Query 042206
Match_columns 184
No_of_seqs 160 out of 1769
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 03:53:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042206.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042206hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 1.3E-17 2.7E-22 133.5 9.1 58 120-178 230-288 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 2.4E-16 5.3E-21 90.8 1.9 43 121-164 2-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 1E-13 2.2E-18 88.3 3.5 46 119-164 19-73 (73)
4 PHA02929 N1R/p28-like protein; 99.4 1.2E-13 2.6E-18 106.2 3.9 55 117-171 172-230 (238)
5 COG5243 HRD1 HRD ubiquitin lig 99.4 1.4E-12 3.1E-17 104.0 7.5 51 117-167 285-344 (491)
6 PF13920 zf-C3HC4_3: Zinc fing 99.3 1.6E-12 3.4E-17 76.8 3.0 47 119-169 2-49 (50)
7 COG5540 RING-finger-containing 99.3 1.2E-12 2.7E-17 101.8 2.3 51 118-169 322-373 (374)
8 KOG0317 Predicted E3 ubiquitin 99.3 2.4E-12 5.1E-17 99.8 3.3 52 117-172 237-288 (293)
9 PLN03208 E3 ubiquitin-protein 99.3 3.3E-12 7.1E-17 94.6 3.8 53 117-173 16-84 (193)
10 KOG0823 Predicted E3 ubiquitin 99.2 4E-12 8.7E-17 95.8 2.6 60 116-179 44-106 (230)
11 KOG0320 Predicted E3 ubiquitin 99.2 9E-12 2E-16 90.2 2.8 54 116-171 128-181 (187)
12 PF13923 zf-C3HC4_2: Zinc fing 99.2 1.3E-11 2.8E-16 69.0 2.7 38 122-163 1-39 (39)
13 PF12861 zf-Apc11: Anaphase-pr 99.2 1.6E-11 3.5E-16 79.0 3.0 51 118-168 20-82 (85)
14 PHA02926 zinc finger-like prot 99.1 3.3E-11 7.2E-16 90.4 3.5 58 117-174 168-236 (242)
15 cd00162 RING RING-finger (Real 99.1 4E-11 8.7E-16 68.6 2.8 44 121-167 1-45 (45)
16 PF15227 zf-C3HC4_4: zinc fing 99.1 9.1E-11 2E-15 66.5 2.6 38 122-163 1-42 (42)
17 KOG0802 E3 ubiquitin ligase [P 99.0 8.3E-10 1.8E-14 95.3 7.4 58 117-175 289-348 (543)
18 PF14634 zf-RING_5: zinc-RING 99.0 2.4E-10 5.2E-15 65.5 2.7 44 121-165 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 99.0 3.8E-10 8.2E-15 63.7 2.8 38 122-163 1-41 (41)
20 smart00504 Ubox Modified RING 98.9 1.1E-09 2.4E-14 67.6 3.2 46 120-169 2-47 (63)
21 smart00184 RING Ring finger. E 98.9 1.3E-09 2.8E-14 60.1 2.6 38 122-163 1-39 (39)
22 TIGR00599 rad18 DNA repair pro 98.9 1.3E-09 2.8E-14 89.7 3.5 53 114-170 21-73 (397)
23 COG5194 APC11 Component of SCF 98.8 1.9E-09 4.1E-14 67.7 2.7 47 122-168 34-81 (88)
24 KOG1493 Anaphase-promoting com 98.8 1E-09 2.2E-14 68.4 0.4 51 118-168 19-81 (84)
25 KOG1734 Predicted RING-contain 98.8 7.3E-09 1.6E-13 79.7 4.9 62 112-174 217-287 (328)
26 PF13445 zf-RING_UBOX: RING-ty 98.8 4.5E-09 9.8E-14 59.6 2.7 34 122-156 1-34 (43)
27 KOG4265 Predicted E3 ubiquitin 98.8 5.1E-09 1.1E-13 83.8 3.0 60 116-179 287-347 (349)
28 COG5574 PEX10 RING-finger-cont 98.7 4.6E-09 9.9E-14 80.8 2.3 52 117-172 213-266 (271)
29 PF11793 FANCL_C: FANCL C-term 98.6 7.9E-09 1.7E-13 65.1 0.9 50 119-168 2-66 (70)
30 KOG0287 Postreplication repair 98.6 8E-09 1.7E-13 81.9 1.0 52 118-173 22-73 (442)
31 COG5432 RAD18 RING-finger-cont 98.6 1E-08 2.2E-13 79.8 0.8 55 118-176 24-78 (391)
32 KOG2164 Predicted E3 ubiquitin 98.6 2.6E-08 5.6E-13 83.0 2.8 53 119-175 186-243 (513)
33 KOG0828 Predicted E3 ubiquitin 98.6 2E-08 4.4E-13 83.1 1.6 53 117-169 569-635 (636)
34 COG5219 Uncharacterized conser 98.5 2.3E-08 5E-13 88.4 0.9 60 109-168 1459-1523(1525)
35 KOG4172 Predicted E3 ubiquitin 98.5 3.7E-08 8E-13 57.5 0.8 49 118-170 6-56 (62)
36 PF04564 U-box: U-box domain; 98.5 1.3E-07 2.9E-12 60.1 3.0 49 118-170 3-52 (73)
37 TIGR00570 cdk7 CDK-activating 98.4 1.7E-07 3.7E-12 74.5 3.8 55 118-173 2-59 (309)
38 smart00744 RINGv The RING-vari 98.4 1.7E-07 3.7E-12 54.8 2.7 42 121-164 1-49 (49)
39 KOG2930 SCF ubiquitin ligase, 98.3 2.1E-07 4.6E-12 61.5 1.9 50 118-167 45-107 (114)
40 KOG0827 Predicted E3 ubiquitin 98.3 3.4E-07 7.4E-12 74.0 1.5 49 120-168 5-56 (465)
41 KOG0804 Cytoplasmic Zn-finger 98.2 6.5E-07 1.4E-11 73.6 2.3 53 114-168 170-222 (493)
42 KOG0824 Predicted E3 ubiquitin 98.1 9.5E-07 2.1E-11 69.3 1.5 52 118-173 6-58 (324)
43 KOG2177 Predicted E3 ubiquitin 98.1 1.2E-06 2.6E-11 69.6 1.7 44 117-164 11-54 (386)
44 PF14835 zf-RING_6: zf-RING of 98.0 1.2E-06 2.5E-11 53.4 -0.1 43 119-167 7-50 (65)
45 KOG1039 Predicted E3 ubiquitin 98.0 3E-06 6.4E-11 68.8 2.1 53 117-169 159-222 (344)
46 KOG0825 PHD Zn-finger protein 98.0 1.6E-06 3.4E-11 75.7 0.4 60 118-178 122-181 (1134)
47 KOG1645 RING-finger-containing 97.9 5.8E-06 1.3E-10 67.4 2.7 49 118-166 3-54 (463)
48 KOG0978 E3 ubiquitin ligase in 97.9 3.1E-06 6.7E-11 73.9 1.1 48 118-169 642-690 (698)
49 KOG0311 Predicted E3 ubiquitin 97.9 1.7E-06 3.8E-11 69.2 -0.4 53 117-172 41-94 (381)
50 KOG4159 Predicted E3 ubiquitin 97.8 1.7E-05 3.8E-10 65.6 3.0 51 115-169 80-130 (398)
51 KOG4445 Uncharacterized conser 97.6 1.8E-05 4E-10 62.2 1.3 54 114-168 110-186 (368)
52 KOG1941 Acetylcholine receptor 97.5 3.9E-05 8.5E-10 62.4 1.8 50 118-167 364-415 (518)
53 KOG1785 Tyrosine kinase negati 97.5 3.8E-05 8.2E-10 62.7 1.5 50 118-171 368-419 (563)
54 KOG4692 Predicted E3 ubiquitin 97.5 9.9E-05 2.2E-09 59.4 3.7 53 117-173 420-472 (489)
55 KOG0297 TNF receptor-associate 97.5 6.8E-05 1.5E-09 62.5 2.4 52 116-171 18-70 (391)
56 KOG3970 Predicted E3 ubiquitin 97.3 0.00025 5.3E-09 53.8 3.1 49 118-168 49-105 (299)
57 PF05883 Baculo_RING: Baculovi 97.3 0.00015 3.2E-09 50.9 1.7 40 118-158 25-70 (134)
58 COG5152 Uncharacterized conser 97.2 0.00019 4.1E-09 53.4 2.1 47 118-168 195-241 (259)
59 PF11789 zf-Nse: Zinc-finger o 97.2 0.00026 5.6E-09 42.6 1.8 41 118-162 10-53 (57)
60 PF12906 RINGv: RING-variant d 97.1 0.00028 6E-09 40.8 1.8 40 122-163 1-47 (47)
61 KOG1813 Predicted E3 ubiquitin 97.1 0.00021 4.5E-09 56.3 1.3 51 118-172 240-290 (313)
62 KOG1002 Nucleotide excision re 97.0 0.00032 6.9E-09 59.4 2.0 50 114-167 531-585 (791)
63 COG5236 Uncharacterized conser 97.0 0.00053 1.2E-08 55.2 3.2 66 111-180 53-120 (493)
64 KOG4275 Predicted E3 ubiquitin 97.0 0.00021 4.6E-09 56.1 0.5 43 119-169 300-343 (350)
65 KOG1428 Inhibitor of type V ad 97.0 0.0005 1.1E-08 64.3 2.6 57 114-171 3481-3547(3738)
66 PF14570 zf-RING_4: RING/Ubox 96.9 0.00095 2.1E-08 38.5 2.8 45 122-167 1-47 (48)
67 KOG2879 Predicted E3 ubiquitin 96.9 0.0011 2.3E-08 51.8 3.8 52 116-171 236-290 (298)
68 PHA02825 LAP/PHD finger-like p 96.9 0.0011 2.4E-08 47.7 3.2 49 116-169 5-60 (162)
69 PHA02862 5L protein; Provision 96.9 0.00071 1.5E-08 47.9 2.1 45 120-169 3-54 (156)
70 KOG2034 Vacuolar sorting prote 96.7 0.0041 9E-08 55.7 6.2 38 116-155 814-851 (911)
71 PF10367 Vps39_2: Vacuolar sor 96.7 0.0063 1.4E-07 41.1 5.8 33 117-151 76-108 (109)
72 KOG2660 Locus-specific chromos 96.7 0.00046 9.9E-09 55.2 -0.0 50 116-168 12-61 (331)
73 KOG1952 Transcription factor N 96.6 0.00094 2E-08 59.4 1.9 52 117-168 189-247 (950)
74 KOG1571 Predicted E3 ubiquitin 96.6 0.0029 6.2E-08 51.3 3.9 46 117-169 303-348 (355)
75 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0024 5.1E-08 50.5 3.3 63 115-178 109-171 (260)
76 KOG2114 Vacuolar assembly/sort 96.5 0.0036 7.9E-08 55.8 4.4 44 118-167 839-882 (933)
77 KOG3039 Uncharacterized conser 96.2 0.0033 7.1E-08 48.5 2.4 57 118-174 220-276 (303)
78 KOG1940 Zn-finger protein [Gen 96.2 0.0027 5.8E-08 50.2 1.9 45 121-165 160-204 (276)
79 KOG0826 Predicted E3 ubiquitin 96.2 0.019 4.2E-07 46.1 6.6 47 117-166 298-344 (357)
80 KOG4185 Predicted E3 ubiquitin 96.1 0.0036 7.7E-08 50.2 2.2 49 119-167 3-54 (296)
81 PHA03096 p28-like protein; Pro 96.1 0.0033 7E-08 50.2 1.8 36 120-155 179-218 (284)
82 KOG1814 Predicted E3 ubiquitin 96.0 0.014 3.1E-07 48.1 5.3 37 118-155 183-219 (445)
83 PF08746 zf-RING-like: RING-li 96.0 0.0047 1E-07 34.9 1.7 41 122-163 1-43 (43)
84 KOG3268 Predicted E3 ubiquitin 96.0 0.0041 8.8E-08 45.6 1.8 30 140-169 189-229 (234)
85 KOG0827 Predicted E3 ubiquitin 95.9 0.00067 1.4E-08 55.4 -2.9 53 117-170 194-247 (465)
86 COG5175 MOT2 Transcriptional r 95.9 0.0067 1.4E-07 48.9 2.7 54 118-171 13-67 (480)
87 KOG4739 Uncharacterized protei 95.7 0.0033 7.2E-08 48.3 0.5 48 122-173 6-53 (233)
88 PF10272 Tmpp129: Putative tra 95.7 0.033 7.2E-07 45.8 6.1 70 99-169 251-352 (358)
89 PF07800 DUF1644: Protein of u 95.5 0.01 2.2E-07 42.8 2.2 52 118-173 1-96 (162)
90 KOG1001 Helicase-like transcri 95.0 0.0089 1.9E-07 53.2 1.0 55 120-179 455-511 (674)
91 PF14447 Prok-RING_4: Prokaryo 95.0 0.011 2.4E-07 34.9 0.9 44 119-168 7-50 (55)
92 PF03854 zf-P11: P-11 zinc fin 94.9 0.01 2.2E-07 33.8 0.6 31 139-169 16-47 (50)
93 KOG0309 Conserved WD40 repeat- 94.6 0.019 4.2E-07 50.9 2.0 23 140-162 1047-1069(1081)
94 COG5222 Uncharacterized conser 94.6 0.043 9.4E-07 43.6 3.5 43 120-165 275-318 (427)
95 KOG0801 Predicted E3 ubiquitin 94.5 0.014 3E-07 42.3 0.6 30 117-147 175-204 (205)
96 PF14446 Prok-RING_1: Prokaryo 94.5 0.05 1.1E-06 32.1 2.8 41 118-162 4-44 (54)
97 KOG3002 Zn finger protein [Gen 94.4 0.02 4.3E-07 46.1 1.4 46 116-169 45-92 (299)
98 COG5183 SSM4 Protein involved 92.9 0.15 3.2E-06 45.9 4.1 53 117-171 10-69 (1175)
99 KOG3899 Uncharacterized conser 92.8 0.051 1.1E-06 43.1 1.2 32 141-172 325-369 (381)
100 KOG1100 Predicted E3 ubiquitin 92.4 0.047 1E-06 41.6 0.6 40 122-169 161-201 (207)
101 KOG1609 Protein involved in mR 92.3 0.11 2.3E-06 41.9 2.5 52 118-169 77-135 (323)
102 KOG0298 DEAD box-containing he 92.2 0.038 8.1E-07 51.8 -0.3 46 117-165 1151-1196(1394)
103 KOG2932 E3 ubiquitin ligase in 92.0 0.051 1.1E-06 43.4 0.3 48 119-171 90-137 (389)
104 KOG3800 Predicted E3 ubiquitin 91.7 0.16 3.5E-06 40.3 2.8 51 121-171 2-54 (300)
105 COG5220 TFB3 Cdk activating ki 91.4 0.071 1.5E-06 41.1 0.6 55 118-172 9-68 (314)
106 PF05290 Baculo_IE-1: Baculovi 91.3 3.6 7.7E-05 29.0 8.7 54 118-171 79-135 (140)
107 PF03376 Adeno_E3B: Adenovirus 91.1 1.4 3E-05 26.9 5.7 47 6-52 5-51 (67)
108 KOG3053 Uncharacterized conser 90.8 0.13 2.9E-06 40.1 1.5 54 114-167 15-81 (293)
109 KOG1812 Predicted E3 ubiquitin 90.7 0.11 2.4E-06 43.4 1.1 37 118-155 145-182 (384)
110 KOG4362 Transcriptional regula 89.1 0.11 2.4E-06 46.0 -0.2 48 118-169 20-70 (684)
111 KOG3161 Predicted E3 ubiquitin 88.7 0.16 3.5E-06 44.5 0.6 42 118-161 10-51 (861)
112 KOG2817 Predicted E3 ubiquitin 88.3 0.38 8.1E-06 39.9 2.4 45 118-163 333-380 (394)
113 PF13974 YebO: YebO-like prote 87.6 1.6 3.5E-05 27.9 4.5 22 37-58 9-30 (80)
114 PF05568 ASFV_J13L: African sw 87.5 1.5 3.2E-05 31.4 4.6 38 15-53 23-60 (189)
115 PF06716 DUF1201: Protein of u 86.2 2.9 6.2E-05 23.7 4.4 33 20-52 6-38 (54)
116 KOG0825 PHD Zn-finger protein 86.0 0.68 1.5E-05 41.8 2.8 57 114-170 91-156 (1134)
117 KOG3113 Uncharacterized conser 85.5 0.55 1.2E-05 36.6 1.8 60 117-178 109-168 (293)
118 PF12273 RCR: Chitin synthesis 84.8 0.93 2E-05 31.8 2.6 8 47-54 21-28 (130)
119 KOG0269 WD40 repeat-containing 83.9 0.7 1.5E-05 41.4 2.0 41 120-162 780-820 (839)
120 KOG2068 MOT2 transcription fac 83.4 1.1 2.3E-05 36.4 2.7 57 118-174 248-304 (327)
121 PRK13454 F0F1 ATP synthase sub 83.1 5 0.00011 29.9 6.1 19 46-64 53-71 (181)
122 KOG2066 Vacuolar assembly/sort 83.1 0.4 8.7E-06 43.0 0.2 45 118-163 783-830 (846)
123 PF07010 Endomucin: Endomucin; 82.2 3.6 7.8E-05 31.7 4.9 25 22-46 190-214 (259)
124 KOG4367 Predicted Zn-finger pr 82.1 0.67 1.5E-05 39.0 1.1 35 117-155 2-36 (699)
125 PF15102 TMEM154: TMEM154 prot 81.8 0.15 3.3E-06 36.4 -2.3 21 22-42 58-78 (146)
126 PF06143 Baculo_11_kDa: Baculo 81.2 12 0.00026 24.2 6.7 6 26-31 39-44 (84)
127 PF13901 DUF4206: Domain of un 79.9 1.3 2.9E-05 33.6 2.0 41 118-164 151-196 (202)
128 PF07975 C1_4: TFIIH C1-like d 79.8 1.2 2.6E-05 26.0 1.3 42 122-163 2-49 (51)
129 KOG0802 E3 ubiquitin ligase [P 78.9 1.4 3E-05 38.6 2.1 52 116-175 476-527 (543)
130 KOG3039 Uncharacterized conser 78.4 2 4.3E-05 33.5 2.5 39 113-155 37-75 (303)
131 KOG1829 Uncharacterized conser 78.2 0.82 1.8E-05 40.1 0.5 42 118-163 510-556 (580)
132 PTZ00370 STEVOR; Provisional 78.0 3.9 8.5E-05 32.7 4.1 28 21-48 253-280 (296)
133 PRK14473 F0F1 ATP synthase sub 76.3 16 0.00034 26.6 6.8 26 42-67 26-51 (164)
134 PRK13453 F0F1 ATP synthase sub 75.7 16 0.00035 26.9 6.8 8 53-60 47-54 (173)
135 PF14569 zf-UDP: Zinc-binding 75.7 7 0.00015 24.9 4.0 60 118-177 8-72 (80)
136 KOG1819 FYVE finger-containing 74.8 2.6 5.6E-05 36.3 2.5 34 117-150 899-932 (990)
137 PF06024 DUF912: Nucleopolyhed 74.7 0.47 1E-05 31.9 -1.5 16 29-44 70-85 (101)
138 PF02891 zf-MIZ: MIZ/SP-RING z 74.7 3.3 7.1E-05 24.0 2.2 42 121-166 4-50 (50)
139 COG3630 OadG Na+-transporting 74.4 15 0.00032 23.8 5.3 35 14-48 4-38 (84)
140 PRK14471 F0F1 ATP synthase sub 74.2 18 0.0004 26.2 6.7 20 46-65 30-49 (164)
141 PF06844 DUF1244: Protein of u 74.1 2 4.4E-05 26.3 1.3 12 144-155 11-22 (68)
142 KOG3842 Adaptor protein Pellin 73.7 4.1 8.8E-05 33.0 3.2 51 117-167 339-413 (429)
143 PF11023 DUF2614: Protein of u 73.7 15 0.00033 25.1 5.5 28 138-171 72-99 (114)
144 PF10571 UPF0547: Uncharacteri 73.7 2.1 4.6E-05 21.2 1.1 23 121-145 2-24 (26)
145 KOG4718 Non-SMC (structural ma 73.6 1.7 3.7E-05 33.1 1.0 44 118-164 180-223 (235)
146 COG3771 Predicted membrane pro 73.3 23 0.00049 23.1 6.0 31 33-63 54-84 (97)
147 smart00249 PHD PHD zinc finger 73.0 2.6 5.6E-05 23.0 1.5 30 122-152 2-31 (47)
148 PF04277 OAD_gamma: Oxaloaceta 72.5 12 0.00025 23.6 4.7 26 23-48 7-32 (79)
149 PF01363 FYVE: FYVE zinc finge 72.2 1.5 3.2E-05 26.9 0.4 37 118-154 8-44 (69)
150 PF02439 Adeno_E3_CR2: Adenovi 71.9 11 0.00023 20.5 3.6 25 27-51 8-32 (38)
151 TIGR00622 ssl1 transcription f 71.6 4.9 0.00011 27.5 2.8 46 119-164 55-110 (112)
152 KOG1815 Predicted E3 ubiquitin 71.6 2.8 6.2E-05 35.7 2.1 37 117-156 68-104 (444)
153 COG4741 Predicted secreted end 71.4 18 0.0004 26.2 5.7 33 34-66 12-44 (175)
154 PLN02638 cellulose synthase A 71.2 4.5 9.7E-05 38.1 3.3 61 118-178 16-81 (1079)
155 PRK05759 F0F1 ATP synthase sub 71.1 16 0.00034 26.2 5.7 18 44-61 24-41 (156)
156 PF15050 SCIMP: SCIMP protein 71.0 10 0.00022 26.2 4.2 16 27-42 16-31 (133)
157 PRK13461 F0F1 ATP synthase sub 70.9 26 0.00056 25.3 6.8 6 54-59 35-40 (159)
158 KOG3005 GIY-YIG type nuclease 70.8 2.6 5.5E-05 33.3 1.5 49 119-167 182-242 (276)
159 TIGR01195 oadG_fam sodium pump 70.0 21 0.00045 23.0 5.4 29 21-49 8-36 (82)
160 PF00412 LIM: LIM domain; Int 68.8 3.6 7.8E-05 24.0 1.6 40 122-171 1-40 (58)
161 cd00065 FYVE FYVE domain; Zinc 68.8 4.4 9.6E-05 23.6 2.0 35 120-154 3-37 (57)
162 PRK06231 F0F1 ATP synthase sub 68.6 29 0.00062 26.4 6.8 33 35-67 59-91 (205)
163 KOG1812 Predicted E3 ubiquitin 68.4 2.6 5.7E-05 35.3 1.2 45 118-163 305-351 (384)
164 PF06143 Baculo_11_kDa: Baculo 68.3 30 0.00064 22.4 6.7 19 14-32 31-49 (84)
165 PRK13460 F0F1 ATP synthase sub 67.8 31 0.00066 25.3 6.7 6 3-8 3-8 (173)
166 PF00628 PHD: PHD-finger; Int 67.4 3.1 6.6E-05 23.7 1.0 43 122-165 2-50 (51)
167 COG5415 Predicted integral mem 67.1 21 0.00046 27.3 5.6 27 141-167 195-224 (251)
168 smart00132 LIM Zinc-binding do 67.0 4.6 0.0001 21.1 1.7 36 122-167 2-37 (39)
169 PLN02189 cellulose synthase 66.4 8.5 0.00018 36.2 4.1 60 118-177 33-97 (1040)
170 PF05545 FixQ: Cbb3-type cytoc 66.1 12 0.00026 21.4 3.4 14 36-49 21-34 (49)
171 PF07010 Endomucin: Endomucin; 66.0 11 0.00025 29.0 4.0 40 5-44 178-217 (259)
172 COG5109 Uncharacterized conser 64.6 5.1 0.00011 32.5 2.1 45 118-163 335-382 (396)
173 CHL00118 atpG ATP synthase CF0 64.4 34 0.00073 24.6 6.3 13 52-64 50-62 (156)
174 PRK07352 F0F1 ATP synthase sub 64.4 34 0.00075 25.0 6.4 9 53-61 48-56 (174)
175 smart00064 FYVE Protein presen 63.2 9.1 0.0002 23.2 2.7 38 118-155 9-46 (68)
176 PF13719 zinc_ribbon_5: zinc-r 63.0 4.2 9.1E-05 21.9 1.0 26 121-146 4-36 (37)
177 PF06906 DUF1272: Protein of u 62.4 13 0.00027 22.1 2.9 46 121-171 7-55 (57)
178 PRK08476 F0F1 ATP synthase sub 62.2 51 0.0011 23.4 6.7 13 52-64 35-47 (141)
179 PF00558 Vpu: Vpu protein; In 61.1 14 0.00031 23.7 3.3 16 35-50 16-31 (81)
180 PF04277 OAD_gamma: Oxaloaceta 60.6 32 0.00069 21.5 5.0 28 22-49 9-36 (79)
181 PF07423 DUF1510: Protein of u 60.3 8.3 0.00018 29.7 2.5 11 24-34 17-27 (217)
182 KOG4185 Predicted E3 ubiquitin 59.4 1.6 3.5E-05 34.9 -1.6 49 118-166 206-265 (296)
183 CHL00019 atpF ATP synthase CF0 59.4 46 0.001 24.6 6.4 17 47-63 47-63 (184)
184 PF15102 TMEM154: TMEM154 prot 58.9 1.7 3.7E-05 31.1 -1.3 8 18-25 58-65 (146)
185 PF01102 Glycophorin_A: Glycop 58.9 18 0.00039 25.2 3.7 16 26-41 73-88 (122)
186 PF14979 TMEM52: Transmembrane 58.6 30 0.00065 24.9 4.8 36 7-42 7-43 (154)
187 PLN02400 cellulose synthase 57.6 10 0.00023 35.8 3.1 61 118-178 35-100 (1085)
188 PF11084 DUF2621: Protein of u 57.6 26 0.00056 24.6 4.3 29 28-56 11-39 (141)
189 PF10828 DUF2570: Protein of u 56.7 59 0.0013 22.0 7.0 10 51-60 28-37 (110)
190 PF04423 Rad50_zn_hook: Rad50 56.7 4.7 0.0001 23.5 0.5 12 158-169 21-32 (54)
191 PF15145 DUF4577: Domain of un 56.2 40 0.00086 23.1 4.9 11 21-31 63-73 (128)
192 PF05568 ASFV_J13L: African sw 55.5 31 0.00067 24.8 4.5 12 41-52 44-55 (189)
193 PF13198 DUF4014: Protein of u 55.4 49 0.0011 20.6 5.6 21 19-39 21-41 (72)
194 PF04710 Pellino: Pellino; In 55.4 3.9 8.5E-05 34.1 0.0 51 118-168 327-401 (416)
195 PLN02436 cellulose synthase A 55.1 18 0.00038 34.4 4.1 60 118-177 35-99 (1094)
196 PF13717 zinc_ribbon_4: zinc-r 55.1 5.5 0.00012 21.3 0.6 26 121-146 4-36 (36)
197 TIGR00847 ccoS cytochrome oxid 54.7 25 0.00053 20.5 3.3 19 31-49 13-31 (51)
198 PF07649 C1_3: C1-like domain; 54.6 10 0.00022 19.1 1.5 29 121-150 2-30 (30)
199 PF13974 YebO: YebO-like prote 54.2 38 0.00082 21.7 4.3 27 29-55 5-31 (80)
200 KOG0824 Predicted E3 ubiquitin 52.9 9.3 0.0002 30.8 1.7 49 117-168 103-151 (324)
201 PLN02915 cellulose synthase A 52.6 23 0.00049 33.6 4.3 61 118-178 14-79 (1044)
202 TIGR01477 RIFIN variant surfac 52.3 28 0.00061 28.8 4.4 25 25-49 317-341 (353)
203 PRK14750 kdpF potassium-transp 52.0 31 0.00068 17.4 3.1 14 29-42 8-21 (29)
204 KOG2231 Predicted E3 ubiquitin 51.9 15 0.00033 32.9 3.1 52 121-176 2-60 (669)
205 PTZ00046 rifin; Provisional 51.8 29 0.00062 28.8 4.4 25 25-49 322-346 (358)
206 PF15330 SIT: SHP2-interacting 51.5 27 0.00058 23.7 3.6 19 28-46 7-25 (107)
207 TIGR01144 ATP_synt_b ATP synth 51.0 55 0.0012 23.0 5.5 7 54-60 25-31 (147)
208 smart00647 IBR In Between Ring 50.3 3.9 8.4E-05 24.3 -0.6 19 136-154 41-59 (64)
209 PF03597 CcoS: Cytochrome oxid 49.8 28 0.0006 19.7 2.9 17 30-46 11-27 (45)
210 PF14584 DUF4446: Protein of u 49.7 44 0.00095 24.2 4.7 14 117-130 95-108 (151)
211 PRK03814 oxaloacetate decarbox 48.2 74 0.0016 20.6 5.2 29 21-49 12-40 (85)
212 COG3813 Uncharacterized protei 48.1 20 0.00044 22.4 2.3 45 122-170 8-54 (84)
213 KOG4577 Transcription factor L 47.4 5.3 0.00011 32.0 -0.4 40 118-167 91-130 (383)
214 COG3492 Uncharacterized protei 47.2 9.9 0.00022 24.9 0.9 12 144-155 42-53 (104)
215 PF05399 EVI2A: Ectropic viral 46.3 61 0.0013 24.9 5.0 21 16-36 128-148 (227)
216 TIGR01478 STEVOR variant surfa 45.8 28 0.00062 27.9 3.4 7 44-50 278-284 (295)
217 PLN02248 cellulose synthase-li 45.4 48 0.001 31.8 5.2 36 140-175 149-184 (1135)
218 COG1704 LemA Uncharacterized c 45.1 1E+02 0.0022 23.1 6.0 10 63-72 36-45 (185)
219 PRK14748 kdpF potassium-transp 45.0 43 0.00092 16.9 3.2 17 27-43 6-22 (29)
220 CHL00019 atpF ATP synthase CF0 45.0 73 0.0016 23.6 5.5 14 32-45 36-49 (184)
221 PF14311 DUF4379: Domain of un 44.9 12 0.00027 21.8 1.0 23 140-163 33-55 (55)
222 KOG2807 RNA polymerase II tran 44.5 17 0.00037 29.7 2.0 47 118-165 329-375 (378)
223 PF15353 HECA: Headcase protei 44.5 14 0.00031 24.9 1.3 14 140-153 39-52 (107)
224 PF06750 DiS_P_DiS: Bacterial 44.3 12 0.00026 24.6 1.0 39 118-169 32-70 (92)
225 COG5416 Uncharacterized integr 44.0 72 0.0016 21.2 4.5 42 8-49 44-85 (98)
226 PF05399 EVI2A: Ectropic viral 43.6 73 0.0016 24.5 5.1 28 19-46 128-155 (227)
227 cd00350 rubredoxin_like Rubred 43.2 14 0.0003 19.2 0.9 20 140-165 6-25 (33)
228 PF04216 FdhE: Protein involve 43.0 8.3 0.00018 30.9 0.1 48 117-164 170-218 (290)
229 KOG2113 Predicted RNA binding 42.9 16 0.00035 29.7 1.6 47 114-166 338-385 (394)
230 PF07191 zinc-ribbons_6: zinc- 42.8 2.8 6E-05 26.2 -2.0 41 120-169 2-42 (70)
231 PF14169 YdjO: Cold-inducible 42.0 11 0.00024 22.7 0.5 18 152-169 28-51 (59)
232 PF04281 Tom22: Mitochondrial 41.8 1E+02 0.0022 22.0 5.4 16 16-31 92-107 (137)
233 PF10577 UPF0560: Uncharacteri 41.7 20 0.00044 32.8 2.3 26 21-46 274-299 (807)
234 PF02318 FYVE_2: FYVE-type zin 41.6 18 0.00039 24.8 1.6 47 118-165 53-102 (118)
235 PF10661 EssA: WXG100 protein 41.5 59 0.0013 23.3 4.3 8 35-42 130-137 (145)
236 TIGR00985 3a0801s04tom mitocho 40.8 1.4E+02 0.003 21.6 6.4 23 27-49 11-33 (148)
237 PF10497 zf-4CXXC_R1: Zinc-fin 40.7 40 0.00087 22.7 3.1 24 142-165 37-69 (105)
238 KOG1701 Focal adhesion adaptor 40.3 4.1 9E-05 34.3 -2.0 39 122-172 337-375 (468)
239 PF02158 Neuregulin: Neureguli 40.3 9.4 0.0002 31.8 0.0 31 30-60 17-48 (404)
240 PF13748 ABC_membrane_3: ABC t 39.9 1.8E+02 0.004 22.7 7.1 9 41-49 154-162 (237)
241 PF06160 EzrA: Septation ring 38.7 40 0.00087 29.8 3.6 9 44-52 18-26 (560)
242 COG5627 MMS21 DNA repair prote 38.6 17 0.00037 28.3 1.2 42 118-162 188-231 (275)
243 PHA03099 epidermal growth fact 38.3 31 0.00067 24.3 2.3 7 43-49 120-126 (139)
244 PF10083 DUF2321: Uncharacteri 38.2 13 0.00028 27.0 0.5 45 123-170 8-52 (158)
245 PF15176 LRR19-TM: Leucine-ric 38.1 58 0.0013 21.8 3.5 16 16-31 14-29 (102)
246 PF07271 Cytadhesin_P30: Cytad 38.0 99 0.0021 24.6 5.3 10 50-59 99-108 (279)
247 KOG3799 Rab3 effector RIM1 and 37.1 74 0.0016 22.6 4.0 12 117-128 63-74 (169)
248 PF09451 ATG27: Autophagy-rela 36.9 25 0.00055 27.8 2.0 17 17-33 198-214 (268)
249 KOG0956 PHD finger protein AF1 36.9 17 0.00037 32.7 1.0 50 118-167 116-181 (900)
250 KOG3579 Predicted E3 ubiquitin 36.8 14 0.00031 29.6 0.5 36 118-157 267-306 (352)
251 PRK09731 putative general secr 36.6 1.8E+02 0.0039 21.7 7.1 7 148-154 137-143 (178)
252 KOG4671 Brain cell membrane pr 36.5 1.2E+02 0.0026 22.8 5.2 23 6-28 67-89 (201)
253 PF05191 ADK_lid: Adenylate ki 36.4 17 0.00037 19.4 0.6 30 137-168 3-32 (36)
254 PF05605 zf-Di19: Drought indu 36.3 16 0.00034 21.2 0.5 37 119-166 2-40 (54)
255 PF02723 NS3_envE: Non-structu 36.2 1.1E+02 0.0023 19.8 4.4 10 13-22 9-18 (82)
256 PF15179 Myc_target_1: Myc tar 35.6 70 0.0015 24.0 3.9 15 32-46 33-47 (197)
257 PF06365 CD34_antigen: CD34/Po 35.5 23 0.00049 27.0 1.4 14 32-45 112-125 (202)
258 PF09723 Zn-ribbon_8: Zinc rib 35.0 6.9 0.00015 21.6 -1.1 26 139-165 9-34 (42)
259 PRK11380 hypothetical protein; 34.9 1.1E+02 0.0024 25.3 5.3 16 31-46 80-95 (353)
260 PF05337 CSF-1: Macrophage col 34.3 13 0.00029 29.5 0.0 30 17-46 222-251 (285)
261 KOG4111 Translocase of outer m 34.2 1.3E+02 0.0028 21.3 4.9 7 18-24 85-91 (136)
262 PF09835 DUF2062: Uncharacteri 34.1 1.6E+02 0.0035 20.9 5.7 13 38-50 135-147 (154)
263 PF14770 TMEM18: Transmembrane 33.8 1.3E+02 0.0027 21.0 4.8 24 21-44 86-109 (123)
264 PF06796 NapE: Periplasmic nit 33.7 1.1E+02 0.0023 18.2 5.0 29 16-44 18-46 (56)
265 PF03908 Sec20: Sec20; InterP 33.5 60 0.0013 21.1 3.1 8 38-45 81-88 (92)
266 COG4357 Zinc finger domain con 33.0 28 0.0006 23.1 1.3 29 141-170 65-93 (105)
267 PF03229 Alpha_GJ: Alphavirus 33.0 1.5E+02 0.0033 20.5 4.9 19 21-39 84-102 (126)
268 PRK02919 oxaloacetate decarbox 33.0 1.4E+02 0.0029 19.2 5.3 10 25-34 15-24 (82)
