consensus 901 a~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 901 AEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred chhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 345777777664311111122599999998853
No 367
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.76 E-value=19 Score=20.31 Aligned_cols=13 Identities=15% Similarity=0.414 Sum_probs=8.9
Q ss_pred CCCCCccccCccC
Q 032328 108 KTPICPICRTRVS 120 (143)
Q Consensus 108 ~~~~CP~CR~~i~ 120 (143)
....||.|+..-.
T Consensus 5 ~~~~Cp~C~~ak~ 17 (72)
T TIGR02194 5 SKNNCVQCKMTKK 17 (72)
T ss_pred eCCCCHHHHHHHH
Confidence 3567999976544
No 368
>PF11773 PulG: Type II secretory pathway pseudopilin ; InterPro: IPR021749 The secreton (type II secretion) and type IV pilus biogenesis branches of the general secretory pathway in Gram-negative bacteria share many features that suggest a common evolutionary origin. Five components of the secreton, the pseudopilins, are similar to subunits of type IV pili. Pseudopilin PulG is one of the secreton pseudopilins, and is found to assemble into pilus-like bundles []. PulG interacts with proteins H, I and J within the multi-protein complex as well as blocking extracellular secretion and reducing the amount of PulE protein as well as the amounts of PulL, PulM, PulC and PulD when G is over-expressed []. In Klebsiella the pilus-like structure is composed largely of PulG [].
Probab=20.67 E-value=1.8e+02 Score=17.41 Aligned_cols=21 Identities=29% Similarity=0.377 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 032328 2 VMEILISLTLLFVGIAALVVI 22 (143)
Q Consensus 2 ~~~il~~~~~~~~~~~~~~~~ 22 (143)
+++-++++.++++.+++++.-
T Consensus 2 LLEsLiAlall~~IvsLiL~~ 22 (82)
T PF11773_consen 2 LLESLIALALLATIVSLILGQ 22 (82)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 566677776666665555444
No 369
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=20.66 E-value=18 Score=26.66 Aligned_cols=29 Identities=24% Similarity=0.553 Sum_probs=18.5
Q ss_pred CCC-CcccHHhHHHHHhCC--CCCccccCccC
Q 032328 92 NCR-HSFHAQCIDSWLLKT--PICPICRTRVS 120 (143)
Q Consensus 92 ~C~-H~FH~~Ci~~wl~~~--~~CP~CR~~i~ 120 (143)
+|. -=||..|+--=.... =.||-|+....
T Consensus 239 ~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 239 GCPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred CCCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 366 679999985422222 24999987644
No 370
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.57 E-value=46 Score=17.12 Aligned_cols=14 Identities=29% Similarity=0.565 Sum_probs=10.0
Q ss_pred CCCCccccCccCCC
Q 032328 109 TPICPICRTRVSPS 122 (143)
Q Consensus 109 ~~~CP~CR~~i~~~ 122 (143)
...||.|..++...
T Consensus 21 ~~~Cp~CG~~~~~~ 34 (46)
T PRK00398 21 GVRCPYCGYRILFK 34 (46)
T ss_pred ceECCCCCCeEEEc
Confidence 35699998877654
No 371
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=20.44 E-value=62 Score=26.23 Aligned_cols=34 Identities=15% Similarity=0.327 Sum_probs=24.1
Q ss_pred CCCCccccccccccCCC-eeeEcCCCCCcccHHhH
Q 032328 69 SSPVDCVVCLENFRMGD-KCRLLPNCRHSFHAQCI 102 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci 102 (143)
+-++.|++|.+.-.++. .++...+|.-.-|.+|.
T Consensus 191 ~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CY 225 (669)
T COG5141 191 EFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCY 225 (669)
T ss_pred hhhhhhHhccccccCCcceEEEecCcchhhhhhcc
Confidence 45778999998765443 34445578888888885
No 372
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=20.17 E-value=32 Score=28.03 Aligned_cols=54 Identities=19% Similarity=0.256 Sum_probs=44.0
Q ss_pred CCCCccccccccccCCCeeeEcCCCCCcccHHhHHHHHhCCCCCccccCccCCC
Q 032328 69 SSPVDCVVCLENFRMGDKCRLLPNCRHSFHAQCIDSWLLKTPICPICRTRVSPS 122 (143)
Q Consensus 69 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~wl~~~~~CP~CR~~i~~~ 122 (143)
.....|.+|+......+....+..|.|-+...|+..|-.....||.|+..+...
T Consensus 258 ~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~ 311 (553)
T KOG4430|consen 258 ENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTI 311 (553)
T ss_pred hcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccc
Confidence 456689999999877666666666789999999999988888899998887643
No 373
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=20.14 E-value=65 Score=15.86 Aligned_cols=16 Identities=38% Similarity=0.715 Sum_probs=10.5
Q ss_pred CCccccCccCCCCcce
Q 032328 111 ICPICRTRVSPSKVGV 126 (143)
Q Consensus 111 ~CP~CR~~i~~~~~~~ 126 (143)
.||.|+......+.|.
T Consensus 10 ~C~~C~~~~~~~~dG~ 25 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGF 25 (36)
T ss_pred cCCCCCCeEeEccCCE
Confidence 3888888765554443
No 374
>KOG0803 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.07 E-value=38 Score=30.75 Aligned_cols=52 Identities=21% Similarity=0.416 Sum_probs=34.8
Q ss_pred CCCccccccccccCCCeee--EcC-CCCCcccHHhHHHHHhC---CCCCccccCccCCC
Q 032328 70 SPVDCVVCLENFRMGDKCR--LLP-NCRHSFHAQCIDSWLLK---TPICPICRTRVSPS 122 (143)
Q Consensus 70 ~~~~C~ICl~~~~~~~~v~--~l~-~C~H~FH~~Ci~~wl~~---~~~CP~CR~~i~~~ 122 (143)
....|+++.....+ +-.. .+. -|.-.||..|+..|... +..||+||......
T Consensus 1060 ~~~~~si~~~~~~~-~~~~~~~~r~~c~~~f~~~~l~~w~s~ed~s~~~~~~r~~~~~v 1117 (1312)
T KOG0803|consen 1060 RLREFSISHGSNDD-DLPFLSCLRAFCPNKFHTECLVKWKSGEDISENCPLCRELSTIV 1117 (1312)
T ss_pred HHHHhhhhccccch-hhhHHHHHHHhhhhhhhchhhHHhhccccccccccchhhhhHHH
Confidence 34467788777444 1100 000 28889999999999865 34799999887654
Done!