269 KOG1538 Uncharacterized conser 32.8 16 0.00034 33.0 0.2 30 138-167 1047-1076(1081)
270 PF00430 ATP-synt_B: ATP synth 32.4 1.6E+02 0.0035 19.9 6.6 12 38-49 13-24 (132)
271 PTZ00370 STEVOR; Provisional 31.9 85 0.0018 25.3 4.1 22 28-49 257-278 (296)
272 KOG1512 PHD Zn-finger protein 31.8 18 0.00039 29.0 0.3 33 118-151 313-345 (381)
273 PF13832 zf-HC5HC2H_2: PHD-zin 31.8 51 0.0011 22.0 2.6 34 118-152 54-87 (110)
274 PF03107 C1_2: C1 domain; Int 31.7 23 0.0005 17.8 0.7 28 121-149 2-29 (30)
275 cd01324 cbb3_Oxidase_CcoQ Cyto 31.7 82 0.0018 18.0 3.0 15 36-50 22-36 (48)
276 PF05454 DAG1: Dystroglycan (D 31.7 16 0.00034 29.5 0.0 27 22-48 146-172 (290)
277 PHA03163 hypothetical protein; 31.6 1.5E+02 0.0033 19.4 5.4 27 21-47 58-84 (92)
278 PF03563 Bunya_G2: Bunyavirus 31.2 60 0.0013 25.8 3.1 40 121-163 236-275 (285)
279 PF02060 ISK_Channel: Slow vol 31.2 86 0.0019 22.0 3.6 7 41-47 63-69 (129)
280 TIGR03546 conserved hypothetic 31.2 2.1E+02 0.0045 20.8 6.3 22 37-58 123-144 (154)
281 PF02937 COX6C: Cytochrome c o 31.0 1.4E+02 0.003 18.7 5.1 32 11-42 7-38 (73)
282 PF14276 DUF4363: Domain of un 30.8 1.7E+02 0.0038 19.8 5.3 17 50-66 25-41 (121)
283 smart00531 TFIIE Transcription 30.7 44 0.00096 23.8 2.2 13 157-169 123-135 (147)
284 PF05434 Tmemb_9: TMEM9; Inte 30.6 15 0.00032 26.5 -0.3 8 38-45 70-77 (149)
285 PF07406 NICE-3: NICE-3 protei 30.5 27 0.00059 26.2 1.1 17 145-161 124-142 (186)
286 PF07282 OrfB_Zn_ribbon: Putat 30.3 39 0.00084 20.5 1.6 33 118-150 27-61 (69)
287 PF02060 ISK_Channel: Slow vol 30.3 1.1E+02 0.0023 21.5 3.9 25 31-55 49-73 (129)
288 KOG1729 FYVE finger containing 30.3 11 0.00023 30.4 -1.2 39 118-157 213-251 (288)
289 TIGR01562 FdhE formate dehydro 30.1 16 0.00034 29.7 -0.2 47 118-165 183-232 (305)
290 PF05510 Sarcoglycan_2: Sarcog 30.0 47 0.001 27.9 2.5 27 21-47 285-311 (386)
291 PRK04023 DNA polymerase II lar 29.7 27 0.00058 33.0 1.1 52 113-170 620-676 (1121)
292 PRK11486 flagellar biosynthesi 29.4 1.6E+02 0.0035 20.6 4.7 6 42-47 36-41 (124)
293 COG4537 ComGC Competence prote 29.3 56 0.0012 22.0 2.3 16 14-29 12-27 (107)
294 PF10146 zf-C4H2: Zinc finger- 29.2 39 0.00084 26.3 1.8 24 145-168 196-219 (230)
295 PF14991 MLANA: Protein melan- 29.0 11 0.00024 25.8 -1.1 17 30-46 33-49 (118)
296 PF06937 EURL: EURL protein; 28.9 48 0.001 26.4 2.2 45 118-162 29-75 (285)
297 KOG3653 Transforming growth fa 28.8 61 0.0013 28.2 3.0 12 146-157 291-302 (534)
298 PRK05978 hypothetical protein; 28.3 39 0.00085 24.4 1.6 27 138-169 36-64 (148)
299 PRK09173 F0F1 ATP synthase sub 28.0 2.3E+02 0.0049 20.3 7.5 6 55-60 33-38 (159)
300 PF05715 zf-piccolo: Piccolo Z 28.0 26 0.00057 21.0 0.5 11 157-167 2-12 (61)
301 TIGR02972 TMAO_torE trimethyla 27.8 1.3E+02 0.0027 17.2 5.0 29 16-44 10-38 (47)
302 KOG2789 Putative Zn-finger pro 27.7 23 0.0005 29.7 0.4 34 118-153 73-106 (482)
303 PF03554 Herpes_UL73: UL73 vir 27.5 1.8E+02 0.0038 18.8 4.5 26 22-47 50-75 (82)
304 PLN02195 cellulose synthase A 27.5 73 0.0016 30.2 3.5 51 118-168 5-59 (977)
305 PF15176 LRR19-TM: Leucine-ric 27.4 2E+02 0.0043 19.4 5.5 32 19-50 20-51 (102)
306 PF13120 DUF3974: Domain of un 27.4 69 0.0015 21.3 2.5 22 27-48 10-31 (126)
307 PF06809 NPDC1: Neural prolife 27.3 54 0.0012 26.8 2.3 7 117-123 301-307 (341)
308 TIGR03147 cyt_nit_nrfF cytochr 27.2 1.4E+02 0.003 21.0 4.1 21 11-31 95-115 (126)
309 PF07423 DUF1510: Protein of u 27.1 60 0.0013 25.0 2.5 20 26-45 16-35 (217)
310 TIGR01432 QOXA cytochrome aa3 27.0 2.1E+02 0.0046 21.8 5.6 9 141-149 146-154 (217)
311 COG5415 Predicted integral mem 26.7 3E+02 0.0065 21.2 7.2 9 118-126 191-199 (251)
312 PRK01343 zinc-binding protein; 26.6 36 0.00079 20.3 1.0 8 159-166 11-18 (57)
313 PRK03564 formate dehydrogenase 26.2 23 0.0005 28.8 0.1 47 118-165 186-234 (309)
314 PHA03156 hypothetical protein; 25.9 2E+02 0.0043 18.8 5.3 34 14-47 49-83 (90)
315 PF04612 T2SM: Type II secreti 25.8 23 0.00049 25.4 0.0 8 148-155 119-126 (160)
316 PHA03286 envelope glycoprotein 25.7 1E+02 0.0022 26.6 3.7 11 152-164 476-486 (492)
317 TIGR02523 type_IV_pilV type IV 25.7 2.5E+02 0.0054 19.9 5.3 22 15-36 3-24 (139)
318 PF01485 IBR: IBR domain; Int 25.6 14 0.00031 21.7 -1.0 33 121-153 20-58 (64)
319 COG4987 CydC ABC-type transpor 25.6 4.9E+02 0.011 23.3 8.1 19 38-56 175-193 (573)
320 PRK10506 hypothetical protein; 25.3 2.6E+02 0.0057 20.1 6.3 19 12-30 7-25 (162)
321 PF14017 DUF4233: Protein of u 25.3 2.2E+02 0.0048 19.2 6.1 15 41-55 88-102 (107)
322 PRK13707 conjugal transfer pil 25.3 1.7E+02 0.0037 19.5 4.2 32 11-42 25-56 (101)
323 COG3322 Predicted periplasmic 25.3 3.7E+02 0.0081 21.8 7.9 18 50-67 44-61 (295)
324 smart00734 ZnF_Rad18 Rad18-lik 25.0 29 0.00062 17.0 0.3 10 158-167 2-11 (26)
325 PF06637 PV-1: PV-1 protein (P 24.9 1.9E+02 0.0041 24.4 5.1 6 2-7 2-7 (442)
326 COG4847 Uncharacterized protei 24.7 70 0.0015 21.2 2.1 37 118-156 5-41 (103)
327 COG3167 PilO Tfp pilus assembl 24.6 3.2E+02 0.0069 20.8 6.1 8 38-45 36-43 (211)
328 TIGR01708 typeII_sec_gspH gene 24.5 2.5E+02 0.0054 19.5 6.5 21 13-33 3-23 (143)
329 KOG2041 WD40 repeat protein [G 24.4 3.6E+02 0.0079 25.1 7.0 46 118-167 1130-1184(1189)
330 COG1622 CyoA Heme/copper-type 24.4 1.4E+02 0.0031 23.4 4.2 13 149-161 215-227 (247)
331 TIGR00686 phnA alkylphosphonat 24.3 42 0.00091 22.8 1.0 23 121-143 4-27 (109)
332 PF06679 DUF1180: Protein of u 24.3 79 0.0017 23.2 2.6 12 38-49 106-117 (163)
333 KOG1244 Predicted transcriptio 24.2 17 0.00037 28.9 -0.9 50 118-168 280-333 (336)
334 KOG4451 Uncharacterized conser 24.1 52 0.0011 25.6 1.6 23 146-168 252-274 (286)
335 PF01708 Gemini_mov: Geminivir 24.1 37 0.00081 22.2 0.8 6 11-16 27-32 (91)
336 PF09237 GAGA: GAGA factor; I 24.1 27 0.00059 20.4 0.1 9 159-167 26-34 (54)
337 PRK04778 septation ring format 23.6 2.1E+02 0.0046 25.3 5.6 14 48-61 22-35 (569)
338 PF15361 RIC3: Resistance to i 23.6 1.4E+02 0.0031 21.5 3.8 28 15-45 78-105 (152)
339 PF13268 DUF4059: Protein of u 23.5 2E+02 0.0043 18.0 5.7 10 27-36 14-23 (72)
340 KOG2979 Protein involved in DN 23.1 49 0.0011 26.1 1.4 42 119-163 176-219 (262)
341 PF10003 DUF2244: Integral mem 22.9 2.8E+02 0.006 19.5 5.2 23 6-28 2-24 (140)
342 PF14654 Epiglycanin_C: Mucin, 22.8 1.8E+02 0.0039 19.4 3.8 19 26-44 24-42 (106)
343 COG4477 EzrA Negative regulato 22.8 1.6E+02 0.0034 26.1 4.4 11 44-54 21-31 (570)
344 PTZ00208 65 kDa invariant surf 22.7 73 0.0016 26.9 2.3 18 30-47 394-411 (436)
345 COG1545 Predicted nucleic-acid 22.6 36 0.00077 24.2 0.5 22 138-167 32-53 (140)
346 KOG4323 Polycomb-like PHD Zn-f 22.6 34 0.00073 29.4 0.4 50 118-167 167-225 (464)
347 PRK11827 hypothetical protein; 22.5 24 0.00052 21.3 -0.3 18 152-169 3-20 (60)
348 TIGR02973 nitrate_rd_NapE peri 22.5 1.6E+02 0.0034 16.4 5.0 33 14-46 3-35 (42)
349 PRK11462 putative transporter; 22.4 2.6E+02 0.0057 23.7 5.8 59 20-78 402-460 (460)
350 PF08196 UL2: UL2 protein; In 22.4 1.7E+02 0.0037 17.1 3.1 28 11-38 28-55 (60)
351 PF00672 HAMP: HAMP domain; I 22.3 1.4E+02 0.003 17.5 3.1 29 27-55 1-29 (70)
352 PF01299 Lamp: Lysosome-associ 22.3 69 0.0015 25.8 2.1 31 25-55 271-301 (306)
353 COG1422 Predicted membrane pro 22.2 2.6E+02 0.0056 21.3 5.0 62 24-85 48-109 (201)
354 COG2268 Uncharacterized protei 22.0 1.2E+02 0.0027 26.8 3.7 27 13-39 4-30 (548)
355 PF15099 PIRT: Phosphoinositid 22.0 1.1E+02 0.0024 21.4 2.8 39 19-57 79-117 (129)
356 PF01277 Oleosin: Oleosin; In 21.9 2.8E+02 0.0061 19.2 5.7 67 18-84 39-117 (118)
357 PF15086 UPF0542: Uncharacteri 21.9 2.2E+02 0.0047 17.9 6.1 45 24-68 19-63 (74)
358 PF13240 zinc_ribbon_2: zinc-r 21.8 13 0.00029 17.7 -1.3 23 145-167 1-23 (23)
359 COG3462 Predicted membrane pro 21.7 1.7E+02 0.0038 19.9 3.6 68 13-83 43-110 (117)
360 KOG3269 Predicted membrane pro 21.6 3.5E+02 0.0076 20.2 6.9 71 5-75 86-170 (180)
361 PF04375 HemX: HemX; InterPro 21.5 3.8E+02 0.0083 22.3 6.5 49 24-72 29-77 (372)
362 PF00664 ABC_membrane: ABC tra 21.5 3.4E+02 0.0073 19.9 6.4 55 15-69 131-185 (275)
363 PF10873 DUF2668: Protein of u 21.5 62 0.0013 23.3 1.5 38 4-41 42-86 (155)
364 PF13453 zf-TFIIB: Transcripti 21.4 28 0.00061 18.9 -0.2 17 160-176 2-18 (41)
365 PHA03099 epidermal growth fact 21.2 93 0.002 21.9 2.3 35 20-54 100-134 (139)
366 KOG4021 Mitochondrial ribosoma 21.2 45 0.00097 25.2 0.8 29 147-175 97-126 (239)
367 TIGR03141 cytochro_ccmD heme e 21.1 1.7E+02 0.0036 16.3 4.9 40 22-61 6-45 (45)
368 KOG1094 Discoidin domain recep 20.9 1.3E+02 0.0028 27.2 3.6 28 25-52 392-419 (807)
369 PRK10144 formate-dependent nit 20.9 2.1E+02 0.0046 20.0 4.1 29 11-39 95-123 (126)
370 PF03884 DUF329: Domain of unk 20.9 48 0.001 19.8 0.7 19 159-177 4-22 (57)
371 PF14914 LRRC37AB_C: LRRC37A/B 20.7 1.1E+02 0.0025 22.0 2.7 34 26-59 121-154 (154)
372 PF07835 COX4_pro_2: Bacterial 20.6 1.6E+02 0.0036 16.4 2.8 27 16-42 18-44 (44)
373 KOG3927 Na+/K+ ATPase, beta su 20.6 2.1E+02 0.0045 23.3 4.5 34 19-52 44-77 (300)
374 PRK09731 putative general secr 20.6 3.7E+02 0.008 20.0 6.3 46 28-73 39-84 (178)
375 PRK13130 H/ACA RNA-protein com 20.6 73 0.0016 18.9 1.5 23 157-179 17-39 (56)
376 KOG4443 Putative transcription 20.5 54 0.0012 29.5 1.2 25 141-165 41-70 (694)
377 PF05297 Herpes_LMP1: Herpesvi 20.5 34 0.00073 27.6 0.0 47 7-53 15-76 (381)
378 PF15179 Myc_target_1: Myc tar 20.5 3.1E+02 0.0067 20.6 5.0 45 8-52 5-50 (197)
379 KOG4550 Predicted membrane pro 20.3 1.7E+02 0.0037 25.2 4.0 41 21-61 560-600 (606)
380 KOG3726 Uncharacterized conser 20.3 53 0.0012 29.6 1.2 40 121-163 656-695 (717)
381 PF03119 DNA_ligase_ZBD: NAD-d 20.2 45 0.00097 16.6 0.4 13 159-171 1-13 (28)
382 PF13584 BatD: Oxygen toleranc 20.0 3.2E+02 0.0069 23.4 5.9 62 19-80 422-483 (484)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=1.3e-17 Score=133.46 Aligned_cols=58 Identities=34% Similarity=0.891 Sum_probs=48.9
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCC-cccccccccccccCCCCCCC
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS-TCPLCRGRVRRIAWPSVTTA 178 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~-~CP~Cr~~~~~~~~~~~~~~ 178 (184)
..|+||+|+|..||+++++ ||+|.||..||++|+.+++ .||+||+++....-.....+
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e 288 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSE 288 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccC
Confidence 5899999999999999997 5999999999999997765 59999998866554444444
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=99.61 E-value=2.4e-16 Score=90.81 Aligned_cols=43 Identities=47% Similarity=1.263 Sum_probs=38.6
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
+|+||++.+..++.+..+ +|||.||.+||.+|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence 699999999988887766 5999999999999999999999997
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=99.43 E-value=1e-13 Score=88.32 Aligned_cols=46 Identities=46% Similarity=1.018 Sum_probs=35.4
Q ss_pred CccCcccccccccC--------C-cceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 119 TSTCVICLGEFRDG--------D-ECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 119 ~~~C~ICl~~~~~~--------~-~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
+..|+||++.+... + -.....+|||.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44599999999321 1 2223457999999999999999999999997
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.42 E-value=1.2e-13 Score=106.15 Aligned_cols=55 Identities=35% Similarity=0.830 Sum_probs=45.4
Q ss_pred CCCccCcccccccccCC----cceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 117 NKTSTCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
..+.+|+||++.+...+ .+.++++|+|.||.+||.+|++.+.+||+||.++....
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEe
Confidence 35789999999986543 23466789999999999999999999999999886543
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=1.4e-12 Score=103.96 Aligned_cols=51 Identities=43% Similarity=1.030 Sum_probs=42.8
Q ss_pred CCCccCcccccc-cccC--------CcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 117 NKTSTCVICLGE-FRDG--------DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 117 ~~~~~C~ICl~~-~~~~--------~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
+++..|.||+++ +..+ ++.+..+||||++|-+|++.|++++.+||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 478899999999 5444 23445568999999999999999999999999984
No 6
>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=99.30 E-value=1.6e-12 Score=76.84 Aligned_cols=47 Identities=32% Similarity=0.813 Sum_probs=39.8
Q ss_pred CccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
+..|.||++.... .++.||||. |+..|+..|++....||+||+++..
T Consensus 2 ~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4679999999766 666689999 9999999999999999999998854
No 7
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=1.2e-12 Score=101.80 Aligned_cols=51 Identities=37% Similarity=0.921 Sum_probs=45.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR 169 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~ 169 (184)
.+-+|+|||++|..+|+++++ ||+|.||..|++.|+. -+..||+||+++.+
T Consensus 322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 557899999999999998887 5999999999999997 56789999998754
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.4e-12 Score=99.78 Aligned_cols=52 Identities=31% Similarity=0.798 Sum_probs=45.9
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW 172 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 172 (184)
+....|.+||+.... +..+||||+||..||..|...+..||+||..+.+...
T Consensus 237 ~a~~kC~LCLe~~~~----pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN----PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCceEEEecCCCC----CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 466889999999987 7788999999999999999999999999998866544
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.27 E-value=3.3e-12 Score=94.59 Aligned_cols=53 Identities=32% Similarity=0.769 Sum_probs=42.7
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC----------------CCcccccccccccccCC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD----------------HSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~----------------~~~CP~Cr~~~~~~~~~ 173 (184)
.++.+|+||++.+.+ ++.++|||.||..||..|+.. ...||+||.++....+.
T Consensus 16 ~~~~~CpICld~~~d----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 16 GGDFDCNICLDQVRD----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCccCCccCCCcCCC----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 367889999999876 666789999999999999842 34799999988664443
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=4e-12 Score=95.81 Aligned_cols=60 Identities=27% Similarity=0.600 Sum_probs=49.3
Q ss_pred CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCcccccccccccccCCCCCCCC
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLCRGRVRRIAWPSVTTAD 179 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~~~~~~~~~~~~ 179 (184)
.....+|.|||+.-++ ++++.|||+||.-||.+|+. ..+.||+||..+...++..+.+..
T Consensus 44 ~~~~FdCNICLd~akd----PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG 106 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD----PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG 106 (230)
T ss_pred CCCceeeeeeccccCC----CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence 4578899999999877 77777999999999999996 356799999999877766664443
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=9e-12 Score=90.18 Aligned_cols=54 Identities=33% Similarity=0.787 Sum_probs=45.6
Q ss_pred CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
.+....|+|||+.+.. ++++.++|||+||..||+..++....||+||+.+....
T Consensus 128 ~~~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccccCCCceecchhh--ccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 3466889999999976 44456789999999999999999999999998776543
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=99.19 E-value=1.3e-11 Score=69.03 Aligned_cols=38 Identities=45% Similarity=1.168 Sum_probs=32.4
Q ss_pred CcccccccccCCcce-eccCCCCcccHhhHHHHHhCCCccccc
Q 042206 122 CVICLGEFRDGDECK-VRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~-~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
|+||++.+.+ + +.++|||.||..|+..|++.+..||+|
T Consensus 1 C~iC~~~~~~----~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD----PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS----EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC----cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 7899999887 5 466899999999999999989999987
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.17 E-value=1.6e-11 Score=79.01 Aligned_cols=51 Identities=39% Similarity=0.972 Sum_probs=40.1
Q ss_pred CCccCcccccccc--------cCCccee-ccCCCCcccHhhHHHHHhC---CCcccccccccc
Q 042206 118 KTSTCVICLGEFR--------DGDECKV-RSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~--------~~~~~~~-~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~ 168 (184)
+++.|.||...|. +++..++ .-.|+|.||..||.+|+.. +..||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4778999999986 4444433 3369999999999999974 568999999764
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.13 E-value=3.3e-11 Score=90.39 Aligned_cols=58 Identities=34% Similarity=0.743 Sum_probs=43.1
Q ss_pred CCCccCccccccccc-----CCcceeccCCCCcccHhhHHHHHhCC------CcccccccccccccCCC
Q 042206 117 NKTSTCVICLGEFRD-----GDECKVRSKCNHIFHQTCIDDWLDDH------STCPLCRGRVRRIAWPS 174 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~-----~~~~~~~~~C~H~Fh~~Ci~~w~~~~------~~CP~Cr~~~~~~~~~~ 174 (184)
+.+.+|+||++..-. +..-.++++|+|.||..||..|.+.+ .+||+||..+....-..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr 236 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK 236 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence 366789999998632 11234577899999999999999742 45999999886554433
No 15
>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=99.12 E-value=4e-11 Score=68.56 Aligned_cols=44 Identities=50% Similarity=1.185 Sum_probs=35.6
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCccccccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRV 167 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~ 167 (184)
+|+||++.+.. . ...++|||.||..|+..|+.. +..||.||..+
T Consensus 1 ~C~iC~~~~~~--~-~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--P-VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--c-eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 49999999822 2 334469999999999999986 77899998753
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=9.1e-11 Score=66.50 Aligned_cols=38 Identities=37% Similarity=0.960 Sum_probs=29.8
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCC----Cccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----STCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----~~CP~C 163 (184)
|+||++.|.+ ++.++|||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~----Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD----PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS----EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC----ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999 8888999999999999999643 369987
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=8.3e-10 Score=95.33 Aligned_cols=58 Identities=33% Similarity=0.811 Sum_probs=46.5
Q ss_pred CCCccCcccccccccCCc--ceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206 117 NKTSTCVICLGEFRDGDE--CKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV 175 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~--~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~ 175 (184)
..+..|.||++.+..+.. .+.+ +|+|+||..|+..|+++..+||.||..+........
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~~~ 348 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLWQI 348 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhhccccccc
Confidence 357889999999988654 3334 699999999999999999999999996655444333
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.01 E-value=2.4e-10 Score=65.55 Aligned_cols=44 Identities=27% Similarity=0.838 Sum_probs=36.4
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
.|.+|++.|.. +..+.+++|||.||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~-~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSE-ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccC-CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 48999999933 334666689999999999999867788999985
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.98 E-value=3.8e-10 Score=63.69 Aligned_cols=38 Identities=45% Similarity=1.141 Sum_probs=32.9
Q ss_pred CcccccccccCCccee-ccCCCCcccHhhHHHHHh--CCCccccc
Q 042206 122 CVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLD--DHSTCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~--~~~~CP~C 163 (184)
|+||++.+.. +. +++|||.||..|+..|++ ....||.|
T Consensus 1 C~iC~~~~~~----~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED----PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS----EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC----CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 7899999887 34 668999999999999998 66789987
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.91 E-value=1.1e-09 Score=67.59 Aligned_cols=46 Identities=24% Similarity=0.450 Sum_probs=40.7
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
..|+||.+.+.+ ++..+|||.|+..||..|++.+.+||+|+.++..
T Consensus 2 ~~Cpi~~~~~~~----Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKD----PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCC----CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 469999999987 6777899999999999999888999999988743
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.88 E-value=1.3e-09 Score=60.11 Aligned_cols=38 Identities=47% Similarity=1.209 Sum_probs=30.9
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~C 163 (184)
|+||++.... ...++|||.||..|+..|+. .+..||.|
T Consensus 1 C~iC~~~~~~----~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD----PVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC----cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899988433 44557999999999999997 66779987
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.88 E-value=1.3e-09 Score=89.73 Aligned_cols=53 Identities=30% Similarity=0.679 Sum_probs=45.0
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
+..+....|+||++.|.. ++.++|||.||..||..|+.....||.||..+...
T Consensus 21 ~~Le~~l~C~IC~d~~~~----PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDV----PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccccCCCcCchhhhC----ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 334577899999999977 66778999999999999998888999999987543
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.85 E-value=1.9e-09 Score=67.74 Aligned_cols=47 Identities=45% Similarity=0.901 Sum_probs=35.3
Q ss_pred CcccccccccCCccee-ccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 122 CVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
|+-|...+.++++.++ .-.|.|.||..||.+|+..+..||++|++..
T Consensus 34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 3333444446666554 2259999999999999999999999998763
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1e-09 Score=68.37 Aligned_cols=51 Identities=39% Similarity=0.923 Sum_probs=40.2
Q ss_pred CCccCcccccccc--------cCCcceecc-CCCCcccHhhHHHHHh---CCCcccccccccc
Q 042206 118 KTSTCVICLGEFR--------DGDECKVRS-KCNHIFHQTCIDDWLD---DHSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~--------~~~~~~~~~-~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~ 168 (184)
.++.|.||.-.|. ++|+.+.+. .|.|.||..||.+|+. .+..||+||+.+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4558999999885 566666532 5999999999999996 3557999999763
No 25
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=7.3e-09 Score=79.75 Aligned_cols=62 Identities=27% Similarity=0.566 Sum_probs=46.1
Q ss_pred CcccCCCCccCcccccccccCC-------cceeccCCCCcccHhhHHHHH--hCCCcccccccccccccCCC
Q 042206 112 NDDAVNKTSTCVICLGEFRDGD-------ECKVRSKCNHIFHQTCIDDWL--DDHSTCPLCRGRVRRIAWPS 174 (184)
Q Consensus 112 ~~~~~~~~~~C~ICl~~~~~~~-------~~~~~~~C~H~Fh~~Ci~~w~--~~~~~CP~Cr~~~~~~~~~~ 174 (184)
......++..|++|-..+.... +...+ .|+|+||..||+-|- .++.+||.|+..+.....++
T Consensus 217 lPtkhl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfs 287 (328)
T KOG1734|consen 217 LPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFS 287 (328)
T ss_pred CCCCCCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhHhhhcc
Confidence 3444457888999998775433 33445 599999999999995 57889999998876554443
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.78 E-value=4.5e-09 Score=59.59 Aligned_cols=34 Identities=24% Similarity=0.659 Sum_probs=23.3
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhC
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD 156 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~ 156 (184)
|+||.+ |.+++..++.++|||.|+.+|+..++++
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 8887877887789999999999999974
No 27
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=5.1e-09 Score=83.76 Aligned_cols=60 Identities=30% Similarity=0.627 Sum_probs=49.5
Q ss_pred CCCCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccccccccCCCCCCCC
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTAD 179 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~ 179 (184)
.+...+|.||+++-.+ .+++||+|. .|..|.+...-+.+.||+||+++.+.....+...+
T Consensus 287 ~~~gkeCVIClse~rd----t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~~~~~~ 347 (349)
T KOG4265|consen 287 SESGKECVICLSESRD----TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIYVNKED 347 (349)
T ss_pred ccCCCeeEEEecCCcc----eEEecchhhehhHhHHHHHHHhhcCCCccccchHhhheecccccc
Confidence 3568899999999888 666789997 99999998877889999999999876665555444
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.6e-09 Score=80.76 Aligned_cols=52 Identities=29% Similarity=0.652 Sum_probs=43.7
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHH-HHhCCCc-ccccccccccccC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDD-WLDDHST-CPLCRGRVRRIAW 172 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~-w~~~~~~-CP~Cr~~~~~~~~ 172 (184)
..+..|+||++.... +..++|||+||..||.. |-+++.. ||+||+.......
T Consensus 213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCC----cccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 468899999999877 77778999999999999 9876665 9999998765443
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.64 E-value=7.9e-09 Score=65.14 Aligned_cols=50 Identities=26% Similarity=0.664 Sum_probs=23.8
Q ss_pred CccCcccccccccCCccee--c--cCCCCcccHhhHHHHHhC---C--------Ccccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKV--R--SKCNHIFHQTCIDDWLDD---H--------STCPLCRGRVR 168 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~--~--~~C~H~Fh~~Ci~~w~~~---~--------~~CP~Cr~~~~ 168 (184)
+.+|.||+.....++.++. . ..|++.||..||.+||.. . ..||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 3579999998774443333 2 268899999999999962 1 25999999874
No 30
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.64 E-value=8e-09 Score=81.94 Aligned_cols=52 Identities=27% Similarity=0.577 Sum_probs=45.6
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~ 173 (184)
.-..|.||.+.|.. ++++||+|.||..||...|..+..||.|+.++.+..+.
T Consensus 22 ~lLRC~IC~eyf~i----p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI----PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHHhHHHHHhcC----ceeccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 55689999999988 88889999999999999999999999999887665443
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.61 E-value=1e-08 Score=79.82 Aligned_cols=55 Identities=24% Similarity=0.509 Sum_probs=48.2
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVT 176 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~ 176 (184)
.-..|-||-+.+.. +..++|||.||..||...|..+..||+||.+..+..++.-.
T Consensus 24 s~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s 78 (391)
T COG5432 24 SMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSS 78 (391)
T ss_pred hHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccch
Confidence 45679999999988 88889999999999999999999999999988777666543
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=2.6e-08 Score=83.04 Aligned_cols=53 Identities=32% Similarity=0.687 Sum_probs=42.1
Q ss_pred CccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-----CCcccccccccccccCCCC
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-----HSTCPLCRGRVRRIAWPSV 175 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~CP~Cr~~~~~~~~~~~ 175 (184)
+..|+||++.... +..+.|||+||..||.+++.. ...||+||..+....+..+
T Consensus 186 ~~~CPICL~~~~~----p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPSV----PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCCc----ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 6789999999876 667779999999999988753 4579999988766444433
No 33
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=2e-08 Score=83.12 Aligned_cols=53 Identities=34% Similarity=0.918 Sum_probs=40.6
Q ss_pred CCCccCcccccccccC---Ccc----------eeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206 117 NKTSTCVICLGEFRDG---DEC----------KVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR 169 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~---~~~----------~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~ 169 (184)
+....|+||+..+.-- ..+ ..++||.|+||..|+.+|+. .+-.||.||.++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4667899999887521 111 23568999999999999998 55599999998753
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.53 E-value=2.3e-08 Score=88.37 Aligned_cols=60 Identities=27% Similarity=0.690 Sum_probs=43.9
Q ss_pred CCCCcccCCCCccCcccccccccCC-cce--eccCCCCcccHhhHHHHHh--CCCcccccccccc
Q 042206 109 SHQNDDAVNKTSTCVICLGEFRDGD-ECK--VRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVR 168 (184)
Q Consensus 109 ~~~~~~~~~~~~~C~ICl~~~~~~~-~~~--~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~ 168 (184)
.+......+...+|+||+..+..-| .++ .++.|+|.||..|+..|++ .+++||+||..++
T Consensus 1459 kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1459 KKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred HhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3444555678999999998886222 111 1335889999999999997 4678999997653
No 35
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=3.7e-08 Score=57.47 Aligned_cols=49 Identities=27% Similarity=0.624 Sum_probs=38.7
Q ss_pred CCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHh-CCCcccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLD-DHSTCPLCRGRVRRI 170 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~ 170 (184)
...+|.||++.-.+ .++.-|||. +|..|-.+.++ .+..||+||.++...
T Consensus 6 ~~dECTICye~pvd----sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 6 WSDECTICYEHPVD----SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDV 56 (62)
T ss_pred cccceeeeccCcch----HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHH
Confidence 45789999998766 455569997 99999776554 788999999988653
No 36
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.47 E-value=1.3e-07 Score=60.10 Aligned_cols=49 Identities=24% Similarity=0.434 Sum_probs=39.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC-CCcccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRVRRI 170 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~~~~ 170 (184)
+...|+|+.+.|.+ ++.+++||.|...||..|+.. +.+||+|+.++...
T Consensus 3 ~~f~CpIt~~lM~d----PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRD----PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SS----EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhC----ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 45689999999999 888899999999999999987 89999999888653
No 37
>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=98.45 E-value=1.7e-07 Score=74.53 Aligned_cols=55 Identities=20% Similarity=0.497 Sum_probs=40.1
Q ss_pred CCccCcccccc--cccCCcceeccCCCCcccHhhHHHHH-hCCCcccccccccccccCC
Q 042206 118 KTSTCVICLGE--FRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 118 ~~~~C~ICl~~--~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~~~~~ 173 (184)
++..|++|... +.+.-.+.+. +|||.||..|++..+ .....||.|+..+....+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 34689999995 3333233334 699999999999966 4556899999988765543
No 38
>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=98.43 E-value=1.7e-07 Score=54.76 Aligned_cols=42 Identities=36% Similarity=0.951 Sum_probs=30.4
Q ss_pred cCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCcccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCR 164 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr 164 (184)
.|.||++...+++. . ..||. |.+|..|+.+|+. .+.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l-~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-L-VSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-e-EeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 38999983333333 3 34685 8999999999995 455899994
No 39
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.1e-07 Score=61.47 Aligned_cols=50 Identities=32% Similarity=0.729 Sum_probs=36.8
Q ss_pred CCccCcccccccc------------cCCc-ceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 118 KTSTCVICLGEFR------------DGDE-CKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~------------~~~~-~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
....|+||..-+- ..++ ....-.|.|.||..||.+|++.+..||+|.++.
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 5567999875431 1222 223346999999999999999999999997754
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=3.4e-07 Score=73.99 Aligned_cols=49 Identities=31% Similarity=0.897 Sum_probs=35.1
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhC---CCcccccccccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVR 168 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~ 168 (184)
..|.||.+-+....++...-.|||+||..|+.+|+.. +..||+||-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 4799995544444444443349999999999999973 358999984443
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.21 E-value=6.5e-07 Score=73.63 Aligned_cols=53 Identities=30% Similarity=0.751 Sum_probs=40.7
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
....+..+|++||+.+.+.-.......|.|.||..|+..|. ..+||+||....
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 33457789999999997654323333599999999999997 478999997554
No 42
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=9.5e-07 Score=69.32 Aligned_cols=52 Identities=29% Similarity=0.488 Sum_probs=41.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~ 173 (184)
...+|+||+....- ++.++|+|.||..||+--.. ...+|++||.++.+...-
T Consensus 6 ~~~eC~IC~nt~n~----Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 6 KKKECLICYNTGNC----PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred cCCcceeeeccCCc----CccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 45679999988755 67778999999999997665 456799999999775443
No 43
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.2e-06 Score=69.62 Aligned_cols=44 Identities=36% Similarity=0.835 Sum_probs=38.5
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
.+...|+||++.|... ..++|+|.||..|+..++.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 4677899999999984 5668999999999999988667899999
No 44
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.01 E-value=1.2e-06 Score=53.35 Aligned_cols=43 Identities=35% Similarity=0.882 Sum_probs=23.2
Q ss_pred CccCcccccccccCCccee-ccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
-..|++|.+.+.. ++ +..|.|.||+.|+..-+. ..||+|+.+.
T Consensus 7 lLrCs~C~~~l~~----pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKE----PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS-----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred hcCCcHHHHHhcC----CceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 4579999999987 54 457999999999988554 4599998875
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=3e-06 Score=68.81 Aligned_cols=53 Identities=26% Similarity=0.708 Sum_probs=40.7
Q ss_pred CCCccCcccccccccCC----cceeccCCCCcccHhhHHHHH--hC-----CCccccccccccc
Q 042206 117 NKTSTCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWL--DD-----HSTCPLCRGRVRR 169 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~--~~-----~~~CP~Cr~~~~~ 169 (184)
..+.+|.||++....-- ...++++|.|.||..||..|- .+ .+.||.||.....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 46789999999875522 123457899999999999998 34 5789999986644
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.99 E-value=1.6e-06 Score=75.70 Aligned_cols=60 Identities=25% Similarity=0.478 Sum_probs=45.9
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA 178 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~ 178 (184)
....|++|+..+.++...... +|+|.||..|+..|-+...+||+||..+..+......+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~ 181 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGI 181 (1134)
T ss_pred hhhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccc
Confidence 345677777777654433333 699999999999999999999999998877766655544
No 47
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=5.8e-06 Score=67.44 Aligned_cols=49 Identities=37% Similarity=0.956 Sum_probs=38.0
Q ss_pred CCccCcccccccccCC-cceeccCCCCcccHhhHHHHHhC--CCcccccccc
Q 042206 118 KTSTCVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLDD--HSTCPLCRGR 166 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~Cr~~ 166 (184)
....|+||++.+...- ...+.+.|||.|..+||..|+.+ ...||.|...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 4568999999997544 33445679999999999999952 4569999653
No 48
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=3.1e-06 Score=73.91 Aligned_cols=48 Identities=25% Similarity=0.753 Sum_probs=40.7
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRR 169 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~ 169 (184)
.-..|+.|-....+ .+.++|+|+||..|+..-+. +...||.|...|-.
T Consensus 642 ~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 55679999988877 67778999999999999885 77899999887643
No 49
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=1.7e-06 Score=69.23 Aligned_cols=53 Identities=26% Similarity=0.545 Sum_probs=42.0
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCcccccccccccccC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIAW 172 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~~ 172 (184)
..+..|+|||+.+... .....|.|.||.+||..-++ .++.||.||+.+.....
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 3667899999998763 33447999999999988775 67899999998865443
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=1.7e-05 Score=65.64 Aligned_cols=51 Identities=29% Similarity=0.729 Sum_probs=45.0
Q ss_pred cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206 115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
....+.+|.+|+..+.. ++.+||||.||..||.+-+.....||.||..+.+
T Consensus 80 ~~~sef~c~vc~~~l~~----pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYP----PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCC----CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 33688899999999888 7777999999999999988888899999998865
No 51
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.64 E-value=1.8e-05 Score=62.17 Aligned_cols=54 Identities=31% Similarity=0.813 Sum_probs=41.7
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----------------------CCCcccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----------------------DHSTCPLCRGRVR 168 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----------------------~~~~CP~Cr~~~~ 168 (184)
+..-....|.|||.-|..++...+. +|.|.||..|+.+++. ....||+||..+.
T Consensus 110 ~nn~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 110 ENNHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred cCCCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3344677899999999988765554 6999999999988864 0235999998774
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.53 E-value=3.9e-05 Score=62.41 Aligned_cols=50 Identities=28% Similarity=0.622 Sum_probs=38.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC--Cccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH--STCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~CP~Cr~~~ 167 (184)
-+..|..|-+.+...++--.-+||.|+||..|+...+.++ .+||.||+-.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 4567999999886655433344799999999999999754 4799999533
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.52 E-value=3.8e-05 Score=62.70 Aligned_cols=50 Identities=28% Similarity=0.854 Sum_probs=38.8
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh--CCCccccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~ 171 (184)
....|-||.+. +.++.+. ||||+.|..|+..|-. ...+||.||..+....
T Consensus 368 TFeLCKICaen---dKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 368 TFELCKICAEN---DKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred hHHHHHHhhcc---CCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 44569999876 3445666 6999999999999984 3678999999886543
No 54
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=9.9e-05 Score=59.41 Aligned_cols=53 Identities=23% Similarity=0.464 Sum_probs=43.9
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~ 173 (184)
.++..|+||+-.-.+ .+..||+|.-|+.||.+.+-+.+.|=.|+..+......
T Consensus 420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~~ld 472 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDVILD 472 (489)
T ss_pred cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCCeeeEecceeeehhcc
Confidence 588899999976544 45668999999999999999999999999987654433
No 55
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.46 E-value=6.8e-05 Score=62.48 Aligned_cols=52 Identities=31% Similarity=0.817 Sum_probs=43.6
Q ss_pred CCCCccCcccccccccCCcceec-cCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
..++..|++|...+.+ +.. +.|||.||..|+..|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~----p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRD----PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccC----CCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 4467889999999988 555 379999999999999999999999988765433
No 56
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00025 Score=53.80 Aligned_cols=49 Identities=24% Similarity=0.722 Sum_probs=40.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--------CCcccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--------HSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--------~~~CP~Cr~~~~ 168 (184)
-...|..|-..+.++|.++.. |-|+||.+|+.+|-.+ .-.||.|..++.
T Consensus 49 Y~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 445699999999999988853 9999999999999753 346999988773
No 57
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.25 E-value=0.00015 Score=50.87 Aligned_cols=40 Identities=20% Similarity=0.502 Sum_probs=30.8
Q ss_pred CCccCcccccccccCCcceeccCCC------CcccHhhHHHHHhCCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCN------HIFHQTCIDDWLDDHS 158 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~------H~Fh~~Ci~~w~~~~~ 158 (184)
...+|+||++.+..++.+...+ || |.||.+|+.+|-+.++
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~~ 70 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRERN 70 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhcc
Confidence 3568999999999855555554 66 9999999999954333
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.22 E-value=0.00019 Score=53.36 Aligned_cols=47 Identities=21% Similarity=0.494 Sum_probs=40.7
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
-...|.||-.+|.. ++.+.|||.||..|...-++....|-+|-+...
T Consensus 195 IPF~C~iCKkdy~s----pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 195 IPFLCGICKKDYES----PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred Cceeehhchhhccc----hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 44579999999998 788889999999999999999999999966543
No 59
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.15 E-value=0.00026 Score=42.63 Aligned_cols=41 Identities=32% Similarity=0.732 Sum_probs=26.9
Q ss_pred CCccCcccccccccCCcceec-cCCCCcccHhhHHHHHh--CCCcccc
Q 042206 118 KTSTCVICLGEFRDGDECKVR-SKCNHIFHQTCIDDWLD--DHSTCPL 162 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~--~~~~CP~ 162 (184)
-...|+|.+..|.+ ++. ..|||.|-.+.|.+|++ ....||.
T Consensus 10 ~~~~CPiT~~~~~~----PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED----PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS----EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC----CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 45679999999987 543 37999999999999994 3557997
No 60
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.13 E-value=0.00028 Score=40.75 Aligned_cols=40 Identities=28% Similarity=0.920 Sum_probs=26.7
Q ss_pred CcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~C 163 (184)
|-||++.-.+++ +...||+ -..|..|+.+|+. .+.+|++|
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 678998877665 3334565 3689999999996 55678887
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.00021 Score=56.27 Aligned_cols=51 Identities=24% Similarity=0.444 Sum_probs=43.1
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW 172 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 172 (184)
-...|-||...|.. ++.+.|+|.||..|...-+++...|++|-+......+
T Consensus 240 ~Pf~c~icr~~f~~----pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~ 290 (313)
T KOG1813|consen 240 LPFKCFICRKYFYR----PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFN 290 (313)
T ss_pred CCcccccccccccc----chhhcCCceeehhhhccccccCCcceecccccccccc
Confidence 44569999999988 7888999999999999989888999999877654433
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.05 E-value=0.00032 Score=59.38 Aligned_cols=50 Identities=28% Similarity=0.745 Sum_probs=39.9
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-----CCCccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-----DHSTCPLCRGRV 167 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-----~~~~CP~Cr~~~ 167 (184)
+...+..+|.+|-+.-++ .+...|.|.||.-|+.++.. .+.+||.|-..+
T Consensus 531 ~enk~~~~C~lc~d~aed----~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAED----YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred ccccCceeecccCChhhh----hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 334477889999988766 66668999999999998875 457899997655
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.04 E-value=0.00053 Score=55.20 Aligned_cols=66 Identities=27% Similarity=0.556 Sum_probs=49.2
Q ss_pred CCcccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHH--HhCCCcccccccccccccCCCCCCCCC
Q 042206 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDW--LDDHSTCPLCRGRVRRIAWPSVTTADD 180 (184)
Q Consensus 111 ~~~~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w--~~~~~~CP~Cr~~~~~~~~~~~~~~~~ 180 (184)
..++..++...|.||.+...- .-++||+|..|.-|..+. |..++.||+||.......+..-.++|.
T Consensus 53 SaddtDEen~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI 120 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTY----SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADI 120 (493)
T ss_pred cccccccccceeEEecCCceE----EEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcc
Confidence 344555677889999988765 345689999999997654 567899999999877776666555554
No 64
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00021 Score=56.14 Aligned_cols=43 Identities=33% Similarity=0.740 Sum_probs=34.6
Q ss_pred CccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
...|+||++...+ .++++|||. -|..|-... +.||+||+.+..
T Consensus 300 ~~LC~ICmDaP~D----CvfLeCGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD----CVFLECGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc----eEEeecCcEEeehhhcccc----ccCchHHHHHHH
Confidence 6789999999877 677789996 788886543 489999997743
No 65
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.95 E-value=0.0005 Score=64.26 Aligned_cols=57 Identities=26% Similarity=0.709 Sum_probs=41.7
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC----------Cccccccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH----------STCPLCRGRVRRIA 171 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~----------~~CP~Cr~~~~~~~ 171 (184)
..+..+..|.||+.+--.......+ .|+|+||..|..+-+++. -+||+|+.++..+.
T Consensus 3481 tkQD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred hhcccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence 3456788999999876554443334 799999999998776532 26999998876543
No 66
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.94 E-value=0.00095 Score=38.46 Aligned_cols=45 Identities=27% Similarity=0.645 Sum_probs=22.7
Q ss_pred CcccccccccCC-cceeccCCCCcccHhhHHHHHh-CCCccccccccc
Q 042206 122 CVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRV 167 (184)
Q Consensus 122 C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~ 167 (184)
|++|.+++...+ ...-. +||+..+..|...-+. .+..||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 788999994433 22223 5889999999988886 478999999875
No 67
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.0011 Score=51.84 Aligned_cols=52 Identities=27% Similarity=0.473 Sum_probs=39.0
Q ss_pred CCCCccCcccccccccCCccee-ccCCCCcccHhhHHHHHh--CCCccccccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKV-RSKCNHIFHQTCIDDWLD--DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~ 171 (184)
...+.+|++|-+.-.. +. ..+|+|+||..|+..-+. ...+||.|-.+..+..
T Consensus 236 ~t~~~~C~~Cg~~Pti----P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTI----PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred ccCCceeeccCCCCCC----CeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 3578899999988655 32 226999999999987664 3478999987765433
No 68
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.86 E-value=0.0011 Score=47.72 Aligned_cols=49 Identities=27% Similarity=0.794 Sum_probs=35.0
Q ss_pred CCCCccCcccccccccCCcceeccCCC--C---cccHhhHHHHHh--CCCccccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCN--H---IFHQTCIDDWLD--DHSTCPLCRGRVRR 169 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~--H---~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~ 169 (184)
...+..|-||.++... .. .||. . .-|.+|+.+|+. +..+|++|+.++.-
T Consensus 5 s~~~~~CRIC~~~~~~--~~---~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--VT---NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCCC--cc---CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3467789999988542 22 2454 4 469999999995 45689999876643
No 69
>PHA02862 5L protein; Provisional
Probab=96.86 E-value=0.00071 Score=47.87 Aligned_cols=45 Identities=22% Similarity=0.708 Sum_probs=33.4
Q ss_pred ccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRR 169 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~ 169 (184)
..|-||.+.-.+ .. .||. ..-|.+|+.+|+. ++..|++|+.++.-
T Consensus 3 diCWIC~~~~~e--~~---~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDE--RN---NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCC--Cc---ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 469999998533 22 2464 4589999999995 56789999987643
No 70
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.70 E-value=0.0041 Score=55.74 Aligned_cols=38 Identities=18% Similarity=0.343 Sum_probs=28.3
Q ss_pred CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
.+.+..|.+|...+.... ...-+|||.||.+|+.+-..
T Consensus 814 ~ep~d~C~~C~~~ll~~p--F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKP--FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCc--ceeeeccchHHHHHHHHHHH
Confidence 457778999998876532 22337999999999987754
No 71
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.68 E-value=0.0063 Score=41.09 Aligned_cols=33 Identities=24% Similarity=0.656 Sum_probs=25.9
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHH
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCID 151 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~ 151 (184)
.++..|++|-..+.. ......||||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 467789999999976 333445799999999975
No 72
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.65 E-value=0.00046 Score=55.18 Aligned_cols=50 Identities=30% Similarity=0.714 Sum_probs=41.3
Q ss_pred CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
......|.+|-..|.+... ...|-|.||..||...+...++||.|...+-
T Consensus 12 ~n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred cccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 3477789999999977432 3369999999999999999999999987653
No 73
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.65 E-value=0.00094 Score=59.38 Aligned_cols=52 Identities=27% Similarity=0.735 Sum_probs=39.7
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC-------Ccccccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH-------STCPLCRGRVR 168 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-------~~CP~Cr~~~~ 168 (184)
....+|.||++.+...+.+--...|-|+||..||..|-+.. -.||.|.....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 47789999999998766554444578999999999998631 24999985443
No 74
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.55 E-value=0.0029 Score=51.32 Aligned_cols=46 Identities=33% Similarity=0.732 Sum_probs=32.7
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
.....|.||+++..+ .+..||||.=| |..- .+....||+||+.+..
T Consensus 303 ~~p~lcVVcl~e~~~----~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS----AVFVPCGHVCC--CTLC-SKHLPQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCccc----eeeecCCcEEE--chHH-HhhCCCCchhHHHHHH
Confidence 456679999999877 55568999844 5433 2334569999987753
No 75
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.54 E-value=0.0024 Score=50.47 Aligned_cols=63 Identities=13% Similarity=0.311 Sum_probs=47.8
Q ss_pred cCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206 115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA 178 (184)
Q Consensus 115 ~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~ 178 (184)
.......|+|...+|........+-+|||+|...++...- ....||+|-.++....+..+.+.
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~ 171 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPP 171 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCC
Confidence 3457789999999996555555566899999999999973 45679999998876555544443
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.49 E-value=0.0036 Score=55.83 Aligned_cols=44 Identities=32% Similarity=0.760 Sum_probs=33.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
....|..|-..+.-. .+.-.|||.||.+|+. .+...||-|+..+
T Consensus 839 q~skCs~C~~~LdlP---~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP---FVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccc---eeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 446899998887652 2233599999999998 4567899998743
No 77
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.23 E-value=0.0033 Score=48.48 Aligned_cols=57 Identities=12% Similarity=0.325 Sum_probs=50.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS 174 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~ 174 (184)
.-..|++|.+.+.+.-.+.++.+|||+|+.+|....++....||+|-.++.+..+..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 567799999999998888888899999999999999999999999988887655543
No 78
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.21 E-value=0.0027 Score=50.18 Aligned_cols=45 Identities=29% Similarity=0.607 Sum_probs=39.9
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
.|+||.+.+......+..++|||..|..|+...-..+-+||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 399999999888877777789999999999988876799999977
No 79
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.18 E-value=0.019 Score=46.05 Aligned_cols=47 Identities=17% Similarity=0.398 Sum_probs=36.2
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGR 166 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~ 166 (184)
.+...|++|+..-.+.-. +.--|-+||..|+...+.+.+.||+=-.+
T Consensus 298 ~~~~~CpvClk~r~Nptv---l~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTV---LEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCCce---EEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 466789999988766322 22358999999999999999999975443
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0036 Score=50.25 Aligned_cols=49 Identities=29% Similarity=0.670 Sum_probs=39.4
Q ss_pred CccCcccccccccC--CcceeccCCCCcccHhhHHHHHhC-CCccccccccc
Q 042206 119 TSTCVICLGEFRDG--DECKVRSKCNHIFHQTCIDDWLDD-HSTCPLCRGRV 167 (184)
Q Consensus 119 ~~~C~ICl~~~~~~--~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~~ 167 (184)
...|-||-++|..+ +.++..+.|||.|+..|+...+.. ...||.||...
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 35799999999877 456666689999999999887754 44699999874
No 81
>PHA03096 p28-like protein; Provisional
Probab=96.07 E-value=0.0033 Score=50.15 Aligned_cols=36 Identities=28% Similarity=0.585 Sum_probs=28.0
Q ss_pred ccCcccccccccCC----cceeccCCCCcccHhhHHHHHh
Q 042206 120 STCVICLGEFRDGD----ECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 120 ~~C~ICl~~~~~~~----~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
..|.||++...... .-.++..|.|.||..|+..|..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 57999999876421 2234668999999999999975
No 82
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.014 Score=48.15 Aligned_cols=37 Identities=30% Similarity=0.779 Sum_probs=29.7
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
....|.||+++. .|+.....+||+|+||..|+..++.
T Consensus 183 slf~C~ICf~e~-~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 183 SLFDCCICFEEQ-MGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred hcccceeeehhh-cCcceeeecccchHHHHHHHHHHHH
Confidence 566799999886 4444455668999999999999985
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.98 E-value=0.0047 Score=34.86 Aligned_cols=41 Identities=32% Similarity=0.878 Sum_probs=23.4
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCCC--ccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS--TCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~--~CP~C 163 (184)
|.+|-+....|...... .|+=.+|..|+..+++... .||.|
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 66777777776554433 4888999999999997554 79987
No 84
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.0041 Score=45.65 Aligned_cols=30 Identities=37% Similarity=1.053 Sum_probs=24.1
Q ss_pred CCCCcccHhhHHHHHhC-----C------Cccccccccccc
Q 042206 140 KCNHIFHQTCIDDWLDD-----H------STCPLCRGRVRR 169 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w~~~-----~------~~CP~Cr~~~~~ 169 (184)
.||.-||.-|+..|++. + ..||+|..++.-
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 59999999999999972 1 259999887643
No 85
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.00067 Score=55.37 Aligned_cols=53 Identities=23% Similarity=0.597 Sum_probs=44.0
Q ss_pred CCCccCcccccccccC-CcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206 117 NKTSTCVICLGEFRDG-DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
.-...|+||...+..+ +++... .|||.+|.+|+..|+.....||.||+.+...
T Consensus 194 slv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 194 SLVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HHHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 3566799999999887 555555 4999999999999998888999999887553
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.86 E-value=0.0067 Score=48.91 Aligned_cols=54 Identities=19% Similarity=0.431 Sum_probs=39.1
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~ 171 (184)
++..|+.|++++...|+-..--+||-..|..|..-.-+ -+..||-||+...+..
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 44459999999988776554346998888888554433 3678999999876543
No 87
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.74 E-value=0.0033 Score=48.33 Aligned_cols=48 Identities=27% Similarity=0.630 Sum_probs=32.3
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCC
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~ 173 (184)
|.-|..--. ++... ++.|+|+||..|...-.. ..||+||+++..+.+.
T Consensus 6 Cn~C~~~~~-~~~f~-LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~ 53 (233)
T KOG4739|consen 6 CNKCFRFPS-QDPFF-LTACRHVFCEPCLKASSP--DVCPLCKKSIRIIQLN 53 (233)
T ss_pred eccccccCC-CCcee-eeechhhhhhhhcccCCc--cccccccceeeeeecc
Confidence 555554433 45544 447999999999865432 3899999987655443
No 88
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=95.68 E-value=0.033 Score=45.78 Aligned_cols=70 Identities=21% Similarity=0.618 Sum_probs=42.0
Q ss_pred HHHHHhhhccCCCCcccCCCCccCccccccccc-------------CC------cceeccCCCCcccHhhHHHHHhC---
Q 042206 99 AFKRDIINNKSHQNDDAVNKTSTCVICLGEFRD-------------GD------ECKVRSKCNHIFHQTCIDDWLDD--- 156 (184)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~-------------~~------~~~~~~~C~H~Fh~~Ci~~w~~~--- 156 (184)
.++..+.....-......++.+.|--|+..-.+ |. .+.... |...+|.+|+-+|+..
T Consensus 251 ~F~~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~-CRPmWC~~Cm~kwFasrQd 329 (358)
T PF10272_consen 251 AFKEQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCY-CRPMWCLECMGKWFASRQD 329 (358)
T ss_pred HHHHHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCcccc-ccchHHHHHHHHHhhhcCC
Confidence 334444444444444344577788888865421 10 111222 5678899999999842
Q ss_pred ----------CCccccccccccc
Q 042206 157 ----------HSTCPLCRGRVRR 169 (184)
Q Consensus 157 ----------~~~CP~Cr~~~~~ 169 (184)
+..||.||+.+.-
T Consensus 330 ~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 330 QQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred CCChhhhhcCCCCCCCCccccee
Confidence 2359999998754
No 89
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.49 E-value=0.01 Score=42.79 Aligned_cols=52 Identities=31% Similarity=0.695 Sum_probs=35.6
Q ss_pred CCccCcccccccccCCcceeccC------------CCC-cccHhhHHHHHhC----------------------------
Q 042206 118 KTSTCVICLGEFRDGDECKVRSK------------CNH-IFHQTCIDDWLDD---------------------------- 156 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~------------C~H-~Fh~~Ci~~w~~~---------------------------- 156 (184)
++..|+|||+--.+ .+++- |+- .-|..|+++.-+.
T Consensus 1 ed~~CpICme~PHN----AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (162)
T PF07800_consen 1 EDVTCPICMEHPHN----AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQ 76 (162)
T ss_pred CCccCceeccCCCc----eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccc
Confidence 35689999998765 33332 443 3589999988641
Q ss_pred ---CCcccccccccccccCC
Q 042206 157 ---HSTCPLCRGRVRRIAWP 173 (184)
Q Consensus 157 ---~~~CP~Cr~~~~~~~~~ 173 (184)
+-.||+||..+..+++.
T Consensus 77 ~~~~L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 77 EQPELACPLCRGEVKGWTVV 96 (162)
T ss_pred ccccccCccccCceeceEEc
Confidence 12499999998776553
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.04 E-value=0.0089 Score=53.17 Aligned_cols=55 Identities=24% Similarity=0.581 Sum_probs=40.8
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--CCcccccccccccccCCCCCCCC
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--HSTCPLCRGRVRRIAWPSVTTAD 179 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~~~~~~~ 179 (184)
..|.+|++ .. . ....+|+|.||..|+..-+.. ...||.||..+....+.+....+
T Consensus 455 ~~c~ic~~-~~---~-~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~ 511 (674)
T KOG1001|consen 455 HWCHICCD-LD---S-FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLP 511 (674)
T ss_pred cccccccc-cc---c-ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhccccc
Confidence 78999999 22 2 344469999999999887753 33699999998887766654433
No 91
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.97 E-value=0.011 Score=34.93 Aligned_cols=44 Identities=20% Similarity=0.525 Sum_probs=30.2
Q ss_pred CccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
...|..|...-.. ...++|||+.+..|..- .+-+-||+|-+++.
T Consensus 7 ~~~~~~~~~~~~~----~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVGTK----GTVLPCGHLICDNCFPG--ERYNGCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccccc----cccccccceeeccccCh--hhccCCCCCCCccc
Confidence 3445555544333 45568999999999765 45678999988764
No 92
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=94.91 E-value=0.01 Score=33.81 Aligned_cols=31 Identities=26% Similarity=0.682 Sum_probs=22.8
Q ss_pred cCCC-CcccHhhHHHHHhCCCccccccccccc
Q 042206 139 SKCN-HIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 139 ~~C~-H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
..|. |..|..|+...+.+...||+|..+++.
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 3586 999999999999999999999998854
No 93
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=94.64 E-value=0.019 Score=50.86 Aligned_cols=23 Identities=30% Similarity=1.000 Sum_probs=21.3
Q ss_pred CCCCcccHhhHHHHHhCCCcccc
Q 042206 140 KCNHIFHQTCIDDWLDDHSTCPL 162 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w~~~~~~CP~ 162 (184)
.|+|+.|.+|...|++....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 59999999999999999999985
No 94
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.55 E-value=0.043 Score=43.63 Aligned_cols=43 Identities=30% Similarity=0.677 Sum_probs=33.0
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHH-hCCCccccccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRG 165 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~ 165 (184)
..|+.|-..+.+.-+ .+-|+|.||.+||..-| .....||.|.+
T Consensus 275 LkCplc~~Llrnp~k---T~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMK---TPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCccc---CccccchHHHHHHhhhhhhccccCCCccc
Confidence 679999988877322 22589999999999766 56788999943
No 95
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.46 E-value=0.014 Score=42.26 Aligned_cols=30 Identities=33% Similarity=0.780 Sum_probs=26.1
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccH
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQ 147 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~ 147 (184)
.+..+|.|||+++..++.+..+ ||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 4677999999999999998877 59988886
No 96
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.46 E-value=0.05 Score=32.12 Aligned_cols=41 Identities=27% Similarity=0.708 Sum_probs=33.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPL 162 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~ 162 (184)
....|.+|-+.|.+++++.+.+.||--+|.+|-.+ ...|-.
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 45679999999999999999999999999999543 345544
No 97
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.40 E-value=0.02 Score=46.06 Aligned_cols=46 Identities=20% Similarity=0.556 Sum_probs=37.2
Q ss_pred CCCCccCcccccccccCCcceeccCC--CCcccHhhHHHHHhCCCccccccccccc
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKC--NHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C--~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
..+-.+|++|.+.+.. ++. .| ||+-|..|-. +..+.||.||.++..
T Consensus 45 ~~~lleCPvC~~~l~~----Pi~-QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSP----PIF-QCDNGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred chhhccCchhhccCcc----cce-ecCCCcEehhhhhh---hhcccCCcccccccc
Confidence 4477899999999988 666 48 6999999975 346789999988763
No 98
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.86 E-value=0.15 Score=45.93 Aligned_cols=53 Identities=21% Similarity=0.568 Sum_probs=39.0
Q ss_pred CCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~~~ 171 (184)
+++..|-||..+=..++.+.- ||+ ...|.+|+.+|+. ....|-+|..++.=..
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 456789999988777666443 454 4589999999996 4456999987664433
No 99
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.83 E-value=0.051 Score=43.06 Aligned_cols=32 Identities=19% Similarity=0.568 Sum_probs=24.8
Q ss_pred CCCcccHhhHHHHHh-------------CCCcccccccccccccC
Q 042206 141 CNHIFHQTCIDDWLD-------------DHSTCPLCRGRVRRIAW 172 (184)
Q Consensus 141 C~H~Fh~~Ci~~w~~-------------~~~~CP~Cr~~~~~~~~ 172 (184)
|....|.+|+-+|+. ++.+||.||+++.-...
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 678899999999984 24479999998865433
No 100
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.42 E-value=0.047 Score=41.63 Aligned_cols=40 Identities=23% Similarity=0.569 Sum_probs=29.7
Q ss_pred CcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCccccccccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
|-.|-+.-.. ..++||.|+ +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~~~~----VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREAT----VLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCce----EEeecccceEeccccccc----CccCCCCcChhhc
Confidence 8888877555 556689986 99999643 3569999876543
No 101
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.29 E-value=0.11 Score=41.89 Aligned_cols=52 Identities=23% Similarity=0.653 Sum_probs=37.2
Q ss_pred CCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHh--CCCccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLD--DHSTCPLCRGRVRR 169 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~--~~~~CP~Cr~~~~~ 169 (184)
++..|-||..+...........||. +..|..|+..|+. .+..|.+|......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 3578999999876543213344564 6689999999996 67789999775543
No 102
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.17 E-value=0.038 Score=51.75 Aligned_cols=46 Identities=30% Similarity=0.691 Sum_probs=37.8
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
.....|.||++.+..... ...|||.+|..|...|+..+..||.|+.
T Consensus 1151 ~~~~~c~ic~dil~~~~~---I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGG---IAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred hcccchHHHHHHHHhcCC---eeeechhHhhhHHHHHHHHhccCcchhh
Confidence 355689999999984322 2259999999999999999999999974
No 103
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.02 E-value=0.051 Score=43.42 Aligned_cols=48 Identities=31% Similarity=0.627 Sum_probs=31.2
Q ss_pred CccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
.-.|.-|--.+.. .-| ..+|+|+||.+|... ..-+.||.|-..+..+.
T Consensus 90 VHfCd~Cd~PI~I--YGR-mIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrIe 137 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGR-MIPCKHVFCLECARS--DSDKICPLCDDRVQRIE 137 (389)
T ss_pred eEeecccCCccee--eec-ccccchhhhhhhhhc--CccccCcCcccHHHHHH
Confidence 4456666544433 113 337999999999754 34578999977665544
No 104
>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=91.72 E-value=0.16 Score=40.26 Aligned_cols=51 Identities=22% Similarity=0.516 Sum_probs=34.9
Q ss_pred cCcccccccc-cCCcceeccCCCCcccHhhHHHHHh-CCCccccccccccccc
Q 042206 121 TCVICLGEFR-DGDECKVRSKCNHIFHQTCIDDWLD-DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 121 ~C~ICl~~~~-~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~CP~Cr~~~~~~~ 171 (184)
.|+.|-...- +.+-.....+|+|..|..|++..+. ....||-|-..+....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 4788875532 2222222337999999999999985 5668999977665443
No 105
>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=91.45 E-value=0.071 Score=41.13 Aligned_cols=55 Identities=20% Similarity=0.573 Sum_probs=38.3
Q ss_pred CCccCcccccccc--cCCcceeccCCCCcccHhhHHHHHhC-CCccc--ccccccccccC
Q 042206 118 KTSTCVICLGEFR--DGDECKVRSKCNHIFHQTCIDDWLDD-HSTCP--LCRGRVRRIAW 172 (184)
Q Consensus 118 ~~~~C~ICl~~~~--~~~~~~~~~~C~H~Fh~~Ci~~w~~~-~~~CP--~Cr~~~~~~~~ 172 (184)
.+..|++|-.+-- ++-++.+-+.|-|.+|..|+++.+.. ...|| -|.+-+....+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf 68 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKF 68 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcc
Confidence 5668999987643 33344445459999999999999964 45799 78665544433
No 106
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=91.28 E-value=3.6 Score=29.03 Aligned_cols=54 Identities=19% Similarity=0.397 Sum_probs=38.4
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh---CCCccccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD---DHSTCPLCRGRVRRIA 171 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~~~~~ 171 (184)
.-.+|.||.+...++.-+..---||-..|.-|.-..++ ....||.|++.+....
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 67799999998766432222223898899998776554 4668999999886544
No 107
>PF03376 Adeno_E3B: Adenovirus E3B protein; InterPro: IPR005041 Adenoviruses are medium-sized, non-enveloped viruses containing double-stranded DNA. They can cause a variety of diseases including pneumonia, cystitis, conjunctivitis and diarrhoea, all of which can be fatal to patients who are immunocompromised []. These viruses have many mechanisms to evade the host immune response, including several proteins which are expressed as part of the early transcription unit 3 (E3) []. One of the regions of E3, known as the E3B region, encodes three proteins known as 10.4K, 14.5K and 14.7K. Two of these proteins, 10.4K and 14.5K, form the RID complex (receptor internalisation and degradation) which protects the infected cell from host-induced lysis by clearing the the TNF and Fas receptors from the cell surface []. Other receptors, such as the epidermal growth factor receptor, are also known to be cleared by RID []. This entry represents the E3B region 10.4K protein, also known as the RID alpha subunit.; GO: 0016020 membrane
Probab=91.05 E-value=1.4 Score=26.87 Aligned_cols=47 Identities=21% Similarity=0.429 Sum_probs=38.4
Q ss_pred CCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206 6 TPSTCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSR 52 (184)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r 52 (184)
.|.+-|+...+.++.+...+.+.+++++++.++=++-|++.+..-.|
T Consensus 5 ~pdCl~pf~vYlif~fv~c~~iCSi~~~~it~~Q~iDy~~vR~~Y~R 51 (67)
T PF03376_consen 5 EPDCLPPFAVYLIFAFVTCTCICSIVCFVITFFQCIDYIYVRIAYRR 51 (67)
T ss_pred CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555999999999999999999999998888888888777666444
No 108
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.83 E-value=0.13 Score=40.05 Aligned_cols=54 Identities=26% Similarity=0.673 Sum_probs=35.1
Q ss_pred ccCCCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHhC--------CCccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLDD--------HSTCPLCRGRV 167 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~--------~~~CP~Cr~~~ 167 (184)
+..+.+..|=||+..=+++-.-.-.-||. |=-|..|+..|+.. ..+||-|++..
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 33457778999997644432111122453 66999999999842 23699998765
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.11 Score=43.36 Aligned_cols=37 Identities=27% Similarity=0.612 Sum_probs=28.0
Q ss_pred CCccCcccccccccC-CcceeccCCCCcccHhhHHHHHh
Q 042206 118 KTSTCVICLGEFRDG-DECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
...+|.||+.+.... +.-. ...|+|.||.+|..+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence 577899999444443 4444 446999999999998876
No 110
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.10 E-value=0.11 Score=46.00 Aligned_cols=48 Identities=29% Similarity=0.812 Sum_probs=38.2
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC---CCccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD---HSTCPLCRGRVRR 169 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---~~~CP~Cr~~~~~ 169 (184)
...+|+||...+.. +.+++|.|.|+..|+..-|.. ...||+|+..+..
T Consensus 20 k~lEc~ic~~~~~~----p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 20 KILECPICLEHVKE----PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hhccCCceeEEeec----cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 45689999999988 677789999999998866543 4579999876544
No 111
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.69 E-value=0.16 Score=44.50 Aligned_cols=42 Identities=26% Similarity=0.519 Sum_probs=34.9
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCP 161 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP 161 (184)
+...|.||+..|..+.-.++.+.|||..|..|+..-. +.+||
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 3456999999998888778888999999999998755 46788
No 112
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.35 E-value=0.38 Score=39.85 Aligned_cols=45 Identities=16% Similarity=0.426 Sum_probs=34.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC---Cccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLC 163 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~CP~C 163 (184)
....|+|=-+.-.++. -|..+.|||+...+-+.+..++. ..||+|
T Consensus 333 SvF~CPVlKeqtsdeN-PPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDEN-PPMMLICGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred ceeecccchhhccCCC-CCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence 5567888666554443 36666799999999999988754 369999
No 113
>PF13974 YebO: YebO-like protein
Probab=87.63 E-value=1.6 Score=27.94 Aligned_cols=22 Identities=23% Similarity=0.265 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHhhchHHHhhhH
Q 042206 37 LFYICYYLFTQLYSSRIQTQNQ 58 (184)
Q Consensus 37 l~~~~~~~~~~~~~~r~~~~~~ 58 (184)
++.++.|+|..+..-|...|-+
T Consensus 9 lv~livWFFVnRaSvRANEQI~ 30 (80)
T PF13974_consen 9 LVGLIVWFFVNRASVRANEQIE 30 (80)
T ss_pred HHHHHHHHHHHHHHHhHHHHHH
Confidence 3344445555555545444433
No 114
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=87.49 E-value=1.5 Score=31.38 Aligned_cols=38 Identities=11% Similarity=0.207 Sum_probs=16.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHH
Q 042206 15 GLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRI 53 (184)
Q Consensus 15 ~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~ 53 (184)
..++|.-.+.++++.++++++++++.++| +.++.+++.
T Consensus 23 ~psffsthm~tILiaIvVliiiiivli~l-cssRKkKaa 60 (189)
T PF05568_consen 23 PPSFFSTHMYTILIAIVVLIIIIIVLIYL-CSSRKKKAA 60 (189)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhHHHH
Confidence 33444444444444444444444333333 333333343
No 115
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=86.15 E-value=2.9 Score=23.73 Aligned_cols=33 Identities=18% Similarity=0.302 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206 20 VLTTPLVISSVVCLILFLFYICYYLFTQLYSSR 52 (184)
Q Consensus 20 ~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r 52 (184)
...+++....++++.++.+...+|+++++..-|
T Consensus 6 Rs~L~~~F~~lIC~Fl~~~~~F~~F~~Kqilfr 38 (54)
T PF06716_consen 6 RSYLLLAFGFLICLFLFCLVVFIWFVYKQILFR 38 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344555555566666666666666666655433
No 116
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.97 E-value=0.68 Score=41.76 Aligned_cols=57 Identities=14% Similarity=0.223 Sum_probs=38.2
Q ss_pred ccCCCCccCcccccccccCCccee---ccCCCCcccHhhHHHHHhC------CCcccccccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKV---RSKCNHIFHQTCIDDWLDD------HSTCPLCRGRVRRI 170 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~---~~~C~H~Fh~~Ci~~w~~~------~~~CP~Cr~~~~~~ 170 (184)
....+...|.+|..++...++-.- +-.|+|.||..||..|..+ .-.|++|..-|..+
T Consensus 91 eK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 91 EKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred cccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 333466678888877776332222 2249999999999999852 34589997766543
No 117
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.52 E-value=0.55 Score=36.62 Aligned_cols=60 Identities=12% Similarity=0.206 Sum_probs=42.3
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCCCCC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSVTTA 178 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~ 178 (184)
.....|+|---+|.....-..+.+|||+|-..-+.+. ...+|++|...+......-+.++
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~ 168 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGT 168 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCC
Confidence 4566788876666544333445579999999888774 36889999998876655555444
No 118
>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=84.75 E-value=0.93 Score=31.82 Aligned_cols=8 Identities=13% Similarity=-0.093 Sum_probs=3.3
Q ss_pred HhhchHHH
Q 042206 47 QLYSSRIQ 54 (184)
Q Consensus 47 ~~~~~r~~ 54 (184)
...++|++
T Consensus 21 ~~~rRR~r 28 (130)
T PF12273_consen 21 CHNRRRRR 28 (130)
T ss_pred HHHHHHhh
Confidence 34444433
No 119
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=83.92 E-value=0.7 Score=41.40 Aligned_cols=41 Identities=24% Similarity=0.477 Sum_probs=30.7
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPL 162 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~ 162 (184)
..|.+|-..+..... ....|||.-|.+|+..|+.....||.
T Consensus 780 ~~CtVC~~vi~G~~~--~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDV--WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeeeeEe--ecccccccccHHHHHHHHhcCCCCcc
Confidence 357788766644222 23469999999999999998888876
No 120
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=83.40 E-value=1.1 Score=36.43 Aligned_cols=57 Identities=23% Similarity=0.414 Sum_probs=41.3
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPS 174 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~ 174 (184)
-...|+||.+.....+...+=-+|++..|..|+..-.....+||.||++......+.
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~~s 304 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERNTKKS 304 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccCcccc
Confidence 346899999988554432222258888888888888888899999997765554443
No 121
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=83.10 E-value=5 Score=29.87 Aligned_cols=19 Identities=11% Similarity=0.134 Sum_probs=7.5
Q ss_pred HHhhchHHHhhhHHHHhhh
Q 042206 46 TQLYSSRIQTQNQDIEQGL 64 (184)
Q Consensus 46 ~~~~~~r~~~~~~~~~~~~ 64 (184)
+.....-+..+...+...+
T Consensus 53 ~~PI~~~l~~R~~~I~~~l 71 (181)
T PRK13454 53 LPRIGAVLAERQGTITNDL 71 (181)
T ss_pred HHHHHHHHHHHHHHHHhHH
Confidence 3334333444444443333
No 122
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.07 E-value=0.4 Score=43.03 Aligned_cols=45 Identities=18% Similarity=0.424 Sum_probs=29.4
Q ss_pred CCccCcccccccccCC---cceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 118 KTSTCVICLGEFRDGD---ECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~---~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
.+..|.-|.+...... ...+...|||.||..|+..-..++. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 4447999988765322 2223336999999999986654443 5555
No 123
>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=82.22 E-value=3.6 Score=31.69 Aligned_cols=25 Identities=20% Similarity=0.353 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 22 TTPLVISSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~~~~~ 46 (184)
+++++|+++|+.++.+.++.+|.+-
T Consensus 190 ilpvvIaliVitl~vf~LvgLyr~C 214 (259)
T PF07010_consen 190 ILPVVIALIVITLSVFTLVGLYRMC 214 (259)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3555555555555554444444433
No 124
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=82.10 E-value=0.67 Score=39.01 Aligned_cols=35 Identities=23% Similarity=0.551 Sum_probs=29.5
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
+++..|+||..-|.+ ++.++|+|..|.-|...-+.
T Consensus 2 eeelkc~vc~~f~~e----piil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE----PIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccC----ceEeecccHHHHHHHHhhcc
Confidence 356789999999988 77778999999999887664
No 125
>PF15102 TMEM154: TMEM154 protein family
Probab=81.82 E-value=0.15 Score=36.38 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042206 22 TTPLVISSVVCLILFLFYICY 42 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~ 42 (184)
++.++|.++++++++++.+++
T Consensus 58 iLmIlIP~VLLvlLLl~vV~l 78 (146)
T PF15102_consen 58 ILMILIPLVLLVLLLLSVVCL 78 (146)
T ss_pred EEEEeHHHHHHHHHHHHHHHh
Confidence 344444444443333333333
No 126
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=81.23 E-value=12 Score=24.20 Aligned_cols=6 Identities=33% Similarity=0.528 Sum_probs=2.2
Q ss_pred HHHHHH
Q 042206 26 VISSVV 31 (184)
Q Consensus 26 vi~~iv 31 (184)
+++.++
T Consensus 39 Vic~~l 44 (84)
T PF06143_consen 39 VICCFL 44 (84)
T ss_pred HHHHHH
Confidence 333333
No 127
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=79.93 E-value=1.3 Score=33.60 Aligned_cols=41 Identities=34% Similarity=0.844 Sum_probs=28.6
Q ss_pred CCccCcccccc-----cccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 118 KTSTCVICLGE-----FRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 118 ~~~~C~ICl~~-----~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
.+..|.+|-+. |.. +.+.....|+-+||..|.. +..||-|-
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 55678888742 222 2445566899999999975 26799994
No 128
>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=79.78 E-value=1.2 Score=26.04 Aligned_cols=42 Identities=29% Similarity=0.528 Sum_probs=21.3
Q ss_pred CcccccccccCC------cceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 122 CVICLGEFRDGD------ECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 122 C~ICl~~~~~~~------~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
|.-|+..|.... .....+.|++.|+.+|=.---..--+||-|
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC 49 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGC 49 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCC
Confidence 555666665542 334566899999999943322445578887
No 129
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.90 E-value=1.4 Score=38.65 Aligned_cols=52 Identities=27% Similarity=0.745 Sum_probs=39.7
Q ss_pred CCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV 175 (184)
Q Consensus 116 ~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~ 175 (184)
......|.+|+... ..++. +|. |..|+..|+..+..||.|+..+......+-
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~-~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~ 527 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARIT-PCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSK 527 (543)
T ss_pred hcccCcchHHHHHH----Hhccc-ccc---chhHHHhhhhhccccCCCchhhhcccccCc
Confidence 34677899999998 22444 488 899999999999999999887765444433
No 130
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.39 E-value=2 Score=33.55 Aligned_cols=39 Identities=21% Similarity=0.382 Sum_probs=32.5
Q ss_pred cccCCCCccCcccccccccCCcceeccCCCCcccHhhHHHHHh
Q 042206 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD 155 (184)
Q Consensus 113 ~~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~ 155 (184)
.+...+...|+.||..+.. ++..+=||+|+.+||.+.+.
T Consensus 37 rDsiK~FdcCsLtLqPc~d----Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 37 RDSIKPFDCCSLTLQPCRD----PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccccCCcceeeeecccccC----CccCCCCeeeeHHHHHHHHH
Confidence 3444577889999999988 77778899999999998864
No 131
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=78.23 E-value=0.82 Score=40.06 Aligned_cols=42 Identities=29% Similarity=0.746 Sum_probs=26.4
Q ss_pred CCccCccccc-----ccccCCcceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 118 KTSTCVICLG-----EFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 118 ~~~~C~ICl~-----~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
....|.+|-. .|. .+.++....|+++||..|+.. .+..||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 4556777731 122 233444556999999999654 34449999
No 132
>PTZ00370 STEVOR; Provisional
Probab=77.95 E-value=3.9 Score=32.66 Aligned_cols=28 Identities=29% Similarity=0.387 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQL 48 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~~ 48 (184)
.+.|.-|.++|++++.++++++|+...+
T Consensus 253 aF~Pygiaalvllil~vvliilYiwlyr 280 (296)
T PTZ00370 253 AFYPYGIAALVLLILAVVLIILYIWLYR 280 (296)
T ss_pred hhcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666667777766666666666554433
No 133
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=76.34 E-value=16 Score=26.55 Aligned_cols=26 Identities=12% Similarity=0.175 Sum_probs=10.5
Q ss_pred HHHHHHhhchHHHhhhHHHHhhhhhH
Q 042206 42 YYLFTQLYSSRIQTQNQDIEQGLSSQ 67 (184)
Q Consensus 42 ~~~~~~~~~~r~~~~~~~~~~~~~~~ 67 (184)
.++++.....-+..+...+...+...
T Consensus 26 ~~fl~kpi~~~l~~R~~~I~~~l~~A 51 (164)
T PRK14473 26 RTFLYRPVLNLLNERTRRIEESLRDA 51 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444344444444444433333
No 134
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=75.72 E-value=16 Score=26.85 Aligned_cols=8 Identities=25% Similarity=0.671 Sum_probs=3.0
Q ss_pred HHhhhHHH
Q 042206 53 IQTQNQDI 60 (184)
Q Consensus 53 ~~~~~~~~ 60 (184)
+..+...+
T Consensus 47 l~~R~~~I 54 (173)
T PRK13453 47 MDKRERDI 54 (173)
T ss_pred HHHHHHHH
Confidence 33333333
No 135
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=75.65 E-value=7 Score=24.87 Aligned_cols=60 Identities=20% Similarity=0.454 Sum_probs=22.2
Q ss_pred CCccCcccccccccCCc--c-eeccCCCCcccHhhHHHHH-hCCCccccccccccc-ccCCCCCC
Q 042206 118 KTSTCVICLGEFRDGDE--C-KVRSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRR-IAWPSVTT 177 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~--~-~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~-~~~~~~~~ 177 (184)
....|.||-++...... + .....|+--.|..|..-=. ..++.||.|++.+.. ...|.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp~V~g 72 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSPRVEG 72 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT----TT
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCCCCCCC
Confidence 55679999998853332 2 2233466667889987443 467889999988754 33444433
No 136
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=74.81 E-value=2.6 Score=36.31 Aligned_cols=34 Identities=21% Similarity=0.453 Sum_probs=23.0
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhH
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCI 150 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci 150 (184)
.+...|..|...|..--.---+..||-+||..|-
T Consensus 899 ~~a~~cmacq~pf~afrrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 899 EDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred CcchhhhhccCcHHHHHHhhhhcccCceeecccc
Confidence 4566788888888652221224479999999884
No 137
>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=74.68 E-value=0.47 Score=31.90 Aligned_cols=16 Identities=38% Similarity=1.055 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 042206 29 SVVCLILFLFYICYYL 44 (184)
Q Consensus 29 ~iv~li~~l~~~~~~~ 44 (184)
+++++++++.++.+++
T Consensus 70 s~v~IlVily~IyYFV 85 (101)
T PF06024_consen 70 SFVCILVILYAIYYFV 85 (101)
T ss_pred HHHHHHHHHhhheEEE
Confidence 3333333333333333
No 138
>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=74.67 E-value=3.3 Score=23.97 Aligned_cols=42 Identities=19% Similarity=0.624 Sum_probs=16.4
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhC-----CCcccccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD-----HSTCPLCRGR 166 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~CP~Cr~~ 166 (184)
.|++....+.. .+|.. .|.|.-+.+ +..|+.. .-.||+|.++
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 47777766654 33444 488873322 2344432 2359999763
No 139
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=74.38 E-value=15 Score=23.78 Aligned_cols=35 Identities=20% Similarity=0.121 Sum_probs=21.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042206 14 EGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQL 48 (184)
Q Consensus 14 ~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~ 48 (184)
.++.+-.+.+.+...++|+++++++....+.+.+.
T Consensus 4 ~~ll~eg~~L~vlGmg~VflfL~iLi~~~~~m~~~ 38 (84)
T COG3630 4 MGLLLEGITLMVLGMGFVFLFLSILIYAMRGMGAV 38 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444456777777777777666666666555544
No 140
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=74.17 E-value=18 Score=26.18 Aligned_cols=20 Identities=10% Similarity=0.210 Sum_probs=7.7
Q ss_pred HHhhchHHHhhhHHHHhhhh
Q 042206 46 TQLYSSRIQTQNQDIEQGLS 65 (184)
Q Consensus 46 ~~~~~~r~~~~~~~~~~~~~ 65 (184)
+.....-+..+...+...+.
T Consensus 30 ~~pi~~~l~~R~~~I~~~l~ 49 (164)
T PRK14471 30 WKPILGAVKEREDSIKNALA 49 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333444444433333
No 141
>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=74.06 E-value=2 Score=26.32 Aligned_cols=12 Identities=25% Similarity=0.899 Sum_probs=8.8
Q ss_pred cccHhhHHHHHh
Q 042206 144 IFHQTCIDDWLD 155 (184)
Q Consensus 144 ~Fh~~Ci~~w~~ 155 (184)
.||..|+..|+.
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 142
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=73.75 E-value=4.1 Score=33.03 Aligned_cols=51 Identities=20% Similarity=0.581 Sum_probs=34.1
Q ss_pred CCCccCcccccccc---------------cCCcceeccCCCCcccHhhHHHHHhC---------CCccccccccc
Q 042206 117 NKTSTCVICLGEFR---------------DGDECKVRSKCNHIFHQTCIDDWLDD---------HSTCPLCRGRV 167 (184)
Q Consensus 117 ~~~~~C~ICl~~~~---------------~~~~~~~~~~C~H~Fh~~Ci~~w~~~---------~~~CP~Cr~~~ 167 (184)
....+|++|+..-. .+-......||||+--.+-..-|.+. +..||+|-..+
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 35778999996532 11111223479999888888899762 34699997765
No 143
>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=73.74 E-value=15 Score=25.09 Aligned_cols=28 Identities=14% Similarity=0.330 Sum_probs=17.8
Q ss_pred ccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 138 RSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 138 ~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
++.|+|. ...+.+...|+.|++++.-.+
T Consensus 72 CP~C~K~------TKmLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 72 CPNCGKQ------TKMLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred CCCCCCh------HhhhchhhccCcCCCcCccCc
Confidence 3457762 234556678999999885443
No 144
>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=73.67 E-value=2.1 Score=21.23 Aligned_cols=23 Identities=30% Similarity=0.547 Sum_probs=12.4
Q ss_pred cCcccccccccCCcceeccCCCCcc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIF 145 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~F 145 (184)
.|+-|...+.... ...+.|||.|
T Consensus 2 ~CP~C~~~V~~~~--~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESA--KFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhc--CcCCCCCCCC
Confidence 4666666654422 2344577766
No 145
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=73.61 E-value=1.7 Score=33.09 Aligned_cols=44 Identities=27% Similarity=0.705 Sum_probs=34.8
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
.-..|.+|....-.+.. .-.|+=.+|..|+...+.....||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg~r---Cg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIR---CGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhheeec---cCcccchhhhHHHHHHhcccCcCCchh
Confidence 34579999988877432 225777899999999999989999994
No 146
>COG3771 Predicted membrane protein [Function unknown]
Probab=73.26 E-value=23 Score=23.11 Aligned_cols=31 Identities=23% Similarity=0.315 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhhchHHHhhhHHHHhh
Q 042206 33 LILFLFYICYYLFTQLYSSRIQTQNQDIEQG 63 (184)
Q Consensus 33 li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~ 63 (184)
++.++++-++|+..+....|..++..+.+++
T Consensus 54 ~lgwli~g~fy~k~~l~~~~l~rqiKr~~~q 84 (97)
T COG3771 54 ALGWLICGLFYLKVRLSLMRLERQIKRLENQ 84 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444555555555555555554444433
No 147
>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 PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=72.47 E-value=12 Score=23.56 Aligned_cols=26 Identities=23% Similarity=0.428 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042206 23 TPLVISSVVCLILFLFYICYYLFTQL 48 (184)
Q Consensus 23 ~~ivi~~iv~li~~l~~~~~~~~~~~ 48 (184)
+.++..++|+++++++++++.++.+.
T Consensus 7 i~i~Gm~iVF~~L~lL~~~i~l~~~~ 32 (79)
T PF04277_consen 7 IMIIGMGIVFLVLILLILVISLMSKL 32 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444443
No 149
>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=72.21 E-value=1.5 Score=26.92 Aligned_cols=37 Identities=19% Similarity=0.449 Sum_probs=19.1
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHH
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL 154 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~ 154 (184)
+...|.+|...|..-..-.....||++|+..|.....
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 4567999999996543333344699999999986543
No 150
>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=71.95 E-value=11 Score=20.54 Aligned_cols=25 Identities=20% Similarity=0.478 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhch
Q 042206 27 ISSVVCLILFLFYICYYLFTQLYSS 51 (184)
Q Consensus 27 i~~iv~li~~l~~~~~~~~~~~~~~ 51 (184)
|+..|++.+.++.++.++|.-.+++
T Consensus 8 IIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 8 IIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3334444445555555566665543
No 151
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=71.60 E-value=4.9 Score=27.54 Aligned_cols=46 Identities=24% Similarity=0.475 Sum_probs=34.0
Q ss_pred CccCcccccccccC----------CcceeccCCCCcccHhhHHHHHhCCCcccccc
Q 042206 119 TSTCVICLGEFRDG----------DECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 119 ~~~C~ICl~~~~~~----------~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
...|.-|...|... ........|++.|+.+|=.-+-..-.+||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 34699999988642 11233567999999999777777777899984
No 152
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.56 E-value=2.8 Score=35.73 Aligned_cols=37 Identities=24% Similarity=0.611 Sum_probs=28.9
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD 156 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~ 156 (184)
....+|.||.+.+.. . ...+.|||.|+..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~-~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--E-IIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--h-hhhcCCCcHHHHHHHHHHhhh
Confidence 356789999999865 2 334479999999999888753
No 153
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=71.37 E-value=18 Score=26.18 Aligned_cols=33 Identities=15% Similarity=0.353 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhh
Q 042206 34 ILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSS 66 (184)
Q Consensus 34 i~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 66 (184)
++++.+.....+.+..+++...+....+..++.
T Consensus 12 il~lvl~~l~~~Ir~lq~~~e~k~~~l~e~l~~ 44 (175)
T COG4741 12 ILALVLYLLRAYIRSLQGKVESKARELEETLQK 44 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333443444444444444444333
No 154
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=71.19 E-value=4.5 Score=38.11 Aligned_cols=61 Identities=21% Similarity=0.470 Sum_probs=40.2
Q ss_pred CCccCcccccccccCC--ccee-ccCCCCcccHhhHH-HHHhCCCccccccccccc-ccCCCCCCC
Q 042206 118 KTSTCVICLGEFRDGD--ECKV-RSKCNHIFHQTCID-DWLDDHSTCPLCRGRVRR-IAWPSVTTA 178 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~--~~~~-~~~C~H~Fh~~Ci~-~w~~~~~~CP~Cr~~~~~-~~~~~~~~~ 178 (184)
....|.||-++..... ++.+ +-.|+-=-|..|.+ +.-..+..||.|++.... +..|.+.+.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~kgsprv~gD 81 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHKGSPAILGD 81 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCCCcCcc
Confidence 4558999999975333 2222 23455558999986 333467889999998864 446666654
No 155
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=71.12 E-value=16 Score=26.16 Aligned_cols=18 Identities=6% Similarity=0.115 Sum_probs=6.5
Q ss_pred HHHHhhchHHHhhhHHHH
Q 042206 44 LFTQLYSSRIQTQNQDIE 61 (184)
Q Consensus 44 ~~~~~~~~r~~~~~~~~~ 61 (184)
+++....+-+..+.....
T Consensus 24 ~~~~pi~~~l~~R~~~I~ 41 (156)
T PRK05759 24 FVWPPIMKALEERQKKIA 41 (156)
T ss_pred HhHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 156
>PF15050 SCIMP: SCIMP protein
Probab=71.02 E-value=10 Score=26.23 Aligned_cols=16 Identities=19% Similarity=0.328 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 042206 27 ISSVVCLILFLFYICY 42 (184)
Q Consensus 27 i~~iv~li~~l~~~~~ 42 (184)
|+++-+++.++++++.
T Consensus 16 II~vS~~lglIlyCvc 31 (133)
T PF15050_consen 16 IILVSVVLGLILYCVC 31 (133)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333444444443
No 157
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=70.87 E-value=26 Score=25.26 Aligned_cols=6 Identities=0% Similarity=0.418 Sum_probs=2.1
Q ss_pred HhhhHH
Q 042206 54 QTQNQD 59 (184)
Q Consensus 54 ~~~~~~ 59 (184)
..+...
T Consensus 35 ~~R~~~ 40 (159)
T PRK13461 35 DSRQSE 40 (159)
T ss_pred HHHHHH
Confidence 333333
No 158
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=70.76 E-value=2.6 Score=33.30 Aligned_cols=49 Identities=24% Similarity=0.565 Sum_probs=35.1
Q ss_pred CccCcccccccccCCccee---ccCCCCcccHhhHHHHHh---------CCCccccccccc
Q 042206 119 TSTCVICLGEFRDGDECKV---RSKCNHIFHQTCIDDWLD---------DHSTCPLCRGRV 167 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~---~~~C~H~Fh~~Ci~~w~~---------~~~~CP~Cr~~~ 167 (184)
..+|.+|..++.+.+..+. .+.|+-.+|..|+..-+. ....||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3589999999965554443 235888899999998443 234699998754
No 159
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=69.97 E-value=21 Score=22.97 Aligned_cols=29 Identities=17% Similarity=0.124 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
+.+.++..++|+++++++++++.++.+..
T Consensus 8 ~~l~v~GM~~VF~fL~lLi~~i~~~~~~~ 36 (82)
T TIGR01195 8 ATLTVLGMGIVFLFLSLLIYAVRGMGKVV 36 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555555555555555555544443
No 160
>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=68.83 E-value=3.6 Score=23.95 Aligned_cols=40 Identities=15% Similarity=0.398 Sum_probs=25.4
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
|+-|-..+..++.+. . .-+..||..| ..|-.|++++....
T Consensus 1 C~~C~~~I~~~~~~~-~-~~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-K-AMGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEE-E-ETTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEE-E-eCCcEEEccc--------cccCCCCCccCCCe
Confidence 556666666544322 1 2677888888 67888887775543
No 161
>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=68.76 E-value=4.4 Score=23.62 Aligned_cols=35 Identities=23% Similarity=0.482 Sum_probs=25.2
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHH
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL 154 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~ 154 (184)
..|.+|-..|.....-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888988887644333444699999999987554
No 162
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=68.59 E-value=29 Score=26.41 Aligned_cols=33 Identities=15% Similarity=0.260 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhH
Q 042206 35 LFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQ 67 (184)
Q Consensus 35 ~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ 67 (184)
+++++++.++++....+-+..+...+...+...
T Consensus 59 lIlv~lL~k~l~kPi~~~L~~R~~~I~~~L~~A 91 (205)
T PRK06231 59 SILLLLGIFLFWKPTQRFLNKRKELIEAEINQA 91 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444433
No 163
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.40 E-value=2.6 Score=35.29 Aligned_cols=45 Identities=22% Similarity=0.488 Sum_probs=32.4
Q ss_pred CCccCcccccccccCCc--ceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 118 KTSTCVICLGEFRDGDE--CKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~--~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
.-..|+.|.-.+.-... ..... |||-|+..|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 45678888877654432 23354 89999999999999877777544
No 164
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=68.29 E-value=30 Score=22.43 Aligned_cols=19 Identities=21% Similarity=0.128 Sum_probs=9.1
Q ss_pred chhHHHHHHHHHHHHHHHH
Q 042206 14 EGLRLLVLTTPLVISSVVC 32 (184)
Q Consensus 14 ~~~~~~~~~~~ivi~~iv~ 32 (184)
.-++-|++.+..+++.+++
T Consensus 31 sfirdFvLVic~~lVfVii 49 (84)
T PF06143_consen 31 SFIRDFVLVICCFLVFVII 49 (84)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445555555555444443
No 165
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=67.81 E-value=31 Score=25.33 Aligned_cols=6 Identities=0% Similarity=0.074 Sum_probs=2.5
Q ss_pred cccCCC
Q 042206 3 FAVTPS 8 (184)
Q Consensus 3 ~~~~~~ 8 (184)
+++.++
T Consensus 3 ~~~~~~ 8 (173)
T PRK13460 3 LLAAKG 8 (173)
T ss_pred ccccCC
Confidence 444433
No 166
>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=67.40 E-value=3.1 Score=23.74 Aligned_cols=43 Identities=28% Similarity=0.627 Sum_probs=27.6
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHh------CCCccccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD------DHSTCPLCRG 165 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~------~~~~CP~Cr~ 165 (184)
|.+|... ..++.+...-.|+..||..|+..-.. ..-.||.|+.
T Consensus 2 C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 7888883 33334344446888999999875432 2346888853
No 167
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=67.09 E-value=21 Score=27.25 Aligned_cols=27 Identities=19% Similarity=0.471 Sum_probs=15.6
Q ss_pred CCCcccHhhHHHHHh---CCCccccccccc
Q 042206 141 CNHIFHQTCIDDWLD---DHSTCPLCRGRV 167 (184)
Q Consensus 141 C~H~Fh~~Ci~~w~~---~~~~CP~Cr~~~ 167 (184)
|.|.||..-+...-. ....||.|+...
T Consensus 195 C~~C~hhngl~~~~ek~~~efiC~~Cn~~n 224 (251)
T COG5415 195 CPQCHHHNGLYRLAEKPIIEFICPHCNHKN 224 (251)
T ss_pred cccccccccccccccccchheecccchhhc
Confidence 766665544433322 245799997644
No 168
>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=67.01 E-value=4.6 Score=21.06 Aligned_cols=36 Identities=25% Similarity=0.649 Sum_probs=22.9
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
|..|-..+..++. .+. .=+..||.+| ..|..|+..|
T Consensus 2 C~~C~~~i~~~~~-~~~-~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLR-ALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEE-eCCccccccC--------CCCcccCCcC
Confidence 6777777766422 222 2467888888 5677777665
No 169
>PLN02189 cellulose synthase
Probab=66.40 E-value=8.5 Score=36.23 Aligned_cols=60 Identities=23% Similarity=0.475 Sum_probs=39.0
Q ss_pred CCccCcccccccccCC--ccee-ccCCCCcccHhhHHHH-HhCCCcccccccccccc-cCCCCCC
Q 042206 118 KTSTCVICLGEFRDGD--ECKV-RSKCNHIFHQTCIDDW-LDDHSTCPLCRGRVRRI-AWPSVTT 177 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~--~~~~-~~~C~H~Fh~~Ci~~w-~~~~~~CP~Cr~~~~~~-~~~~~~~ 177 (184)
....|.||-++..... +..+ +-.|+---|..|.+-= -..+..||.|++....- ..+.+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kgs~~v~g 97 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLKGSPRVEG 97 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCCcCC
Confidence 4558999999986322 2222 3346666899998632 34577899999988643 3555544
No 170
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=66.07 E-value=12 Score=21.35 Aligned_cols=14 Identities=14% Similarity=0.318 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHhh
Q 042206 36 FLFYICYYLFTQLY 49 (184)
Q Consensus 36 ~l~~~~~~~~~~~~ 49 (184)
+++.+++|.+..++
T Consensus 21 ~F~gi~~w~~~~~~ 34 (49)
T PF05545_consen 21 FFIGIVIWAYRPRN 34 (49)
T ss_pred HHHHHHHHHHcccc
Confidence 33344444444333
No 171
>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=65.99 E-value=11 Score=29.04 Aligned_cols=40 Identities=28% Similarity=0.404 Sum_probs=27.3
Q ss_pred cCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 5 VTPSTCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYL 44 (184)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~ 44 (184)
.++.+-|+..+..+.+.+..+||.+.+++++.++.+||--
T Consensus 178 St~stspS~S~vilpvvIaliVitl~vf~LvgLyr~C~k~ 217 (259)
T PF07010_consen 178 STSSTSPSYSSVILPVVIALIVITLSVFTLVGLYRMCWKT 217 (259)
T ss_pred ccccCCccccchhHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 3445556666666666777777777777777777777754
No 172
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.63 E-value=5.1 Score=32.48 Aligned_cols=45 Identities=16% Similarity=0.386 Sum_probs=32.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC---Cccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLC 163 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~CP~C 163 (184)
....|++--+.- .++..++.+.|||+.-.+-++...++. ..||+|
T Consensus 335 s~FiCPVlKe~~-t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 335 SLFICPVLKELC-TDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ceeeccccHhhh-cccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 455677654443 334446777899999999999877653 459999
No 173
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=64.42 E-value=34 Score=24.65 Aligned_cols=13 Identities=15% Similarity=0.337 Sum_probs=5.0
Q ss_pred HHHhhhHHHHhhh
Q 042206 52 RIQTQNQDIEQGL 64 (184)
Q Consensus 52 r~~~~~~~~~~~~ 64 (184)
-+..+.+.....+
T Consensus 50 ~l~~R~~~I~~~l 62 (156)
T CHL00118 50 VLDERKEYIRKNL 62 (156)
T ss_pred HHHHHHHHHHHHH
Confidence 3333433333333
No 174
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=64.41 E-value=34 Score=25.05 Aligned_cols=9 Identities=11% Similarity=0.328 Sum_probs=3.3
Q ss_pred HHhhhHHHH
Q 042206 53 IQTQNQDIE 61 (184)
Q Consensus 53 ~~~~~~~~~ 61 (184)
+..+...+.
T Consensus 48 l~~R~~~I~ 56 (174)
T PRK07352 48 LEERREAIL 56 (174)
T ss_pred HHHHHHHHH
Confidence 333333333
No 175
>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 PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=63.04 E-value=4.2 Score=21.86 Aligned_cols=26 Identities=38% Similarity=0.744 Sum_probs=14.5
Q ss_pred cCcccccccccCCc-c------eeccCCCCccc
Q 042206 121 TCVICLGEFRDGDE-C------KVRSKCNHIFH 146 (184)
Q Consensus 121 ~C~ICl~~~~~~~~-~------~~~~~C~H~Fh 146 (184)
+|+-|-..|.-.++ + ...+.|+|.|.
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 57777777765443 1 11345667664
No 177
>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=62.38 E-value=13 Score=22.13 Aligned_cols=46 Identities=26% Similarity=0.683 Sum_probs=32.9
Q ss_pred cCcccccccccCC-cceeccCCC--CcccHhhHHHHHhCCCccccccccccccc
Q 042206 121 TCVICLGEFRDGD-ECKVRSKCN--HIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171 (184)
Q Consensus 121 ~C~ICl~~~~~~~-~~~~~~~C~--H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~ 171 (184)
.|--|-.++..++ +.++ |. ..||.+|....+ +..||.|-..+...+
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 4677777777665 3333 65 459999999877 578999987775543
No 178
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=62.25 E-value=51 Score=23.36 Aligned_cols=13 Identities=23% Similarity=0.419 Sum_probs=5.0
Q ss_pred HHHhhhHHHHhhh
Q 042206 52 RIQTQNQDIEQGL 64 (184)
Q Consensus 52 r~~~~~~~~~~~~ 64 (184)
-+..+.+.+...+
T Consensus 35 ~l~~R~~~I~~~l 47 (141)
T PRK08476 35 FMDNRNASIKNDL 47 (141)
T ss_pred HHHHHHHHHHHHH
Confidence 3333433343333
No 179
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=61.11 E-value=14 Score=23.71 Aligned_cols=16 Identities=13% Similarity=0.293 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHHhhc
Q 042206 35 LFLFYICYYLFTQLYS 50 (184)
Q Consensus 35 ~~l~~~~~~~~~~~~~ 50 (184)
+++..++|.+.+..|+
T Consensus 16 ~iiaIvvW~iv~ieYr 31 (81)
T PF00558_consen 16 LIIAIVVWTIVYIEYR 31 (81)
T ss_dssp HHHHHHHHHHH-----
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334444545555553
No 180
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=60.63 E-value=32 Score=21.53 Aligned_cols=28 Identities=14% Similarity=0.157 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 22 TTPLVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
++.+.++.++++++++++.++-.+.+++
T Consensus 9 i~Gm~iVF~~L~lL~~~i~l~~~~~~~~ 36 (79)
T PF04277_consen 9 IIGMGIVFLVLILLILVISLMSKLIRKF 36 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3333333333333333333333334444
No 181
>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=60.30 E-value=8.3 Score=29.66 Aligned_cols=11 Identities=36% Similarity=0.410 Sum_probs=4.0
Q ss_pred HHHHHHHHHHH
Q 042206 24 PLVISSVVCLI 34 (184)
Q Consensus 24 ~ivi~~iv~li 34 (184)
-++|.++++||
T Consensus 17 NiaI~IV~lLI 27 (217)
T PF07423_consen 17 NIAIGIVSLLI 27 (217)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 182
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.42 E-value=1.6 Score=34.93 Aligned_cols=49 Identities=22% Similarity=0.455 Sum_probs=37.9
Q ss_pred CCccCccccccccc--CCcceeccC--------CCCcccHhhHHHHHhC-CCcccccccc
Q 042206 118 KTSTCVICLGEFRD--GDECKVRSK--------CNHIFHQTCIDDWLDD-HSTCPLCRGR 166 (184)
Q Consensus 118 ~~~~C~ICl~~~~~--~~~~~~~~~--------C~H~Fh~~Ci~~w~~~-~~~CP~Cr~~ 166 (184)
....|.||...+.. +..++..+. |||..+..|+..-+.+ ...||.||..
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 45679999999983 334455556 9999999999998754 3589999874
No 183
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=59.36 E-value=46 Score=24.63 Aligned_cols=17 Identities=18% Similarity=0.223 Sum_probs=6.4
Q ss_pred HhhchHHHhhhHHHHhh
Q 042206 47 QLYSSRIQTQNQDIEQG 63 (184)
Q Consensus 47 ~~~~~r~~~~~~~~~~~ 63 (184)
.....-+..+...+...
T Consensus 47 kPI~~~l~~R~~~I~~~ 63 (184)
T CHL00019 47 GVLSDLLDNRKQTILNT 63 (184)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 33333333343333333
No 184
>PF15102 TMEM154: TMEM154 protein family
Probab=58.88 E-value=1.7 Score=31.12 Aligned_cols=8 Identities=38% Similarity=0.870 Sum_probs=3.9
Q ss_pred HHHHHHHH
Q 042206 18 LLVLTTPL 25 (184)
Q Consensus 18 ~~~~~~~i 25 (184)
+++++++.
T Consensus 58 iLmIlIP~ 65 (146)
T PF15102_consen 58 ILMILIPL 65 (146)
T ss_pred EEEEeHHH
Confidence 44455554
No 185
>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=58.85 E-value=18 Score=25.23 Aligned_cols=16 Identities=31% Similarity=0.632 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 042206 26 VISSVVCLILFLFYIC 41 (184)
Q Consensus 26 vi~~iv~li~~l~~~~ 41 (184)
++.+++.++++++|++
T Consensus 73 v~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 73 VMAGVIGIILLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333344333433
No 186
>PF14979 TMEM52: Transmembrane 52
Probab=58.62 E-value=30 Score=24.86 Aligned_cols=36 Identities=19% Similarity=0.190 Sum_probs=20.5
Q ss_pred CCCCC-CcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 7 PSTCP-NDEGLRLLVLTTPLVISSVVCLILFLFYICY 42 (184)
Q Consensus 7 ~~~~~-~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~ 42 (184)
+..|+ ...-..+|.+.+.++++.++++-.+...++-
T Consensus 7 ~e~C~~~~~W~~LWyIwLill~~~llLLCG~ta~C~r 43 (154)
T PF14979_consen 7 PEMCPPQTRWSSLWYIWLILLIGFLLLLCGLTASCVR 43 (154)
T ss_pred cccCCCccceehhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45676 5555667776666665555555444444433
No 187
>PLN02400 cellulose synthase
Probab=57.65 E-value=10 Score=35.82 Aligned_cols=61 Identities=25% Similarity=0.532 Sum_probs=39.6
Q ss_pred CCccCcccccccccCC--ccee-ccCCCCcccHhhHH-HHHhCCCccccccccccc-ccCCCCCCC
Q 042206 118 KTSTCVICLGEFRDGD--ECKV-RSKCNHIFHQTCID-DWLDDHSTCPLCRGRVRR-IAWPSVTTA 178 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~--~~~~-~~~C~H~Fh~~Ci~-~w~~~~~~CP~Cr~~~~~-~~~~~~~~~ 178 (184)
....|.||-++..... ++.+ +-.|+-=-|..|.+ +.-..+..||.|++.... +..|.+.+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~KgsprV~GD 100 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHKGSPRVEGD 100 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccccCCCCCCcc
Confidence 4558999999975333 2222 33455558889985 333457789999998864 446666554
No 188
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=57.62 E-value=26 Score=24.64 Aligned_cols=29 Identities=14% Similarity=0.204 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchHHHhh
Q 042206 28 SSVVCLILFLFYICYYLFTQLYSSRIQTQ 56 (184)
Q Consensus 28 ~~iv~li~~l~~~~~~~~~~~~~~r~~~~ 56 (184)
+..+++++.++.+..+++.+++.+|+-.+
T Consensus 11 ~~W~~vli~l~~IGGfFMFRKFLK~lPKe 39 (141)
T PF11084_consen 11 LFWVVVLIGLMAIGGFFMFRKFLKRLPKE 39 (141)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHhCCcc
Confidence 33444444555556666667776665443
No 189
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=56.74 E-value=59 Score=21.98 Aligned_cols=10 Identities=20% Similarity=0.498 Sum_probs=4.0
Q ss_pred hHHHhhhHHH
Q 042206 51 SRIQTQNQDI 60 (184)
Q Consensus 51 ~r~~~~~~~~ 60 (184)
.+.+.++...
T Consensus 28 ~~L~a~n~~q 37 (110)
T PF10828_consen 28 DRLRAENKAQ 37 (110)
T ss_pred HHHHHHHHHH
Confidence 3444444333
No 190
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=56.69 E-value=4.7 Score=23.55 Aligned_cols=12 Identities=33% Similarity=0.930 Sum_probs=6.3
Q ss_pred Cccccccccccc
Q 042206 158 STCPLCRGRVRR 169 (184)
Q Consensus 158 ~~CP~Cr~~~~~ 169 (184)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999988865
No 191
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=56.19 E-value=40 Score=23.07 Aligned_cols=11 Identities=27% Similarity=0.386 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 042206 21 LTTPLVISSVV 31 (184)
Q Consensus 21 ~~~~ivi~~iv 31 (184)
|++.++++.+|
T Consensus 63 ffvglii~Liv 73 (128)
T PF15145_consen 63 FFVGLIIVLIV 73 (128)
T ss_pred hHHHHHHHHHH
Confidence 33333333333
No 192
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=55.51 E-value=31 Score=24.80 Aligned_cols=12 Identities=33% Similarity=0.323 Sum_probs=4.7
Q ss_pred HHHHHHHhhchH
Q 042206 41 CYYLFTQLYSSR 52 (184)
Q Consensus 41 ~~~~~~~~~~~r 52 (184)
++++++.++.+|
T Consensus 44 iiivli~lcssR 55 (189)
T PF05568_consen 44 IIIVLIYLCSSR 55 (189)
T ss_pred HHHHHHHHHhhh
Confidence 333444444333
No 193
>PF13198 DUF4014: Protein of unknown function (DUF4014)
Probab=55.41 E-value=49 Score=20.64 Aligned_cols=21 Identities=19% Similarity=0.297 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042206 19 LVLTTPLVISSVVCLILFLFY 39 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~ 39 (184)
+++.+.+++.+..+++++++.
T Consensus 21 ~ilfIvlmipI~pll~~~~i~ 41 (72)
T PF13198_consen 21 FILFIVLMIPISPLLFVWIIG 41 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444433333333
No 194
>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=55.38 E-value=3.9 Score=34.13 Aligned_cols=51 Identities=20% Similarity=0.526 Sum_probs=0.0
Q ss_pred CCccCcccccccc-------------cCC--cceeccCCCCcccHhhHHHHHhC---------CCcccccccccc
Q 042206 118 KTSTCVICLGEFR-------------DGD--ECKVRSKCNHIFHQTCIDDWLDD---------HSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~-------------~~~--~~~~~~~C~H~Fh~~Ci~~w~~~---------~~~CP~Cr~~~~ 168 (184)
...+|++|+..-. .+. ......||||+--.....-|.+. +..||.|-.+|.
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 3778999995432 111 11123379999999999999752 346999987775
No 195
>PLN02436 cellulose synthase A
Probab=55.14 E-value=18 Score=34.36 Aligned_cols=60 Identities=28% Similarity=0.505 Sum_probs=38.2
Q ss_pred CCccCcccccccccCC--ccee-ccCCCCcccHhhHHHHH-hCCCcccccccccccc-cCCCCCC
Q 042206 118 KTSTCVICLGEFRDGD--ECKV-RSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVRRI-AWPSVTT 177 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~--~~~~-~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~~~-~~~~~~~ 177 (184)
....|.||-++..... ++.+ +-.|+--.|..|.+-=- ..+..||.|++....- ..+.+..
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~kgs~~~~~ 99 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIKGSPRVEG 99 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCCcCC
Confidence 4558999999974322 2222 33466558999986322 3567899999988643 3444444
No 196
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=55.07 E-value=5.5 Score=21.28 Aligned_cols=26 Identities=38% Similarity=0.750 Sum_probs=14.6
Q ss_pred cCcccccccccCCc-ce------eccCCCCccc
Q 042206 121 TCVICLGEFRDGDE-CK------VRSKCNHIFH 146 (184)
Q Consensus 121 ~C~ICl~~~~~~~~-~~------~~~~C~H~Fh 146 (184)
+|+=|...|..+++ ++ ..+.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 57777777765543 11 1335677663
No 197
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=54.72 E-value=25 Score=20.51 Aligned_cols=19 Identities=16% Similarity=-0.015 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 042206 31 VCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 31 v~li~~l~~~~~~~~~~~~ 49 (184)
++.+++++.++|.+...+|
T Consensus 13 ~l~~~~l~~f~Wavk~GQf 31 (51)
T TIGR00847 13 LLGGVGLVAFLWSLKSGQY 31 (51)
T ss_pred HHHHHHHHHHHHHHccCCC
Confidence 3333444444444433333
No 198
>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=54.57 E-value=10 Score=19.15 Aligned_cols=29 Identities=21% Similarity=0.416 Sum_probs=10.5
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhH
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCI 150 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci 150 (184)
.|.+|-..... +.......|.-.+|..|+
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 47777777655 344556678888888885
No 199
>PF13974 YebO: YebO-like protein
Probab=54.17 E-value=38 Score=21.74 Aligned_cols=27 Identities=11% Similarity=0.128 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchHHHh
Q 042206 29 SVVCLILFLFYICYYLFTQLYSSRIQT 55 (184)
Q Consensus 29 ~iv~li~~l~~~~~~~~~~~~~~r~~~ 55 (184)
++++++.++++++.-....+-+..++-
T Consensus 5 ~~~~lv~livWFFVnRaSvRANEQI~L 31 (80)
T PF13974_consen 5 VLVLLVGLIVWFFVNRASVRANEQIEL 31 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 344445555555555555555555443
No 200
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.87 E-value=9.3 Score=30.78 Aligned_cols=49 Identities=27% Similarity=0.678 Sum_probs=37.4
Q ss_pred CCCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
.+...|.+|...+.-... .. .|.|.|+..|...|....+.||.||....
T Consensus 103 ~~~~~~~~~~g~l~vpt~--~q-g~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTR--IQ-GCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEeccc--cc-CceeeeeecCCchhhhhhhccchhhcCcC
Confidence 466678999888754211 11 49999999999999999999999986543
No 201
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=52.59 E-value=23 Score=33.56 Aligned_cols=61 Identities=21% Similarity=0.437 Sum_probs=39.2
Q ss_pred CCccCcccccccccCC--cce-eccCCCCcccHhhHHHH-HhCCCccccccccccc-ccCCCCCCC
Q 042206 118 KTSTCVICLGEFRDGD--ECK-VRSKCNHIFHQTCIDDW-LDDHSTCPLCRGRVRR-IAWPSVTTA 178 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~--~~~-~~~~C~H~Fh~~Ci~~w-~~~~~~CP~Cr~~~~~-~~~~~~~~~ 178 (184)
....|.||-++..... +.. .+-.|+--.|..|.+-= -..+..||.|++.... ...+.+.+.
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~~~~~~~d 79 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHKGCPRVEGD 79 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCCCccCC
Confidence 5667999999975333 222 23345555899998532 2457789999998864 335555553
No 202
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=52.25 E-value=28 Score=28.81 Aligned_cols=25 Identities=16% Similarity=0.353 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 25 LVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 25 ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
++|+++|++++++.+++=|....++
T Consensus 317 IAIvvIVLIMvIIYLILRYRRKKKM 341 (353)
T TIGR01477 317 IAILIIVLIMVIIYLILRYRRKKKM 341 (353)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcchh
Confidence 3333444444444444444444333
No 203
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=51.97 E-value=31 Score=17.40 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q 042206 29 SVVCLILFLFYICY 42 (184)
Q Consensus 29 ~iv~li~~l~~~~~ 42 (184)
.++++++.+.++++
T Consensus 8 g~llv~lLl~YLvY 21 (29)
T PRK14750 8 GALLVLLLLGYLVY 21 (29)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333344444443
No 204
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.91 E-value=15 Score=32.94 Aligned_cols=52 Identities=25% Similarity=0.462 Sum_probs=37.1
Q ss_pred cCcccccccccCCcceeccCCCC-cccHhhHHHHHh--C----CCcccccccccccccCCCCC
Q 042206 121 TCVICLGEFRDGDECKVRSKCNH-IFHQTCIDDWLD--D----HSTCPLCRGRVRRIAWPSVT 176 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H-~Fh~~Ci~~w~~--~----~~~CP~Cr~~~~~~~~~~~~ 176 (184)
.|+||-....- .....||| .-+..|..+... . .+.||.||..+.........
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 48898877654 44557999 799999887753 3 45689999977665554443
No 205
>PTZ00046 rifin; Provisional
Probab=51.84 E-value=29 Score=28.83 Aligned_cols=25 Identities=16% Similarity=0.365 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 25 LVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 25 ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
+.|+++|++++++.+++=|.+..++
T Consensus 322 iAIvVIVLIMvIIYLILRYRRKKKM 346 (358)
T PTZ00046 322 VAIVVIVLIMVIIYLILRYRRKKKM 346 (358)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcchh
Confidence 3333334444444444444444333
No 206
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=51.49 E-value=27 Score=23.73 Aligned_cols=19 Identities=5% Similarity=0.091 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 042206 28 SSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 28 ~~iv~li~~l~~~~~~~~~ 46 (184)
+++++++++++-+..|...
T Consensus 7 l~llLll~l~asl~~wr~~ 25 (107)
T PF15330_consen 7 LALLLLLSLAASLLAWRMK 25 (107)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444433
No 207
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=51.04 E-value=55 Score=23.04 Aligned_cols=7 Identities=29% Similarity=0.591 Sum_probs=2.5
Q ss_pred HhhhHHH
Q 042206 54 QTQNQDI 60 (184)
Q Consensus 54 ~~~~~~~ 60 (184)
..+...+
T Consensus 25 ~~R~~~I 31 (147)
T TIGR01144 25 ETRQKKI 31 (147)
T ss_pred HHHHHHH
Confidence 3333333
No 208
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=50.31 E-value=3.9 Score=24.30 Aligned_cols=19 Identities=26% Similarity=0.539 Sum_probs=14.8
Q ss_pred eeccCCCCcccHhhHHHHH
Q 042206 136 KVRSKCNHIFHQTCIDDWL 154 (184)
Q Consensus 136 ~~~~~C~H~Fh~~Ci~~w~ 154 (184)
...+.|+|.||..|..+|-
T Consensus 41 v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 41 VTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred eECCCCCCeECCCCCCcCC
Confidence 3344689999999998884
No 209
>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=49.77 E-value=28 Score=19.70 Aligned_cols=17 Identities=6% Similarity=0.065 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042206 30 VVCLILFLFYICYYLFT 46 (184)
Q Consensus 30 iv~li~~l~~~~~~~~~ 46 (184)
+++.++++..++|.+..
T Consensus 11 l~l~~~~l~~f~Wavk~ 27 (45)
T PF03597_consen 11 LILGLIALAAFLWAVKS 27 (45)
T ss_pred HHHHHHHHHHHHHHHcc
Confidence 33334444444444433
No 210
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=49.70 E-value=44 Score=24.18 Aligned_cols=14 Identities=7% Similarity=-0.038 Sum_probs=8.1
Q ss_pred CCCccCcccccccc
Q 042206 117 NKTSTCVICLGEFR 130 (184)
Q Consensus 117 ~~~~~C~ICl~~~~ 130 (184)
-.+...++++-+-.
T Consensus 95 Gg~LSFslAlLD~~ 108 (151)
T PF14584_consen 95 GGDLSFSLALLDDN 108 (151)
T ss_pred cccceeeeEEEeCC
Confidence 35556677665543
No 211
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=48.16 E-value=74 Score=20.60 Aligned_cols=29 Identities=28% Similarity=0.226 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
+.+.++..++|++++.+++++..++.+.+
T Consensus 12 ~~lm~~GM~~VF~fL~lLi~~~~l~~~~~ 40 (85)
T PRK03814 12 ATLMLTGMGVVFIFLTLLVYLVQLMSKLI 40 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34444444455544444444444444443
No 212
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.11 E-value=20 Score=22.42 Aligned_cols=45 Identities=24% Similarity=0.593 Sum_probs=28.5
Q ss_pred CcccccccccCCcceeccCCC--CcccHhhHHHHHhCCCcccccccccccc
Q 042206 122 CVICLGEFRDGDECKVRSKCN--HIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~--H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
|--|-.++..+..-.. -|. |.||.+|...-+ +..||.|-..+...
T Consensus 8 CECCDrDLpp~s~dA~--ICtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 8 CECCDRDLPPDSTDAR--ICTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CcccCCCCCCCCCcee--EEEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 5555566655443221 154 889999998755 57899996655443
No 213
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=47.43 E-value=5.3 Score=31.95 Aligned_cols=40 Identities=15% Similarity=0.542 Sum_probs=29.8
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
-...|+.|.+-+.+.+.++.. =.|+||..|+ .|-+|++.+
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF--------~C~iC~R~L 130 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHCF--------ACFICKRQL 130 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhhh--------hhHhhhccc
Confidence 345699999998887777753 6899999995 466666555
No 214
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.22 E-value=9.9 Score=24.91 Aligned_cols=12 Identities=25% Similarity=0.946 Sum_probs=10.8
Q ss_pred cccHhhHHHHHh
Q 042206 144 IFHQTCIDDWLD 155 (184)
Q Consensus 144 ~Fh~~Ci~~w~~ 155 (184)
.||..|+..|++
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 215
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=46.29 E-value=61 Score=24.87 Aligned_cols=21 Identities=19% Similarity=0.573 Sum_probs=7.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVVCLILF 36 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv~li~~ 36 (184)
..+++.++.|.++++++.++|
T Consensus 128 ~amLIClIIIAVLfLICT~Lf 148 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICTLLF 148 (227)
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333
No 216
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=45.78 E-value=28 Score=27.87 Aligned_cols=7 Identities=43% Similarity=0.828 Sum_probs=2.8
Q ss_pred HHHHhhc
Q 042206 44 LFTQLYS 50 (184)
Q Consensus 44 ~~~~~~~ 50 (184)
+++..|+
T Consensus 278 LYiWlyr 284 (295)
T TIGR01478 278 LYIWLYR 284 (295)
T ss_pred HHHHHHH
Confidence 3334443
No 217
>PLN02248 cellulose synthase-like protein
Probab=45.39 E-value=48 Score=31.78 Aligned_cols=36 Identities=17% Similarity=0.413 Sum_probs=29.1
Q ss_pred CCCCcccHhhHHHHHhCCCcccccccccccccCCCC
Q 042206 140 KCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAWPSV 175 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~ 175 (184)
.|++..|.+|...-++....||-|+.+.........
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTDLDDE 184 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccccccccc
Confidence 477899999999999988999999988855444443
No 218
>COG1704 LemA Uncharacterized conserved protein [Function unknown]
Probab=45.07 E-value=1e+02 Score=23.13 Aligned_cols=10 Identities=20% Similarity=-0.097 Sum_probs=3.6
Q ss_pred hhhhHHHHHH
Q 042206 63 GLSSQQQQQQ 72 (184)
Q Consensus 63 ~~~~~~~~~~ 72 (184)
+.+-+.+.++
T Consensus 36 wSqI~vqlqr 45 (185)
T COG1704 36 WSQIDVQLQR 45 (185)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 219
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=45.05 E-value=43 Score=16.93 Aligned_cols=17 Identities=35% Similarity=0.655 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042206 27 ISSVVCLILFLFYICYY 43 (184)
Q Consensus 27 i~~iv~li~~l~~~~~~ 43 (184)
|+.++++++++.++++.
T Consensus 6 i~G~ilv~lLlgYLvyA 22 (29)
T PRK14748 6 ITGVLLVFLLLGYLVYA 22 (29)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444443
No 220
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=45.01 E-value=73 Score=23.55 Aligned_cols=14 Identities=14% Similarity=0.235 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q 042206 32 CLILFLFYICYYLF 45 (184)
Q Consensus 32 ~li~~l~~~~~~~~ 45 (184)
+++.++.+++|--+
T Consensus 36 ill~lL~~fl~kPI 49 (184)
T CHL00019 36 VVLGVLIYFGKGVL 49 (184)
T ss_pred HHHHHHHHHhHhHH
Confidence 33333333333333
No 221
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=44.85 E-value=12 Score=21.79 Aligned_cols=23 Identities=30% Similarity=0.751 Sum_probs=13.0
Q ss_pred CCCCcccHhhHHHHHhCCCccccc
Q 042206 140 KCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
.|||.|-..=-.+ ......||.|
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 5677554432222 2456779987
No 222
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=44.52 E-value=17 Score=29.70 Aligned_cols=47 Identities=21% Similarity=0.485 Sum_probs=32.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
....|-.|.+....... .....|.|.||.+|=.-.-..-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~-y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGR-YRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCc-EEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 44559999666555433 345579999999995444445567999963
No 223
>PF15353 HECA: Headcase protein family homologue
Probab=44.46 E-value=14 Score=24.94 Aligned_cols=14 Identities=21% Similarity=0.914 Sum_probs=12.4
Q ss_pred CCCCcccHhhHHHH
Q 042206 140 KCNHIFHQTCIDDW 153 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w 153 (184)
|.++.+|.+|++.|
T Consensus 39 p~~~~MH~~CF~~w 52 (107)
T PF15353_consen 39 PFGQYMHRECFEKW 52 (107)
T ss_pred CCCCchHHHHHHHH
Confidence 35899999999999
No 224
>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=44.34 E-value=12 Score=24.64 Aligned_cols=39 Identities=18% Similarity=0.266 Sum_probs=30.8
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
.-..|.-|...+.--|.+++. .|+..+..|..|++++..
T Consensus 32 ~rS~C~~C~~~L~~~~lIPi~-------------S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIPIL-------------SYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccccchHH-------------HHHHhCCCCcccCCCCCh
Confidence 345699998888887777765 588889999999988743
No 225
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=43.96 E-value=72 Score=21.21 Aligned_cols=42 Identities=7% Similarity=0.037 Sum_probs=18.1
Q ss_pred CCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042206 8 STCPNDEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~ 49 (184)
||.+-.-.+..+.+-.+++++++...+...++..+.-..+.+
T Consensus 44 Nt~~V~~~~lfg~~~~PLilvil~s~v~G~Li~~~~~~~Ri~ 85 (98)
T COG5416 44 NTDSVEFNYLFGQWELPLILVILGAAVVGALIAMFAGIARIL 85 (98)
T ss_pred ccCceEEEeecchhhhhHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 344444444444444555544444444443444443333433
No 226
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=43.64 E-value=73 Score=24.46 Aligned_cols=28 Identities=21% Similarity=0.420 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 19 LVLTTPLVISSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~~~~~~~~ 46 (184)
+.+++.++|+++++++-.++|+-..++.
T Consensus 128 ~amLIClIIIAVLfLICT~LfLSTVVLA 155 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICTLLFLSTVVLA 155 (227)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444443
No 227
>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=43.20 E-value=14 Score=19.20 Aligned_cols=20 Identities=25% Similarity=0.677 Sum_probs=11.2
Q ss_pred CCCCcccHhhHHHHHhCCCccccccc
Q 042206 140 KCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 140 ~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
.|||++-..- ....||.|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 4666544322 3457888854
No 228
>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=42.97 E-value=8.3 Score=30.88 Aligned_cols=48 Identities=15% Similarity=0.223 Sum_probs=22.1
Q ss_pred CCCccCcccccccccCCcceecc-CCCCcccHhhHHHHHhCCCcccccc
Q 042206 117 NKTSTCVICLGEFRDGDECKVRS-KCNHIFHQTCIDDWLDDHSTCPLCR 164 (184)
Q Consensus 117 ~~~~~C~ICl~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~CP~Cr 164 (184)
.....|++|-..-.-..-...-. .-.|.+|..|-..|-.....||.|-
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg 218 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCG 218 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT-
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCC
Confidence 35579999987754321100000 1246788899999987788999993
No 229
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=42.90 E-value=16 Score=29.72 Aligned_cols=47 Identities=9% Similarity=-0.035 Sum_probs=34.0
Q ss_pred ccCCCCccCcccccccccCCcceeccCCCCc-ccHhhHHHHHhCCCcccccccc
Q 042206 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHI-FHQTCIDDWLDDHSTCPLCRGR 166 (184)
Q Consensus 114 ~~~~~~~~C~ICl~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~CP~Cr~~ 166 (184)
+..-...+|-.|-+.... .++.+|+|. |+-.|.. +.-..+||.|...
T Consensus 338 ~~~~s~~~~~~~~~~~~s----t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGLLS----TIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred ccchhhcccccccCceee----eEeecCCcccChhhhhh--cccCCcccccccc
Confidence 333456678888776655 566689985 9999987 4567889999664
No 230
>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=42.83 E-value=2.8 Score=26.16 Aligned_cols=41 Identities=24% Similarity=0.532 Sum_probs=21.0
Q ss_pred ccCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccccccccc
Q 042206 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 120 ~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
..|+.|..++.... +|.+|..|-.. +.....||-|..++..
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 35888888875522 55566666543 3445678888877754
No 231
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=41.97 E-value=11 Score=22.69 Aligned_cols=18 Identities=33% Similarity=1.082 Sum_probs=12.5
Q ss_pred HHHhC------CCccccccccccc
Q 042206 152 DWLDD------HSTCPLCRGRVRR 169 (184)
Q Consensus 152 ~w~~~------~~~CP~Cr~~~~~ 169 (184)
-|++. ...||+|..+...
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMVS 51 (59)
T ss_pred cccccccccCCCccCCCcCCcccc
Confidence 47664 3579999887644
No 232
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=41.80 E-value=1e+02 Score=21.97 Aligned_cols=16 Identities=25% Similarity=0.297 Sum_probs=6.7
Q ss_pred hHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVV 31 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv 31 (184)
..+|++.++.+++++.
T Consensus 92 ~a~Wi~tTSallLgvP 107 (137)
T PF04281_consen 92 KALWIVTTSALLLGVP 107 (137)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 3344444444444333
No 233
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=41.73 E-value=20 Score=32.80 Aligned_cols=26 Identities=8% Similarity=0.228 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~ 46 (184)
|.+.|+.-+++++++++.++++|++.
T Consensus 274 fLl~ILG~~~livl~lL~vLl~yCrr 299 (807)
T PF10577_consen 274 FLLAILGGTALIVLILLCVLLCYCRR 299 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 44444443444444444444444433
No 234
>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=41.59 E-value=18 Score=24.84 Aligned_cols=47 Identities=19% Similarity=0.342 Sum_probs=28.7
Q ss_pred CCccCcccccccccCC-cceeccCCCCcccHhhHHHHHhCCC--ccccccc
Q 042206 118 KTSTCVICLGEFRDGD-ECKVRSKCNHIFHQTCIDDWLDDHS--TCPLCRG 165 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~-~~~~~~~C~H~Fh~~Ci~~w~~~~~--~CP~Cr~ 165 (184)
....|++|...|..-. .-.....|+|.+|..|-.. ..+.. .|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5568999998874322 2245667999999999644 11111 4888854
No 235
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=41.51 E-value=59 Score=23.33 Aligned_cols=8 Identities=25% Similarity=0.081 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 042206 35 LFLFYICY 42 (184)
Q Consensus 35 ~~l~~~~~ 42 (184)
+++++.++
T Consensus 130 l~i~~giy 137 (145)
T PF10661_consen 130 LAICGGIY 137 (145)
T ss_pred HHHHHHHH
Confidence 33333333
No 236
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=40.80 E-value=1.4e+02 Score=21.59 Aligned_cols=23 Identities=22% Similarity=0.392 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 042206 27 ISSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 27 i~~iv~li~~l~~~~~~~~~~~~ 49 (184)
+...+...+++.+++++=+.|+.
T Consensus 11 ~~ag~a~~~flgYciYFD~KRR~ 33 (148)
T TIGR00985 11 IAAGIAAAAFLGYAIYFDYKRRN 33 (148)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcc
Confidence 33444556666677776665554
No 237
>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=40.67 E-value=40 Score=22.72 Aligned_cols=24 Identities=29% Similarity=0.772 Sum_probs=18.1
Q ss_pred CCcccHhhHHHHHhC---------CCccccccc
Q 042206 142 NHIFHQTCIDDWLDD---------HSTCPLCRG 165 (184)
Q Consensus 142 ~H~Fh~~Ci~~w~~~---------~~~CP~Cr~ 165 (184)
.=.||..||..++.. +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 556999999988742 235999976
No 238
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=40.28 E-value=4.1 Score=34.29 Aligned_cols=39 Identities=23% Similarity=0.576 Sum_probs=21.9
Q ss_pred CcccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccccC
Q 042206 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIAW 172 (184)
Q Consensus 122 C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 172 (184)
|..|-+.+.+ +++..||-.||..| .+|-+|.+.+..+.+
T Consensus 337 C~~Cg~~I~d----~iLrA~GkayHp~C--------F~Cv~C~r~ldgipF 375 (468)
T KOG1701|consen 337 CNKCGEPIMD----RILRALGKAYHPGC--------FTCVVCARCLDGIPF 375 (468)
T ss_pred HhhhhhHHHH----HHHHhcccccCCCc--------eEEEEeccccCCccc
Confidence 4455444444 44445666666666 456666665555444
No 239
>PF02158 Neuregulin: Neuregulin family; InterPro: IPR002154 Neuregulins are a sub-family of EGF-like molecules that have been shown to play multiple essential roles in vertebrate embryogenesis including: cardiac development, Schwann cell and oligodendrocyte differentiation, some aspects of neuronal development, as well as the formation of neuromuscular synapses [, ]. Included in the family are heregulin; neu differentiation factor; acetylcholine receptor synthesis stimulator; glial growth factor; and sensory and motor-neuron derived factor []. Multiple family members are generated by alternate splicing or by use of several cell type-specific transcription initiation sites. In general, they bind to and activate the erbB family of receptor tyrosine kinases (erbB2 (HER2), erbB3 (HER3), and erbB4 (HER4)), functioning both as heterodimers and homodimers. The transmembrane forms of neuregulin 1 (NRG1) are present within synaptic vesicles, including those containing glutamate []. After exocytosis, NRG1 is in the presynaptic membrane, where the ectodomain of NRG1 may be cleaved off. The ectodomain then migrates across the synaptic cleft and binds to and activates a member of the EGF-receptor family on the postsynaptic membrane. This has been shown to increase the expression of certain glutamate-receptor subunits. NRG1 appears to signal for glutamate-receptor subunit expression, localisation, and /or phosphorylation facilitating subsequent glutamate transmission. The NRG1 gene has been identified as a potential gene determining susceptibility to schizophrenia by a combination of genetic linkage and association approaches []. ; GO: 0005102 receptor binding, 0009790 embryo development; PDB: 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=40.26 E-value=9.4 Score=31.80 Aligned_cols=31 Identities=13% Similarity=0.190 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHH-HHHHHHhhchHHHhhhHHH
Q 042206 30 VVCLILFLFYIC-YYLFTQLYSSRIQTQNQDI 60 (184)
Q Consensus 30 iv~li~~l~~~~-~~~~~~~~~~r~~~~~~~~ 60 (184)
|.++++.++.++ +|+..++.+++++++..+.
T Consensus 17 vaLlVVGi~Cvv~aYCKTKKQRkklh~hLkqs 48 (404)
T PF02158_consen 17 VALLVVGIVCVVDAYCKTKKQRKKLHEHLKQS 48 (404)
T ss_dssp --------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 334444445555 6666666666666655543
No 240
>PF13748 ABC_membrane_3: ABC transporter transmembrane region
Probab=39.91 E-value=1.8e+02 Score=22.74 Aligned_cols=9 Identities=11% Similarity=-0.031 Sum_probs=3.4
Q ss_pred HHHHHHHhh
Q 042206 41 CYYLFTQLY 49 (184)
Q Consensus 41 ~~~~~~~~~ 49 (184)
++..|.+++
T Consensus 154 i~~~f~~~~ 162 (237)
T PF13748_consen 154 ILPRFARRN 162 (237)
T ss_pred HHHHHHHHH
Confidence 333344333
No 241
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=38.68 E-value=40 Score=29.77 Aligned_cols=9 Identities=11% Similarity=0.497 Sum_probs=3.6
Q ss_pred HHHHhhchH
Q 042206 44 LFTQLYSSR 52 (184)
Q Consensus 44 ~~~~~~~~r 52 (184)
++.+++.++
T Consensus 18 ~~rk~~~k~ 26 (560)
T PF06160_consen 18 IYRKRYYKE 26 (560)
T ss_pred HHHHHHHHH
Confidence 344444333
No 242
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=38.65 E-value=17 Score=28.29 Aligned_cols=42 Identities=29% Similarity=0.358 Sum_probs=29.3
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--CCcccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--HSTCPL 162 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~ 162 (184)
-+.+|+|-+..+... ....+|.|.|-.+-|...+.. ...||.
T Consensus 188 ~~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 356799866655431 334589999999999998873 445663
No 243
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=38.30 E-value=31 Score=24.26 Aligned_cols=7 Identities=0% Similarity=-0.107 Sum_probs=2.8
Q ss_pred HHHHHhh
Q 042206 43 YLFTQLY 49 (184)
Q Consensus 43 ~~~~~~~ 49 (184)
+++++.+
T Consensus 120 ~~~yr~~ 126 (139)
T PHA03099 120 LSVYRFT 126 (139)
T ss_pred Hhhheee
Confidence 3334444
No 244
>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=38.16 E-value=13 Score=26.96 Aligned_cols=45 Identities=22% Similarity=0.421 Sum_probs=28.7
Q ss_pred cccccccccCCcceeccCCCCcccHhhHHHHHhCCCcccccccccccc
Q 042206 123 VICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 123 ~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
.||+.--...+..-.-+.=.+.||.+|-.+-. ..||.|..++...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 36766655544433333345779999977655 4699998887653
No 245
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=38.14 E-value=58 Score=21.82 Aligned_cols=16 Identities=19% Similarity=0.229 Sum_probs=6.6
Q ss_pred hHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVV 31 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv 31 (184)
-+.|-+...+|+..++
T Consensus 14 g~sW~~LVGVv~~al~ 29 (102)
T PF15176_consen 14 GRSWPFLVGVVVTALV 29 (102)
T ss_pred CcccHhHHHHHHHHHH
Confidence 3444444444443333
No 246
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=38.04 E-value=99 Score=24.64 Aligned_cols=10 Identities=10% Similarity=0.415 Sum_probs=4.0
Q ss_pred chHHHhhhHH
Q 042206 50 SSRIQTQNQD 59 (184)
Q Consensus 50 ~~r~~~~~~~ 59 (184)
.++.-++.++
T Consensus 99 ek~~iee~e~ 108 (279)
T PF07271_consen 99 EKRMIEEKEE 108 (279)
T ss_pred HHHHHHHHHH
Confidence 4444343333
No 247
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.08 E-value=74 Score=22.58 Aligned_cols=12 Identities=33% Similarity=0.697 Sum_probs=9.6
Q ss_pred CCCccCcccccc
Q 042206 117 NKTSTCVICLGE 128 (184)
Q Consensus 117 ~~~~~C~ICl~~ 128 (184)
.++..|.||+..
T Consensus 63 ~ddatC~IC~KT 74 (169)
T KOG3799|consen 63 GDDATCGICHKT 74 (169)
T ss_pred CcCcchhhhhhc
Confidence 477889999954
No 248
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=36.93 E-value=25 Score=27.83 Aligned_cols=17 Identities=24% Similarity=-0.052 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042206 17 RLLVLTTPLVISSVVCL 33 (184)
Q Consensus 17 ~~~~~~~~ivi~~iv~l 33 (184)
..+-++.+++|++++.+
T Consensus 198 ~~~g~f~wl~i~~~l~~ 214 (268)
T PF09451_consen 198 GGWGFFTWLFIILFLFL 214 (268)
T ss_pred ccccHHHHHHHHHHHHH
Confidence 33444555554444443
No 249
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=36.88 E-value=17 Score=32.75 Aligned_cols=50 Identities=30% Similarity=0.527 Sum_probs=32.8
Q ss_pred CCccCcccccccccCC-cceecc-----CCCCcccHhhHHHH--H--------hCCCccccccccc
Q 042206 118 KTSTCVICLGEFRDGD-ECKVRS-----KCNHIFHQTCIDDW--L--------DDHSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~-~~~~~~-----~C~H~Fh~~Ci~~w--~--------~~~~~CP~Cr~~~ 167 (184)
-...|.||-|.=++++ ....++ .|+..||..|.... | .+-+.|.+|+..+
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 3457999998855544 222333 36678999998764 1 1345799998655
No 250
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.82 E-value=14 Score=29.57 Aligned_cols=36 Identities=19% Similarity=0.538 Sum_probs=27.2
Q ss_pred CCccCcccccccccCCcceeccCC----CCcccHhhHHHHHhCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKC----NHIFHQTCIDDWLDDH 157 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C----~H~Fh~~Ci~~w~~~~ 157 (184)
.-..|.+|.+.+++.- ...| .|.||.-|-.+-.+++
T Consensus 267 apLcCTLC~ERLEDTH----FVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH----FVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCc----eeecCCCcccceecccCHHHHHhh
Confidence 4578999999987732 2236 5999999999888743
No 251
>PRK09731 putative general secretion pathway protein YghD; Provisional
Probab=36.59 E-value=1.8e+02 Score=21.69 Aligned_cols=7 Identities=29% Similarity=0.786 Sum_probs=3.6
Q ss_pred hhHHHHH
Q 042206 148 TCIDDWL 154 (184)
Q Consensus 148 ~Ci~~w~ 154 (184)
+-+..|+
T Consensus 137 ~~ll~WL 143 (178)
T PRK09731 137 NDLLNWL 143 (178)
T ss_pred HHHHHHH
Confidence 3345665
No 252
>KOG4671 consensus Brain cell membrane protein 1 (BCMP1) [General function prediction only]
Probab=36.54 E-value=1.2e+02 Score=22.81 Aligned_cols=23 Identities=9% Similarity=0.151 Sum_probs=15.0
Q ss_pred CCCCCCCcchhHHHHHHHHHHHH
Q 042206 6 TPSTCPNDEGLRLLVLTTPLVIS 28 (184)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~ivi~ 28 (184)
+|+.|++..+.........+.+.
T Consensus 67 d~~~C~s~~~~~~~~aaAAmL~~ 89 (201)
T KOG4671|consen 67 DPGGCQSTLEVDGGRAAAAMLFI 89 (201)
T ss_pred CCccCcChhhcchHHHHHHHHHH
Confidence 88899887777666644444333
No 253
>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=36.43 E-value=17 Score=19.45 Aligned_cols=30 Identities=23% Similarity=0.541 Sum_probs=17.8
Q ss_pred eccCCCCcccHhhHHHHHhCCCcccccccccc
Q 042206 137 VRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 137 ~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
+...||++||..---+ +....|..|-..|.
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 4457898888643221 33456888766554
No 254
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=36.31 E-value=16 Score=21.25 Aligned_cols=37 Identities=27% Similarity=0.620 Sum_probs=20.3
Q ss_pred CccCcccccccccCCcceeccCCCCcccHhhHHHHH--hCCCcccccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL--DDHSTCPLCRGR 166 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~--~~~~~CP~Cr~~ 166 (184)
...|+.|-..+.. ..+ +.|. .+.-. .+...||+|...
T Consensus 2 ~f~CP~C~~~~~~----~~L--~~H~-----~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSE----SSL--VEHC-----EDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCH----HHH--HHHH-----HhHCcCCCCCccCCCchhh
Confidence 4579999886544 222 4442 11111 134579999764
No 255
>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=36.19 E-value=1.1e+02 Score=19.78 Aligned_cols=10 Identities=30% Similarity=0.571 Sum_probs=4.0
Q ss_pred cchhHHHHHH
Q 042206 13 DEGLRLLVLT 22 (184)
Q Consensus 13 ~~~~~~~~~~ 22 (184)
++++-+.+++
T Consensus 9 d~~lVvNiil 18 (82)
T PF02723_consen 9 DHGLVVNIIL 18 (82)
T ss_pred CceeehhHHH
Confidence 3444444433
No 256
>PF15179 Myc_target_1: Myc target protein 1
Probab=35.63 E-value=70 Score=23.95 Aligned_cols=15 Identities=13% Similarity=0.120 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q 042206 32 CLILFLFYICYYLFT 46 (184)
Q Consensus 32 ~li~~l~~~~~~~~~ 46 (184)
+++.+++++++-++.
T Consensus 33 LviG~li~~LltwlS 47 (197)
T PF15179_consen 33 LVIGALIWALLTWLS 47 (197)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444443333
No 257
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=35.48 E-value=23 Score=26.99 Aligned_cols=14 Identities=21% Similarity=0.240 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q 042206 32 CLILFLFYICYYLF 45 (184)
Q Consensus 32 ~li~~l~~~~~~~~ 45 (184)
++++++++.+|++.
T Consensus 112 lLla~~~~~~Y~~~ 125 (202)
T PF06365_consen 112 LLLAILLGAGYCCH 125 (202)
T ss_pred HHHHHHHHHHHHhh
Confidence 33333334434443
No 258
>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=35.00 E-value=6.9 Score=21.61 Aligned_cols=26 Identities=31% Similarity=0.565 Sum_probs=14.8
Q ss_pred cCCCCcccHhhHHHHHhCCCccccccc
Q 042206 139 SKCNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 139 ~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
..|||.|-..--..= .....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 368877765331110 23457999977
No 259
>PRK11380 hypothetical protein; Provisional
Probab=34.87 E-value=1.1e+02 Score=25.29 Aligned_cols=16 Identities=25% Similarity=0.293 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 042206 31 VCLILFLFYICYYLFT 46 (184)
Q Consensus 31 v~li~~l~~~~~~~~~ 46 (184)
+.+++++.++++.+|.
T Consensus 80 ~~~~~~l~~~~~~~~~ 95 (353)
T PRK11380 80 LYLLIMLGLIVRAGFK 95 (353)
T ss_pred HHHHHHHHHHHHHHHc
Confidence 3334444444444443
No 260
>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage. This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.
Probab=34.33 E-value=13 Score=29.55 Aligned_cols=30 Identities=17% Similarity=0.227 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 17 RLLVLTTPLVISSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 17 ~~~~~~~~ivi~~iv~li~~l~~~~~~~~~ 46 (184)
.+--+.+.+++.+|+++++.+..++||..+
T Consensus 222 q~p~~vf~lLVPSiILVLLaVGGLLfYr~r 251 (285)
T PF05337_consen 222 QLPGFVFYLLVPSIILVLLAVGGLLFYRRR 251 (285)
T ss_dssp ------------------------------
T ss_pred CCCcccccccccchhhhhhhccceeeeccc
Confidence 333456666677777666666666665433
No 261
>KOG4111 consensus Translocase of outer mitochondrial membrane complex, subunit TOM22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.19 E-value=1.3e+02 Score=21.29 Aligned_cols=7 Identities=29% Similarity=0.245 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 042206 18 LLVLTTP 24 (184)
Q Consensus 18 ~~~~~~~ 24 (184)
+|++.+.
T Consensus 85 ~Wi~tTt 91 (136)
T KOG4111|consen 85 AWIATTT 91 (136)
T ss_pred hHHHHHH
Confidence 3333333
No 262
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=34.10 E-value=1.6e+02 Score=20.85 Aligned_cols=13 Identities=23% Similarity=0.570 Sum_probs=5.1
Q ss_pred HHHHHHHHHHhhc
Q 042206 38 FYICYYLFTQLYS 50 (184)
Q Consensus 38 ~~~~~~~~~~~~~ 50 (184)
.+...+.+.++++
T Consensus 135 ~Y~l~~~~~~~~r 147 (154)
T PF09835_consen 135 SYFLVYFLVRKYR 147 (154)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333344443
No 263
>PF14770 TMEM18: Transmembrane protein 18
Probab=33.83 E-value=1.3e+02 Score=21.03 Aligned_cols=24 Identities=21% Similarity=0.769 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 21 LTTPLVISSVVCLILFLFYICYYL 44 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~ 44 (184)
+..|+++..+++++..+.-.+-.+
T Consensus 86 ~s~PlLl~~~ii~~~~l~~~~~lm 109 (123)
T PF14770_consen 86 FSAPLLLNCLIILVNWLYQLCSLM 109 (123)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHH
Confidence 666777666666655555444433
No 264
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=33.72 E-value=1.1e+02 Score=18.25 Aligned_cols=29 Identities=3% Similarity=0.148 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVVCLILFLFYICYYL 44 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv~li~~l~~~~~~~ 44 (184)
+..|.+++.++..++.+.++....++.|+
T Consensus 18 ~~~flfl~~~l~PiL~v~~Vg~YGF~VWm 46 (56)
T PF06796_consen 18 LKAFLFLAVVLFPILAVAFVGGYGFIVWM 46 (56)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444333333333333333
No 265
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=33.51 E-value=60 Score=21.06 Aligned_cols=8 Identities=13% Similarity=0.737 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 042206 38 FYICYYLF 45 (184)
Q Consensus 38 ~~~~~~~~ 45 (184)
+.++.|++
T Consensus 81 ~~~v~yI~ 88 (92)
T PF03908_consen 81 LLVVLYIL 88 (92)
T ss_pred HHHHHHHh
Confidence 33333333
No 266
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=33.05 E-value=28 Score=23.14 Aligned_cols=29 Identities=14% Similarity=0.308 Sum_probs=18.3
Q ss_pred CCCcccHhhHHHHHhCCCcccccccccccc
Q 042206 141 CNHIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 141 C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
||+.-|.--+.++.. ..+||.|+.++++.
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCcc
Confidence 666555544444432 35699999988653
No 267
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=33.01 E-value=1.5e+02 Score=20.47 Aligned_cols=19 Identities=32% Similarity=0.438 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 042206 21 LTTPLVISSVVCLILFLFY 39 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~ 39 (184)
+++++||-.+..+.+..+.
T Consensus 84 ~aLp~VIGGLcaL~LaamG 102 (126)
T PF03229_consen 84 FALPLVIGGLCALTLAAMG 102 (126)
T ss_pred cchhhhhhHHHHHHHHHHH
Confidence 4556666555544444333
No 268
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=32.98 E-value=1.4e+02 Score=19.24 Aligned_cols=10 Identities=10% Similarity=0.006 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 042206 25 LVISSVVCLI 34 (184)
Q Consensus 25 ivi~~iv~li 34 (184)
++..++|+++
T Consensus 15 vlGMg~VfvF 24 (82)
T PRK02919 15 FLGMGFVLAF 24 (82)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 269
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=32.77 E-value=16 Score=32.98 Aligned_cols=30 Identities=23% Similarity=0.589 Sum_probs=22.6
Q ss_pred ccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 138 RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 138 ~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
++.|.-+||.+=+..-..++..||.||+..
T Consensus 1047 Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~ 1076 (1081)
T KOG1538|consen 1047 CPSCFQMFHSEDFELLVLQKGHCPFCRTSK 1076 (1081)
T ss_pred CchHHhhhccchhhHHHHhcCCCCcccccc
Confidence 445667788777766667889999999864
No 270
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=32.39 E-value=1.6e+02 Score=19.93 Aligned_cols=12 Identities=8% Similarity=0.293 Sum_probs=4.5
Q ss_pred HHHHHHHHHHhh
Q 042206 38 FYICYYLFTQLY 49 (184)
Q Consensus 38 ~~~~~~~~~~~~ 49 (184)
+++++++++...
T Consensus 13 ~~~l~~~~~~pi 24 (132)
T PF00430_consen 13 FFLLNKFLYKPI 24 (132)
T ss_dssp HHHHHHHTHHHH
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 271
>PTZ00370 STEVOR; Provisional
Probab=31.93 E-value=85 Score=25.29 Aligned_cols=22 Identities=9% Similarity=0.313 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 042206 28 SSVVCLILFLFYICYYLFTQLY 49 (184)
Q Consensus 28 ~~iv~li~~l~~~~~~~~~~~~ 49 (184)
+++..++++++.+++.+++-+.
T Consensus 257 ygiaalvllil~vvliilYiwl 278 (296)
T PTZ00370 257 YGIAALVLLILAVVLIILYIWL 278 (296)
T ss_pred cHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444445444544444
No 272
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=31.84 E-value=18 Score=29.03 Aligned_cols=33 Identities=24% Similarity=0.553 Sum_probs=23.5
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHH
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCID 151 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~ 151 (184)
+...|.||......++.+. .--|...||..|.-
T Consensus 313 ~C~lC~IC~~P~~E~E~~F-CD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLF-CDVCDRGPHTLCVG 345 (381)
T ss_pred ccHhhhccCCcccchheec-cccccCCCCccccc
Confidence 5567889988876655544 33488889999864
No 273
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.84 E-value=51 Score=21.95 Aligned_cols=34 Identities=26% Similarity=0.524 Sum_probs=21.3
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHH
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDD 152 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~ 152 (184)
....|.||......--+.. ...|...||..|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~-~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCS-HPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcC-CCCCCcCCCHHHHHH
Confidence 4668999998732200111 113777999999865
No 274
>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=31.69 E-value=23 Score=17.84 Aligned_cols=28 Identities=21% Similarity=0.401 Sum_probs=17.1
Q ss_pred cCcccccccccCCcceeccCCCCcccHhh
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTC 149 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~C 149 (184)
.|.+|-....... ......|...+|..|
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 4788876665532 334445676677766
No 275
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=31.68 E-value=82 Score=17.95 Aligned_cols=15 Identities=13% Similarity=0.277 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHhhc
Q 042206 36 FLFYICYYLFTQLYS 50 (184)
Q Consensus 36 ~l~~~~~~~~~~~~~ 50 (184)
+++.+++|.+..+++
T Consensus 22 ~Figiv~wa~~p~~k 36 (48)
T cd01324 22 FFLGVVVWAFRPGRK 36 (48)
T ss_pred HHHHHHHHHhCCCcc
Confidence 334444444444443
No 276
>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=31.66 E-value=16 Score=29.49 Aligned_cols=27 Identities=15% Similarity=0.162 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042206 22 TTPLVISSVVCLILFLFYICYYLFTQL 48 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~~~~~~~ 48 (184)
+..++..++++++++++.++..+.+++
T Consensus 146 L~T~IpaVVI~~iLLIA~iIa~icyrr 172 (290)
T PF05454_consen 146 LHTFIPAVVIAAILLIAGIIACICYRR 172 (290)
T ss_dssp ---------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 334455666666777777777776663
No 277
>PHA03163 hypothetical protein; Provisional
Probab=31.65 E-value=1.5e+02 Score=19.37 Aligned_cols=27 Identities=19% Similarity=0.407 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQ 47 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~ 47 (184)
.+++.++=.+++++..++++.+++|.+
T Consensus 58 SSIWaliNv~Ivl~A~~iyL~y~CF~k 84 (92)
T PHA03163 58 SSIWAILNVLIMLIACIIYCIYMCFNK 84 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444555555555555555543
No 278
>PF03563 Bunya_G2: Bunyavirus glycoprotein G2; InterPro: IPR005168 Bunyavirus has three genomic segments: small (S), middle-sized (M), and large (L). The S segment encodes the nucleocapsid and a non-structural protein. The M segment codes for two glycoproteins, G1 and G2, and another non-structural protein (NSm). The L segment codes for an RNA polymerase. This entry represents the polyprotein region forming the G2 glycoprotein, which interacts with the IPR005167 from INTERPRO G1 glycoprotein [].
Probab=31.20 E-value=60 Score=25.82 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=19.2
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
.|.-|+-.+.+-...+..--||-.|-.. .-++-++.|..|
T Consensus 236 ~C~nC~La~HPFtnC~s~CvCG~~f~~s---d~mk~HR~~~~C 275 (285)
T PF03563_consen 236 KCKNCGLAYHPFTNCGSHCVCGMKFETS---DRMKMHRESGLC 275 (285)
T ss_pred hCcccCeeccCCCCCCCeeeccccccch---HHHHHHHhcCCC
Confidence 3777776666533333222355544432 223445555555
No 279
>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=31.20 E-value=86 Score=21.96 Aligned_cols=7 Identities=14% Similarity=0.287 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 042206 41 CYYLFTQ 47 (184)
Q Consensus 41 ~~~~~~~ 47 (184)
+-+++.+
T Consensus 63 lsyvRSK 69 (129)
T PF02060_consen 63 LSYVRSK 69 (129)
T ss_dssp HHHHHHH
T ss_pred HHHHHHh
Confidence 3334333
No 280
>TIGR03546 conserved hypothetical protein TIGR03546. Members of this family are uncharacterized proteins, usually encoded by a gene adjacent to a member of family TIGR03545, which is also uncharacterized.
Probab=31.15 E-value=2.1e+02 Score=20.78 Aligned_cols=22 Identities=14% Similarity=0.090 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHhhchHHHhhhH
Q 042206 37 LFYICYYLFTQLYSSRIQTQNQ 58 (184)
Q Consensus 37 l~~~~~~~~~~~~~~r~~~~~~ 58 (184)
+.+.+.+.+.++|++|+....+
T Consensus 123 ~~Y~ls~~lI~~Yr~~~~~~~~ 144 (154)
T TIGR03546 123 PAFAISKVIIAKYRKRIVAWVN 144 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445556555554433
No 281
>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1.9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....
Probab=31.00 E-value=1.4e+02 Score=18.74 Aligned_cols=32 Identities=25% Similarity=0.219 Sum_probs=18.1
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 11 PNDEGLRLLVLTTPLVISSVVCLILFLFYICY 42 (184)
Q Consensus 11 ~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~ 42 (184)
|...|+..-.+...+++..++.++...++-+.
T Consensus 7 P~mrgll~~~l~~~i~~a~~ls~~~~~~~kf~ 38 (73)
T PF02937_consen 7 PQMRGLLAKRLKRHIVVAFVLSLGVAAAYKFG 38 (73)
T ss_dssp ---BSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67778777777777776666655555444433
No 282
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=30.78 E-value=1.7e+02 Score=19.77 Aligned_cols=17 Identities=24% Similarity=0.460 Sum_probs=7.4
Q ss_pred chHHHhhhHHHHhhhhh
Q 042206 50 SSRIQTQNQDIEQGLSS 66 (184)
Q Consensus 50 ~~r~~~~~~~~~~~~~~ 66 (184)
-..+....+..++....
T Consensus 25 ~~~i~~~l~~i~~~i~~ 41 (121)
T PF14276_consen 25 TDSIEEQLEQIEEAIEN 41 (121)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34444444444444333
No 283
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=30.66 E-value=44 Score=23.83 Aligned_cols=13 Identities=31% Similarity=0.744 Sum_probs=10.2
Q ss_pred CCccccccccccc
Q 042206 157 HSTCPLCRGRVRR 169 (184)
Q Consensus 157 ~~~CP~Cr~~~~~ 169 (184)
...||.|...+..
T Consensus 123 ~f~Cp~Cg~~l~~ 135 (147)
T smart00531 123 TFTCPRCGEELEE 135 (147)
T ss_pred cEECCCCCCEEEE
Confidence 3789999888754
No 284
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=30.58 E-value=15 Score=26.52 Aligned_cols=8 Identities=13% Similarity=0.745 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 042206 38 FYICYYLF 45 (184)
Q Consensus 38 ~~~~~~~~ 45 (184)
++++|+.+
T Consensus 70 lYM~fL~~ 77 (149)
T PF05434_consen 70 LYMLFLMC 77 (149)
T ss_pred HHHHHHHH
Confidence 33344333
No 285
>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=30.46 E-value=27 Score=26.18 Aligned_cols=17 Identities=18% Similarity=0.296 Sum_probs=9.4
Q ss_pred ccHhhHHHHH--hCCCccc
Q 042206 145 FHQTCIDDWL--DDHSTCP 161 (184)
Q Consensus 145 Fh~~Ci~~w~--~~~~~CP 161 (184)
-..+-+..|+ .++..+|
T Consensus 124 ~~G~~~R~~L~~Lr~~~~p 142 (186)
T PF07406_consen 124 LPGENFRSYLLDLRNSSTP 142 (186)
T ss_pred cccccHHHHHHHHHhccCC
Confidence 3456677787 3344444
No 286
>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=30.33 E-value=39 Score=20.45 Aligned_cols=33 Identities=12% Similarity=0.246 Sum_probs=21.4
Q ss_pred CCccCccccccccc--CCcceeccCCCCcccHhhH
Q 042206 118 KTSTCVICLGEFRD--GDECKVRSKCNHIFHQTCI 150 (184)
Q Consensus 118 ~~~~C~ICl~~~~~--~~~~~~~~~C~H~Fh~~Ci 150 (184)
.-..|+.|-..... .......+.||+.+|.+--
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 34468888877766 4444555568887777654
No 287
>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=30.32 E-value=1.1e+02 Score=21.48 Aligned_cols=25 Identities=16% Similarity=0.291 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHhhchHHHh
Q 042206 31 VCLILFLFYICYYLFTQLYSSRIQT 55 (184)
Q Consensus 31 v~li~~l~~~~~~~~~~~~~~r~~~ 55 (184)
+++.++.++++..++...+.+|...
T Consensus 49 ~vmgfFgff~~gImlsyvRSKK~E~ 73 (129)
T PF02060_consen 49 VVMGFFGFFTVGIMLSYVRSKKREH 73 (129)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3334444555555555555444433
No 288
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=30.27 E-value=11 Score=30.42 Aligned_cols=39 Identities=26% Similarity=0.640 Sum_probs=28.3
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhCC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH 157 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~ 157 (184)
....|.+|++++..+...... .|...||..|+..|+...
T Consensus 213 ~~rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 213 PIRVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CceecHHHHHHHhcccccchh-hccccccccccccccccc
Confidence 344899999999764443433 366699999999998643
No 289
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=30.13 E-value=16 Score=29.70 Aligned_cols=47 Identities=13% Similarity=0.319 Sum_probs=30.5
Q ss_pred CCccCcccccccccCCcceec-cCC--CCcccHhhHHHHHhCCCccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVR-SKC--NHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~-~~C--~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
....|++|-..-.... ++.. ..= .|.+|..|-.+|--....||.|-.
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4558999987753211 1110 012 256777888899888889999954
No 290
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=30.05 E-value=47 Score=27.93 Aligned_cols=27 Identities=19% Similarity=0.353 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQ 47 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~ 47 (184)
+++.++|.+++++++++++.++.++.+
T Consensus 285 ~~vtl~iPl~i~llL~llLs~Imc~rR 311 (386)
T PF05510_consen 285 FLVTLAIPLIIALLLLLLLSYIMCCRR 311 (386)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHheech
Confidence 344445555554444444444444333
No 291
>PRK04023 DNA polymerase II large subunit; Validated
Probab=29.67 E-value=27 Score=33.01 Aligned_cols=52 Identities=13% Similarity=0.162 Sum_probs=33.9
Q ss_pred cccCCCCccCcccccccccCCcceeccCCC-----CcccHhhHHHHHhCCCcccccccccccc
Q 042206 113 DDAVNKTSTCVICLGEFRDGDECKVRSKCN-----HIFHQTCIDDWLDDHSTCPLCRGRVRRI 170 (184)
Q Consensus 113 ~~~~~~~~~C~ICl~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~~ 170 (184)
.+.......|+-|=..... ..++.|| ..||.+| .+......||-|.......
T Consensus 620 ~eVEVg~RfCpsCG~~t~~----frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 620 IEVEIGRRKCPSCGKETFY----RRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPY 676 (1121)
T ss_pred eeecccCccCCCCCCcCCc----ccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCcc
Confidence 3344567788888877533 4566798 3588988 3334446699997665443
No 292
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=29.40 E-value=1.6e+02 Score=20.55 Aligned_cols=6 Identities=17% Similarity=0.423 Sum_probs=2.3
Q ss_pred HHHHHH
Q 042206 42 YYLFTQ 47 (184)
Q Consensus 42 ~~~~~~ 47 (184)
.|+++|
T Consensus 36 aWLlkR 41 (124)
T PRK11486 36 AWLVKR 41 (124)
T ss_pred HHHHHH
Confidence 344333
No 293
>COG4537 ComGC Competence protein ComGC [Intracellular trafficking and secretion]
Probab=29.32 E-value=56 Score=21.96 Aligned_cols=16 Identities=31% Similarity=0.476 Sum_probs=6.5
Q ss_pred chhHHHHHHHHHHHHH
Q 042206 14 EGLRLLVLTTPLVISS 29 (184)
Q Consensus 14 ~~~~~~~~~~~ivi~~ 29 (184)
.|+.+.-+.+.++|++
T Consensus 12 kgFTLvEMLiVLlIIS 27 (107)
T COG4537 12 KGFTLVEMLIVLLIIS 27 (107)
T ss_pred ccccHHHHHHHHHHHH
Confidence 3444444444443333
No 294
>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=29.23 E-value=39 Score=26.28 Aligned_cols=24 Identities=29% Similarity=0.739 Sum_probs=18.8
Q ss_pred ccHhhHHHHHhCCCcccccccccc
Q 042206 145 FHQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 145 Fh~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
-|..|-...-++...||+|+..-.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccc
Confidence 467788787788899999987643
No 295
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=28.99 E-value=11 Score=25.79 Aligned_cols=17 Identities=29% Similarity=0.567 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042206 30 VVCLILFLFYICYYLFT 46 (184)
Q Consensus 30 iv~li~~l~~~~~~~~~ 46 (184)
+|++.+++++-||++.+
T Consensus 33 ~VILgiLLliGCWYckR 49 (118)
T PF14991_consen 33 IVILGILLLIGCWYCKR 49 (118)
T ss_dssp -----------------
T ss_pred HHHHHHHHHHhheeeee
Confidence 34444444555555533
No 296
>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=28.88 E-value=48 Score=26.37 Aligned_cols=45 Identities=20% Similarity=0.332 Sum_probs=26.5
Q ss_pred CCccCcccccccccCCcceeccCCC-CcccHhhHHHHH-hCCCcccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCN-HIFHQTCIDDWL-DDHSTCPL 162 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~-~~~~~CP~ 162 (184)
.-..|.||++.-..+-.-..++.=. =.=|.+|+..|- .-+..||.
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 4456888887664432211122111 135799999995 56778883
No 297
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=28.77 E-value=61 Score=28.16 Aligned_cols=12 Identities=17% Similarity=0.368 Sum_probs=8.3
Q ss_pred cHhhHHHHHhCC
Q 042206 146 HQTCIDDWLDDH 157 (184)
Q Consensus 146 h~~Ci~~w~~~~ 157 (184)
+..++..||+.+
T Consensus 291 ~kGsL~dyL~~n 302 (534)
T KOG3653|consen 291 PKGSLCDYLKAN 302 (534)
T ss_pred cCCcHHHHHHhc
Confidence 456778888754
No 298
>PRK05978 hypothetical protein; Provisional
Probab=28.34 E-value=39 Score=24.38 Aligned_cols=27 Identities=19% Similarity=0.575 Sum_probs=19.9
Q ss_pred ccCCC--CcccHhhHHHHHhCCCccccccccccc
Q 042206 138 RSKCN--HIFHQTCIDDWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 138 ~~~C~--H~Fh~~Ci~~w~~~~~~CP~Cr~~~~~ 169 (184)
++.|| |.|+ .+++-+..||.|-.++..
T Consensus 36 CP~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~ 64 (148)
T PRK05978 36 CPACGEGKLFR-----AFLKPVDHCAACGEDFTH 64 (148)
T ss_pred CCCCCCCcccc-----cccccCCCccccCCcccc
Confidence 34565 7786 578889999999777643
No 299
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=28.03 E-value=2.3e+02 Score=20.25 Aligned_cols=6 Identities=17% Similarity=0.357 Sum_probs=2.2
Q ss_pred hhhHHH
Q 042206 55 TQNQDI 60 (184)
Q Consensus 55 ~~~~~~ 60 (184)
.+...+
T Consensus 33 ~R~~~I 38 (159)
T PRK09173 33 ARADRI 38 (159)
T ss_pred HHHHHH
Confidence 333333
No 300
>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=27.97 E-value=26 Score=21.04 Aligned_cols=11 Identities=45% Similarity=1.189 Sum_probs=8.8
Q ss_pred CCccccccccc
Q 042206 157 HSTCPLCRGRV 167 (184)
Q Consensus 157 ~~~CP~Cr~~~ 167 (184)
+..||+|+..+
T Consensus 2 k~~CPlCkt~~ 12 (61)
T PF05715_consen 2 KSLCPLCKTTL 12 (61)
T ss_pred CccCCcccchh
Confidence 46799998876
No 301
>TIGR02972 TMAO_torE trimethylamine N-oxide reductase system, TorE protein. Members of this small, apparent transmembrane protein are designated TorE and occur in operons for the trimethylamine N-oxide (TMAO) reductase system. Members are closely related to the NapE protein of the related periplasmic nitrate reductase system. It may be that TorE is an integral membrane subunit of a complex with the reductase TorA.
Probab=27.76 E-value=1.3e+02 Score=17.24 Aligned_cols=29 Identities=7% Similarity=0.047 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVVCLILFLFYICYYL 44 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv~li~~l~~~~~~~ 44 (184)
++.+.+++.++..++.+.++....++.|+
T Consensus 10 l~~flfl~v~l~PiLsV~~Vg~YGF~vWm 38 (47)
T TIGR02972 10 LKALGFIIVVLFPILSVAGIGGYGFIIWM 38 (47)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445444444444444333333333333
No 302
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=27.75 E-value=23 Score=29.74 Aligned_cols=34 Identities=15% Similarity=0.479 Sum_probs=24.5
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHH
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDW 153 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w 153 (184)
...+|+||+-.+........ -|.--.|.+|+.+.
T Consensus 73 r~~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred ccccCceeeeecccccchhh--hhccchhhhheecc
Confidence 44689999999876544332 27888888888765
No 303
>PF03554 Herpes_UL73: UL73 viral envelope glycoprotein ; InterPro: IPR005211 This entry represents a conserved region found in a number of viral proteins: BLRF1, U46, 53, and UL73, collectively known as glycoprotein N. These UL73-like envelope glycoproteins, which associate in a high molecular mass complex with their counterpart protein gM, induce neutralizing antibody responses in the host. These glycoproteins are highly polymorphic, particularly in the N-terminal region [].; GO: 0019031 viral envelope
Probab=27.50 E-value=1.8e+02 Score=18.78 Aligned_cols=26 Identities=27% Similarity=0.478 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 22 TTPLVISSVVCLILFLFYICYYLFTQ 47 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~~~~~~ 47 (184)
.++.++-.+++++.+.+++.+++|.+
T Consensus 50 SIW~iiN~~il~~A~~vyLry~Cf~~ 75 (82)
T PF03554_consen 50 SIWAIINVVILLCAFCVYLRYLCFQK 75 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444555555555555555543
No 304
>PLN02195 cellulose synthase A
Probab=27.47 E-value=73 Score=30.16 Aligned_cols=51 Identities=16% Similarity=0.411 Sum_probs=34.1
Q ss_pred CCccCcccccccccCCc---ceeccCCCCcccHhhHHHHH-hCCCcccccccccc
Q 042206 118 KTSTCVICLGEFRDGDE---CKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~---~~~~~~C~H~Fh~~Ci~~w~-~~~~~CP~Cr~~~~ 168 (184)
....|.||-+....+.. -..+-.|+---|..|.+-=- ..+..||.|++...
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 44579999997754332 12233566668999985322 35678999998876
No 305
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=27.45 E-value=2e+02 Score=19.35 Aligned_cols=32 Identities=16% Similarity=0.185 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 042206 19 LVLTTPLVISSVVCLILFLFYICYYLFTQLYS 50 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~ 50 (184)
++=.+..++++.+++++++-..+++-+..-|+
T Consensus 20 LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~ 51 (102)
T PF15176_consen 20 LVGVVVTALVTSLLIALAAKCPVWYKYLASYR 51 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHhccc
Confidence 33333334444444455555555544444443
No 306
>PF13120 DUF3974: Domain of unknown function (DUF3974)
Probab=27.44 E-value=69 Score=21.25 Aligned_cols=22 Identities=18% Similarity=0.254 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 042206 27 ISSVVCLILFLFYICYYLFTQL 48 (184)
Q Consensus 27 i~~iv~li~~l~~~~~~~~~~~ 48 (184)
++++++++.+-+.+++..|.++
T Consensus 10 l~g~llligftivvl~vyfgrk 31 (126)
T PF13120_consen 10 LIGTLLLIGFTIVVLLVYFGRK 31 (126)
T ss_pred HHHHHHHHHHHHHhhhheecce
Confidence 3333444444444444444443
No 307
>PF06809 NPDC1: Neural proliferation differentiation control-1 protein (NPDC1); InterPro: IPR009635 This family consists of several neural proliferation differentiation control-1 (NPDC1) proteins. NPDC1 plays a role in the control of neural cell proliferation and differentiation. It has been suggested that NPDC1 may be involved in the development of several secretion glands. This family also contains the C-terminal region of the Caenorhabditis elegans protein CAB-1 (Q93249 from SWISSPROT) which is known to interact with AEX-3 [].; GO: 0016021 integral to membrane
Probab=27.29 E-value=54 Score=26.79 Aligned_cols=7 Identities=14% Similarity=0.226 Sum_probs=3.4
Q ss_pred CCCccCc
Q 042206 117 NKTSTCV 123 (184)
Q Consensus 117 ~~~~~C~ 123 (184)
...++|+
T Consensus 301 fTVYECP 307 (341)
T PF06809_consen 301 FTVYECP 307 (341)
T ss_pred eeEEeCC
Confidence 3444555
No 308
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=27.16 E-value=1.4e+02 Score=20.98 Aligned_cols=21 Identities=19% Similarity=0.252 Sum_probs=14.3
Q ss_pred CCcchhHHHHHHHHHHHHHHH
Q 042206 11 PNDEGLRLLVLTTPLVISSVV 31 (184)
Q Consensus 11 ~~~~~~~~~~~~~~ivi~~iv 31 (184)
|...+...+.++.+++++++.
T Consensus 95 Pp~~~~t~~LW~~P~lll~~G 115 (126)
T TIGR03147 95 PPFKWQTLLLWLLPVLLLLLA 115 (126)
T ss_pred CCCCcchHHHHHHHHHHHHHH
Confidence 667777777777777655443
No 309
>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=27.14 E-value=60 Score=25.03 Aligned_cols=20 Identities=20% Similarity=0.447 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 042206 26 VISSVVCLILFLFYICYYLF 45 (184)
Q Consensus 26 vi~~iv~li~~l~~~~~~~~ 45 (184)
+-++|++++++++++.+.+|
T Consensus 16 LNiaI~IV~lLIiiva~~lf 35 (217)
T PF07423_consen 16 LNIAIGIVSLLIIIVAYQLF 35 (217)
T ss_pred HHHHHHHHHHHHHHHhhhhe
Confidence 33444444444444433333
No 310
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=27.03 E-value=2.1e+02 Score=21.76 Aligned_cols=9 Identities=0% Similarity=-0.075 Sum_probs=3.7
Q ss_pred CCCcccHhh
Q 042206 141 CNHIFHQTC 149 (184)
Q Consensus 141 C~H~Fh~~C 149 (184)
-..+.|+-.
T Consensus 146 S~DViHsf~ 154 (217)
T TIGR01432 146 SADTMTSFW 154 (217)
T ss_pred CCchhhhhh
Confidence 344444433
No 311
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=26.70 E-value=3e+02 Score=21.23 Aligned_cols=9 Identities=33% Similarity=0.685 Sum_probs=4.8
Q ss_pred CCccCcccc
Q 042206 118 KTSTCVICL 126 (184)
Q Consensus 118 ~~~~C~ICl 126 (184)
...-|+-|.
T Consensus 191 ~alIC~~C~ 199 (251)
T COG5415 191 KALICPQCH 199 (251)
T ss_pred hhhcccccc
Confidence 344566664
No 312
>PRK01343 zinc-binding protein; Provisional
Probab=26.57 E-value=36 Score=20.31 Aligned_cols=8 Identities=38% Similarity=1.036 Sum_probs=3.7
Q ss_pred cccccccc
Q 042206 159 TCPLCRGR 166 (184)
Q Consensus 159 ~CP~Cr~~ 166 (184)
.||+|+++
T Consensus 11 ~CP~C~k~ 18 (57)
T PRK01343 11 PCPECGKP 18 (57)
T ss_pred cCCCCCCc
Confidence 35555443
No 313
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.23 E-value=23 Score=28.79 Aligned_cols=47 Identities=13% Similarity=0.366 Sum_probs=30.9
Q ss_pred CCccCcccccccccCCcceeccC--CCCcccHhhHHHHHhCCCccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSK--CNHIFHQTCIDDWLDDHSTCPLCRG 165 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~--C~H~Fh~~Ci~~w~~~~~~CP~Cr~ 165 (184)
....|++|-..-... .+..-.. =.|.+|..|-..|--....||.|-.
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 567899998775321 0111011 2356778888899888889999954
No 314
>PHA03156 hypothetical protein; Provisional
Probab=25.91 E-value=2e+02 Score=18.84 Aligned_cols=34 Identities=9% Similarity=0.145 Sum_probs=16.3
Q ss_pred chhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 14 EGLRLLV-LTTPLVISSVVCLILFLFYICYYLFTQ 47 (184)
Q Consensus 14 ~~~~~~~-~~~~ivi~~iv~li~~l~~~~~~~~~~ 47 (184)
+..++-. ..++.++=.+++++...+++.+++|.+
T Consensus 49 y~psl~SFSSIWallN~~i~~~A~~ifL~y~CF~k 83 (90)
T PHA03156 49 FVPSIKTFSSIWAILNGIIFFCASLFFLRHLCFVK 83 (90)
T ss_pred ecchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333 344444444555555555555555543
No 315
>PF04612 T2SM: Type II secretion system (T2SS), protein M; InterPro: IPR007690 General secretion pathway (GSP) protein M is a membrane protein involved in the export of proteins in bacteria. It consists of a short cytosolic N-terminal domain, a transmembrane domain, and a C-terminal periplasmic domain. The precise function of this protein is unknown, though in Vibrio cholerae, the EpsM protein interacts with the EpsL protein, and also forms homodimers [],; GO: 0006858 extracellular transport; PDB: 1UV7_A.
Probab=25.80 E-value=23 Score=25.35 Aligned_cols=8 Identities=25% Similarity=0.684 Sum_probs=3.9
Q ss_pred hhHHHHHh
Q 042206 148 TCIDDWLD 155 (184)
Q Consensus 148 ~Ci~~w~~ 155 (184)
+=+..|+.
T Consensus 119 ~~L~~WL~ 126 (160)
T PF04612_consen 119 DQLLQWLQ 126 (160)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 44455653
No 316
>PHA03286 envelope glycoprotein E; Provisional
Probab=25.73 E-value=1e+02 Score=26.57 Aligned_cols=11 Identities=45% Similarity=0.933 Sum_probs=5.4
Q ss_pred HHHhCCCcccccc
Q 042206 152 DWLDDHSTCPLCR 164 (184)
Q Consensus 152 ~w~~~~~~CP~Cr 164 (184)
.|+.. -||--|
T Consensus 476 ~~~~~--~~p~~~ 486 (492)
T PHA03286 476 AWLAD--GGPAAR 486 (492)
T ss_pred hhhhc--CCchhh
Confidence 47653 355443
No 317
>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=25.69 E-value=2.5e+02 Score=19.89 Aligned_cols=22 Identities=14% Similarity=0.313 Sum_probs=11.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 042206 15 GLRLLVLTTPLVISSVVCLILF 36 (184)
Q Consensus 15 ~~~~~~~~~~ivi~~iv~li~~ 36 (184)
|+.+.-.++.++|+.+.++.++
T Consensus 3 GfTLIEvLVAl~Ilaigllg~~ 24 (139)
T TIGR02523 3 GFSMIEVLVALLVLAIGVLGMA 24 (139)
T ss_pred ceeHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555554444333
No 318
>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=25.58 E-value=14 Score=21.70 Aligned_cols=33 Identities=24% Similarity=0.553 Sum_probs=17.7
Q ss_pred cCcc--cccccccCCcc----eeccCCCCcccHhhHHHH
Q 042206 121 TCVI--CLGEFRDGDEC----KVRSKCNHIFHQTCIDDW 153 (184)
Q Consensus 121 ~C~I--Cl~~~~~~~~~----~~~~~C~H~Fh~~Ci~~w 153 (184)
-|+- |-..+..++.. ...+.|++.||..|-.+|
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 5765 66666544422 234458899999988777
No 319
>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=25.57 E-value=4.9e+02 Score=23.25 Aligned_cols=19 Identities=5% Similarity=0.200 Sum_probs=8.3
Q ss_pred HHHHHHHHHHhhchHHHhh
Q 042206 38 FYICYYLFTQLYSSRIQTQ 56 (184)
Q Consensus 38 ~~~~~~~~~~~~~~r~~~~ 56 (184)
+-.+++.+.+...+++.+.
T Consensus 175 ~P~~~~~~~~~~~~~l~~~ 193 (573)
T COG4987 175 IPTLFYRAGRKFGAHLAQG 193 (573)
T ss_pred HHHHHHHhhhhhhHHHHHH
Confidence 3334444444444444433
No 320
>PRK10506 hypothetical protein; Provisional
Probab=25.34 E-value=2.6e+02 Score=20.10 Aligned_cols=19 Identities=26% Similarity=0.447 Sum_probs=9.8
Q ss_pred CcchhHHHHHHHHHHHHHH
Q 042206 12 NDEGLRLLVLTTPLVISSV 30 (184)
Q Consensus 12 ~~~~~~~~~~~~~ivi~~i 30 (184)
...|+.++-+.+.++|+++
T Consensus 7 ~~~GFTLiEllvvl~Ii~i 25 (162)
T PRK10506 7 KQRGYTLIELLVVMTIVSI 25 (162)
T ss_pred cCCCeeHHHHHHHHHHHHH
Confidence 3456655555555554433
No 321
>PF14017 DUF4233: Protein of unknown function (DUF4233)
Probab=25.32 E-value=2.2e+02 Score=19.24 Aligned_cols=15 Identities=13% Similarity=0.368 Sum_probs=5.8
Q ss_pred HHHHHHHhhchHHHh
Q 042206 41 CYYLFTQLYSSRIQT 55 (184)
Q Consensus 41 ~~~~~~~~~~~r~~~ 55 (184)
..|.+.-..++++.+
T Consensus 88 ~~W~~~l~lg~~i~~ 102 (107)
T PF14017_consen 88 AVWWYALYLGRRIDR 102 (107)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333344433
No 322
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=25.27 E-value=1.7e+02 Score=19.53 Aligned_cols=32 Identities=13% Similarity=0.044 Sum_probs=13.4
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 11 PNDEGLRLLVLTTPLVISSVVCLILFLFYICY 42 (184)
Q Consensus 11 ~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~~ 42 (184)
|-|+.+-+++.+...++..-.++.+++.+..+
T Consensus 25 ~~DE~~~~~~~~~~Gi~~~~~l~g~i~g~~~~ 56 (101)
T PRK13707 25 PLDELIPAAICIGWGITTSKYLFGIIAAVLVW 56 (101)
T ss_pred eHHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence 45555544444333333333333333333333
No 323
>COG3322 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=25.26 E-value=3.7e+02 Score=21.79 Aligned_cols=18 Identities=17% Similarity=0.250 Sum_probs=7.2
Q ss_pred chHHHhhhHHHHhhhhhH
Q 042206 50 SSRIQTQNQDIEQGLSSQ 67 (184)
Q Consensus 50 ~~r~~~~~~~~~~~~~~~ 67 (184)
.+..+++.+..+.....+
T Consensus 44 ~~~~~~~~~~Ve~~l~~e 61 (295)
T COG3322 44 EQALLENVELVENALDSE 61 (295)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444333
No 324
>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=25.02 E-value=29 Score=17.01 Aligned_cols=10 Identities=40% Similarity=1.032 Sum_probs=7.2
Q ss_pred Cccccccccc
Q 042206 158 STCPLCRGRV 167 (184)
Q Consensus 158 ~~CP~Cr~~~ 167 (184)
..||+|.+.+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 3689997665
No 325
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=24.94 E-value=1.9e+02 Score=24.38 Aligned_cols=6 Identities=17% Similarity=0.191 Sum_probs=2.6
Q ss_pred CcccCC
Q 042206 2 PFAVTP 7 (184)
Q Consensus 2 ~~~~~~ 7 (184)
-+||.+
T Consensus 2 glam~~ 7 (442)
T PF06637_consen 2 GLAMER 7 (442)
T ss_pred CccccC
Confidence 344444
No 326
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.70 E-value=70 Score=21.21 Aligned_cols=37 Identities=22% Similarity=0.462 Sum_probs=27.2
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHhC
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD 156 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~ 156 (184)
....|++|-..+..|+.-. .++ .-.-|.+|+..-.++
T Consensus 5 kewkC~VCg~~iieGqkFT-F~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFT-FTK-KGSVHYECLAESKRK 41 (103)
T ss_pred ceeeEeeeCCEeeeccEEE-Eee-CCcchHHHHHHHHhc
Confidence 3457999999999988744 445 445799999876554
No 327
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=24.60 E-value=3.2e+02 Score=20.77 Aligned_cols=8 Identities=13% Similarity=0.480 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 042206 38 FYICYYLF 45 (184)
Q Consensus 38 ~~~~~~~~ 45 (184)
..+.|+++
T Consensus 36 ~~lGy~f~ 43 (211)
T COG3167 36 LGLGYAFY 43 (211)
T ss_pred HHHHHHHH
Confidence 33334433
No 328
>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=24.47 E-value=2.5e+02 Score=19.49 Aligned_cols=21 Identities=29% Similarity=0.428 Sum_probs=10.2
Q ss_pred cchhHHHHHHHHHHHHHHHHH
Q 042206 13 DEGLRLLVLTTPLVISSVVCL 33 (184)
Q Consensus 13 ~~~~~~~~~~~~ivi~~iv~l 33 (184)
..|+.++-+++.++|++++..
T Consensus 3 ~~GFTLiEllvvlaIiail~~ 23 (143)
T TIGR01708 3 QSGFTLIELLVVLAIMGLVAA 23 (143)
T ss_pred CCcEEHHHHHHHHHHHHHHHH
Confidence 345555555555554444433
No 329
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.38 E-value=3.6e+02 Score=25.11 Aligned_cols=46 Identities=26% Similarity=0.522 Sum_probs=28.0
Q ss_pred CCccCcccccccc---------cCCcceeccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 118 KTSTCVICLGEFR---------DGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~---------~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
.+..|+-|...|. .+...-.++.|.|.-|..=|.. .+.||+|....
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 4455666666553 1111223456899888876643 68899996643
No 330
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=24.35 E-value=1.4e+02 Score=23.40 Aligned_cols=13 Identities=15% Similarity=0.516 Sum_probs=7.4
Q ss_pred hHHHHHhCCCccc
Q 042206 149 CIDDWLDDHSTCP 161 (184)
Q Consensus 149 Ci~~w~~~~~~CP 161 (184)
=.+.|++....=+
T Consensus 215 ~f~~W~~~~~~~~ 227 (247)
T COG1622 215 DFDAWVAEVKAAA 227 (247)
T ss_pred HHHHHHHhhhhcc
Confidence 3777876444433
No 331
>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=24.35 E-value=42 Score=22.82 Aligned_cols=23 Identities=22% Similarity=0.417 Sum_probs=15.0
Q ss_pred cCcccccccccCC-cceeccCCCC
Q 042206 121 TCVICLGEFRDGD-ECKVRSKCNH 143 (184)
Q Consensus 121 ~C~ICl~~~~~~~-~~~~~~~C~H 143 (184)
.|+-|-.+|.-++ ...+.+.|+|
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~ 27 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLY 27 (109)
T ss_pred cCCcCCCcceEecCCeeECccccc
Confidence 5888888876433 3455666777
No 332
>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=24.26 E-value=79 Score=23.21 Aligned_cols=12 Identities=8% Similarity=0.290 Sum_probs=4.7
Q ss_pred HHHHHHHHHHhh
Q 042206 38 FYICYYLFTQLY 49 (184)
Q Consensus 38 ~~~~~~~~~~~~ 49 (184)
.+++.|+..+.+
T Consensus 106 ~l~i~yfvir~~ 117 (163)
T PF06679_consen 106 ALAILYFVIRTF 117 (163)
T ss_pred HHHHHHHHHHHH
Confidence 333344433333
No 333
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=24.23 E-value=17 Score=28.93 Aligned_cols=50 Identities=20% Similarity=0.472 Sum_probs=34.0
Q ss_pred CCccCcccccccccCCcceeccCCCCcccHhhHHHHHh----CCCcccccccccc
Q 042206 118 KTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLD----DHSTCPLCRGRVR 168 (184)
Q Consensus 118 ~~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~~~CP~Cr~~~~ 168 (184)
+...|+||-..-. +|++-..-.|...||-.|+.+=+. ..-+|.+|-..+.
T Consensus 280 eck~csicgtsen-ddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~ 333 (336)
T KOG1244|consen 280 ECKYCSICGTSEN-DDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELK 333 (336)
T ss_pred ecceeccccCcCC-CceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHh
Confidence 4556888876643 344455557889999999998664 2447999865543
No 334
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=24.13 E-value=52 Score=25.56 Aligned_cols=23 Identities=26% Similarity=0.741 Sum_probs=16.1
Q ss_pred cHhhHHHHHhCCCcccccccccc
Q 042206 146 HQTCIDDWLDDHSTCPLCRGRVR 168 (184)
Q Consensus 146 h~~Ci~~w~~~~~~CP~Cr~~~~ 168 (184)
|..|-.+.-++...||+|+..-.
T Consensus 252 ClsChqqIHRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHhcCCCCCcchhhccc
Confidence 45566666667789999976543
No 335
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=24.12 E-value=37 Score=22.22 Aligned_cols=6 Identities=50% Similarity=1.099 Sum_probs=2.6
Q ss_pred CCcchh
Q 042206 11 PNDEGL 16 (184)
Q Consensus 11 ~~~~~~ 16 (184)
|+++++
T Consensus 27 p~ss~~ 32 (91)
T PF01708_consen 27 PSSSGL 32 (91)
T ss_pred CCCCCC
Confidence 444444
No 336
>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=24.10 E-value=27 Score=20.39 Aligned_cols=9 Identities=44% Similarity=1.350 Sum_probs=3.6
Q ss_pred ccccccccc
Q 042206 159 TCPLCRGRV 167 (184)
Q Consensus 159 ~CP~Cr~~~ 167 (184)
+||+|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 577775544
No 337
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=23.58 E-value=2.1e+02 Score=25.32 Aligned_cols=14 Identities=14% Similarity=0.280 Sum_probs=6.0
Q ss_pred hhchHHHhhhHHHH
Q 042206 48 LYSSRIQTQNQDIE 61 (184)
Q Consensus 48 ~~~~r~~~~~~~~~ 61 (184)
.++++...+....+
T Consensus 22 ~~rr~~~~~i~~Le 35 (569)
T PRK04778 22 ILRKRNYKRIDELE 35 (569)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444444333
No 338
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=23.58 E-value=1.4e+02 Score=21.50 Aligned_cols=28 Identities=29% Similarity=0.515 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 15 GLRLLVLTTPLVISSVVCLILFLFYICYYLF 45 (184)
Q Consensus 15 ~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~ 45 (184)
+-.+...++++..++|+ +|++|+++-+.
T Consensus 78 ~~g~~~~imPlYtiGI~---~f~lY~l~Ki~ 105 (152)
T PF15361_consen 78 GKGLMGQIMPLYTIGIV---LFILYTLFKIK 105 (152)
T ss_pred CCchhhhHhHHHHHHHH---HHHHHHHHHHH
Confidence 44455566676544443 44444444443
No 339
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=23.51 E-value=2e+02 Score=18.02 Aligned_cols=10 Identities=20% Similarity=0.408 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 042206 27 ISSVVCLILF 36 (184)
Q Consensus 27 i~~iv~li~~ 36 (184)
++..+.++++
T Consensus 14 ~ls~i~V~~~ 23 (72)
T PF13268_consen 14 LLSSILVLLV 23 (72)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 340
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=23.15 E-value=49 Score=26.14 Aligned_cols=42 Identities=21% Similarity=0.418 Sum_probs=27.9
Q ss_pred CccCcccccccccCCcceeccCCCCcccHhhHHHHHhC--CCccccc
Q 042206 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDD--HSTCPLC 163 (184)
Q Consensus 119 ~~~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~CP~C 163 (184)
...|+|=...+... .+..+|||+|-.+-+...+.. .-.||+-
T Consensus 176 s~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 34577755554441 224479999999999998865 3457753
No 341
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=22.94 E-value=2.8e+02 Score=19.51 Aligned_cols=23 Identities=13% Similarity=0.238 Sum_probs=13.0
Q ss_pred CCCCCCCcchhHHHHHHHHHHHH
Q 042206 6 TPSTCPNDEGLRLLVLTTPLVIS 28 (184)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~ivi~ 28 (184)
.|+..-+-.++..++.++.++..
T Consensus 2 ~PnrSLs~~g~~~~~~~~~~~~~ 24 (140)
T PF10003_consen 2 RPNRSLSPRGFLIFIAILAAVSL 24 (140)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHH
Confidence 46666666666666644444333
No 342
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=22.84 E-value=1.8e+02 Score=19.41 Aligned_cols=19 Identities=16% Similarity=0.291 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 042206 26 VISSVVCLILFLFYICYYL 44 (184)
Q Consensus 26 vi~~iv~li~~l~~~~~~~ 44 (184)
-.+++++.+.+++.+.|++
T Consensus 24 tLasVvvavGl~aGLfFcv 42 (106)
T PF14654_consen 24 TLASVVVAVGLFAGLFFCV 42 (106)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3333444444444444444
No 343
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=22.82 E-value=1.6e+02 Score=26.06 Aligned_cols=11 Identities=27% Similarity=0.356 Sum_probs=4.3
Q ss_pred HHHHhhchHHH
Q 042206 44 LFTQLYSSRIQ 54 (184)
Q Consensus 44 ~~~~~~~~r~~ 54 (184)
+++++..+|+.
T Consensus 21 ~lRkk~~~rI~ 31 (570)
T COG4477 21 LLRKKNYQRID 31 (570)
T ss_pred HHHHhHHHHHH
Confidence 33344434443
No 344
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=22.72 E-value=73 Score=26.94 Aligned_cols=18 Identities=17% Similarity=0.591 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 042206 30 VVCLILFLFYICYYLFTQ 47 (184)
Q Consensus 30 iv~li~~l~~~~~~~~~~ 47 (184)
+.++++.++...|++|.+
T Consensus 394 ~p~~il~~~~~~~~~~v~ 411 (436)
T PTZ00208 394 VPAIILAIIAVAFFIMVK 411 (436)
T ss_pred HHHHHHHHHHHHhheeee
Confidence 333333344444444444
No 345
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.58 E-value=36 Score=24.22 Aligned_cols=22 Identities=23% Similarity=0.741 Sum_probs=15.9
Q ss_pred ccCCCCcccHhhHHHHHhCCCccccccccc
Q 042206 138 RSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 138 ~~~C~H~Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
+.+|||+|+. .+..||.|....
T Consensus 32 C~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcC--------CcccCCCCCCCC
Confidence 4478988776 357799997763
No 346
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=22.55 E-value=34 Score=29.44 Aligned_cols=50 Identities=22% Similarity=0.512 Sum_probs=30.9
Q ss_pred CCccCcccccccc-cCCcceeccCCCCcccHhhHHHHHhC--------CCccccccccc
Q 042206 118 KTSTCVICLGEFR-DGDECKVRSKCNHIFHQTCIDDWLDD--------HSTCPLCRGRV 167 (184)
Q Consensus 118 ~~~~C~ICl~~~~-~~~~~~~~~~C~H~Fh~~Ci~~w~~~--------~~~CP~Cr~~~ 167 (184)
.+..|.+|+.-.. ..+.+..+-.|+--||..|..+.... ...|-.|+...
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 4455999995443 33333444467788999998765431 22488886543
No 347
>PRK11827 hypothetical protein; Provisional
Probab=22.53 E-value=24 Score=21.30 Aligned_cols=18 Identities=28% Similarity=0.713 Sum_probs=12.0
Q ss_pred HHHhCCCccccccccccc
Q 042206 152 DWLDDHSTCPLCRGRVRR 169 (184)
Q Consensus 152 ~w~~~~~~CP~Cr~~~~~ 169 (184)
+|+..--.||.|+.++..
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 455555678888877653
No 348
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=22.48 E-value=1.6e+02 Score=16.44 Aligned_cols=33 Identities=3% Similarity=0.172 Sum_probs=0.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 14 EGLRLLVLTTPLVISSVVCLILFLFYICYYLFT 46 (184)
Q Consensus 14 ~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~ 46 (184)
..++.+.+++.++..++.+.++....++.|++.
T Consensus 3 ~El~~flfl~~~l~PiLsV~~V~~YGF~vWm~Q 35 (42)
T TIGR02973 3 MELNTFLFLAAVIWPVLSVITVGGYGFAVWMYQ 35 (42)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 349
>PRK11462 putative transporter; Provisional
Probab=22.42 E-value=2.6e+02 Score=23.68 Aligned_cols=59 Identities=17% Similarity=0.146 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHHHHhhc
Q 042206 20 VLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINS 78 (184)
Q Consensus 20 ~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (184)
+..+.++...+.+++.++..++...++..-+++.++-+++.+++.+.-++|-...+.+.
T Consensus 402 ~~~i~~~~~~~P~~~~~~~~~~~~~~y~l~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~ 460 (460)
T PRK11462 402 ISIIIALFTIVPAICYLLSAIIAKRYYSLTTHNLKTVMEQLAQGKRRCQQQFTSQEVQN 460 (460)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHhhhhccCChhhhcC
No 350
>PF08196 UL2: UL2 protein; InterPro: IPR013269 This entry contains Orf UL2 of Human cytomegalovirus (HHV-5) (Human herpesvirus 5), which is a short protein of unknown function [].
Probab=22.38 E-value=1.7e+02 Score=17.08 Aligned_cols=28 Identities=21% Similarity=0.163 Sum_probs=0.0
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHH
Q 042206 11 PNDEGLRLLVLTTPLVISSVVCLILFLF 38 (184)
Q Consensus 11 ~~~~~~~~~~~~~~ivi~~iv~li~~l~ 38 (184)
|..+|++++.-++.+.+++..++.+-++
T Consensus 28 haqygfrllrgif~itlviwt~vwlkll 55 (60)
T PF08196_consen 28 HAQYGFRLLRGIFLITLVIWTVVWLKLL 55 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 351
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=22.27 E-value=1.4e+02 Score=17.48 Aligned_cols=29 Identities=14% Similarity=0.312 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchHHHh
Q 042206 27 ISSVVCLILFLFYICYYLFTQLYSSRIQT 55 (184)
Q Consensus 27 i~~iv~li~~l~~~~~~~~~~~~~~r~~~ 55 (184)
.++++++++++.+++.+++.+...+.+.+
T Consensus 1 L~~~~~~~~~~~~~~~~~~~~~i~~pl~~ 29 (70)
T PF00672_consen 1 LLVLFLIILLLSLLLAWLLARRITRPLRR 29 (70)
T ss_dssp -HHHHHHHHHHHHHHHHH--HTTCCCHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 352
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=22.25 E-value=69 Score=25.83 Aligned_cols=31 Identities=10% Similarity=-0.017 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchHHHh
Q 042206 25 LVISSVVCLILFLFYICYYLFTQLYSSRIQT 55 (184)
Q Consensus 25 ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~ 55 (184)
.++.++|-++++.++++.++.+-..|+|.+.
T Consensus 271 ~~vPIaVG~~La~lvlivLiaYli~Rrr~~~ 301 (306)
T PF01299_consen 271 DLVPIAVGAALAGLVLIVLIAYLIGRRRSRA 301 (306)
T ss_pred chHHHHHHHHHHHHHHHHHHhheeEeccccc
No 353
>COG1422 Predicted membrane protein [Function unknown]
Probab=22.21 E-value=2.6e+02 Score=21.33 Aligned_cols=62 Identities=13% Similarity=0.149 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHHHHhhcccccccc
Q 042206 24 PLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKVKE 85 (184)
Q Consensus 24 ~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (184)
.+++++.+++.+++-++-.++.-+...++.|..-++-+......+.+...-..+..+.+..+
T Consensus 48 lvilV~avi~gl~~~i~~~~liD~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~qme 109 (201)
T COG1422 48 LVILVAAVITGLYITILQKLLIDQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQME 109 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
No 354
>COG2268 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.04 E-value=1.2e+02 Score=26.78 Aligned_cols=27 Identities=19% Similarity=0.603 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 13 DEGLRLLVLTTPLVISSVVCLILFLFY 39 (184)
Q Consensus 13 ~~~~~~~~~~~~ivi~~iv~li~~l~~ 39 (184)
..++..+.+++.+++++++++++++++
T Consensus 4 ~~~l~pl~~~~~ivvv~i~~ilv~if~ 30 (548)
T COG2268 4 MQGLMPLLMLIAIVVVVILVILVLIFF 30 (548)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHH
No 355
>PF15099 PIRT: Phosphoinositide-interacting protein family
Probab=21.97 E-value=1.1e+02 Score=21.42 Aligned_cols=39 Identities=10% Similarity=0.136 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhh
Q 042206 19 LVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQN 57 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~ 57 (184)
.+-++..+.+...+++++...++|....++.++|.+..+
T Consensus 79 i~~~~G~vlLs~GLmlL~~~alcW~~~~rkK~~kr~eSq 117 (129)
T PF15099_consen 79 IISIFGPVLLSLGLMLLACSALCWKPIIRKKKKKRRESQ 117 (129)
T ss_pred hhhhehHHHHHHHHHHHHhhhheehhhhHhHHHHhhhhh
No 356
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=21.95 E-value=2.8e+02 Score=19.20 Aligned_cols=67 Identities=12% Similarity=0.177 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHHHHhhccccccc
Q 042206 18 LLVLTTPLVISSVVCLILFLF------------YICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKVK 84 (184)
Q Consensus 18 ~~~~~~~ivi~~iv~li~~l~------------~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (184)
+++++.++++...+.+.+... +-.+..+++..+.+.....++.+......+.-...+.....++..+
T Consensus 39 LfvifSPVlVPaai~~~l~~~Gfl~sg~~g~~~ls~lsW~~~y~rg~~~~~~~q~d~Ak~ri~d~a~~v~~kake~gq~ 117 (118)
T PF01277_consen 39 LFVIFSPVLVPAAIAIGLAVAGFLTSGAFGLTALSSLSWMYNYFRGRHPPGPDQLDYAKRRIADTASYVGQKAKEVGQK 117 (118)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHhCcc
No 357
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=21.87 E-value=2.2e+02 Score=17.90 Aligned_cols=45 Identities=18% Similarity=0.267 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHH
Q 042206 24 PLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQ 68 (184)
Q Consensus 24 ~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 68 (184)
|.-.+..+++++.-++++-.++..+..+-+..+..+.......+.
T Consensus 19 P~~Fl~~vll~LtPlfiisa~lSwkLaK~ie~~ere~K~k~Kr~~ 63 (74)
T PF15086_consen 19 PYEFLTTVLLILTPLFIISAVLSWKLAKAIEKEEREKKKKAKRQA 63 (74)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 358
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=21.83 E-value=13 Score=17.68 Aligned_cols=23 Identities=26% Similarity=0.606 Sum_probs=0.0
Q ss_pred ccHhhHHHHHhCCCccccccccc
Q 042206 145 FHQTCIDDWLDDHSTCPLCRGRV 167 (184)
Q Consensus 145 Fh~~Ci~~w~~~~~~CP~Cr~~~ 167 (184)
||..|=.+--...+.||.|-.+|
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCcC
No 359
>COG3462 Predicted membrane protein [Function unknown]
Probab=21.68 E-value=1.7e+02 Score=19.93 Aligned_cols=68 Identities=15% Similarity=0.259 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHHHHhhcccccc
Q 042206 13 DEGLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTEYKV 83 (184)
Q Consensus 13 ~~~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (184)
.+|+-...++.+++ ..+++++++++++++..+....-.....++-....+-...+-.+-++.++++..
T Consensus 43 ~GG~yGm~lImpI~---~~vvli~lvvfm~~~~g~~r~~~~~d~~e~~sRA~eIlkER~AkGEItEEEY~r 110 (117)
T COG3462 43 MGGLYGMWLIMPIF---WAVVLIFLVVFMFYILGAVRRGSDDDDAERGSRAEEILKERYAKGEITEEEYRR 110 (117)
T ss_pred ccchhhhHHHHHHH---HHHHHHHHHHHHHHHHHHhcccchhcccccccHHHHHHHHHHhcCCCCHHHHHH
No 360
>KOG3269 consensus Predicted membrane protein [Function unknown]
Probab=21.60 E-value=3.5e+02 Score=20.18 Aligned_cols=71 Identities=15% Similarity=0.178 Sum_probs=0.0
Q ss_pred cCCCCCCCcch-----------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhh---HHHHhhhhhHHHH
Q 042206 5 VTPSTCPNDEG-----------LRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQN---QDIEQGLSSQQQQ 70 (184)
Q Consensus 5 ~~~~~~~~~~~-----------~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~---~~~~~~~~~~~~~ 70 (184)
++.+..+++++ +..++.++.++..-+-...+++-....|...-........++ .+.+-+...+.+.
T Consensus 86 ld~G~Dln~~g~~~sy~~D~iylt~~v~llsiis~kfw~~lLl~P~~a~yk~~g~i~p~ls~g~~~~dn~e~~~kkq~K~ 165 (180)
T KOG3269|consen 86 LDGGFDLNDEGAICSYVKDAIYLTCFVQLLSIISGKFWASLLLIPIFAGYKAAGLILPMLSQGSEQGDNDEKNRKKQKKM 165 (180)
T ss_pred eecCcCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhcchhccccccccchhhcchhHHHH
Q ss_pred HHHHH
Q 042206 71 QQRVI 75 (184)
Q Consensus 71 ~~~~~ 75 (184)
+++..
T Consensus 166 ~R~~~ 170 (180)
T KOG3269|consen 166 DRQMS 170 (180)
T ss_pred HHHHH
No 361
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=21.54 E-value=3.8e+02 Score=22.29 Aligned_cols=49 Identities=20% Similarity=0.167 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHH
Q 042206 24 PLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQ 72 (184)
Q Consensus 24 ~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~ 72 (184)
...+.++.+++++.+...+|.+.+......+.+....+..+....++..
T Consensus 29 ~~~l~~lalll~~alg~~~~~~~~~q~~~~~~~~~~L~~ql~~~~~~~~ 77 (372)
T PF04375_consen 29 GSGLALLALLLALALGAGGWYWQQQQLQQLQQQLQALQQQLQQLQQQLE 77 (372)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 362
>PF00664 ABC_membrane: ABC transporter transmembrane region; InterPro: IPR001140 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). A variety of ATP-binding transport proteins have a six transmembrane helical region. They are all integral membrane proteins involved in a variety of transport systems. Members of this family include; the cystic fibrosis transmembrane conductance regulator (CFTR), bacterial leukotoxin secretion ATP-binding protein, multidrug resistance proteins, the yeast leptomycin B resistance protein, the mammalian sulphonylurea receptor and antigen peptide transporter 2. Many of these proteins have two such regions.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3G61_B 3G5U_B 3G60_A 3B60_D 3QF4_B 2HYD_A 2ONJ_A 4A82_B 4AA3_A 2YL4_A.
Probab=21.51 E-value=3.4e+02 Score=19.93 Aligned_cols=55 Identities=11% Similarity=0.146 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHH
Q 042206 15 GLRLLVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQ 69 (184)
Q Consensus 15 ~~~~~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~ 69 (184)
......+.+...+..++++++.+.+++...+.++..+..++..+...+-.+....
T Consensus 131 ~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 185 (275)
T PF00664_consen 131 FSLILLFFISWKLALILLIILPLLFLISFIFSKKIRKLSKKYQEANSELNSFLSE 185 (275)
T ss_dssp HHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhcccccccccccccchhhhhhHhhhhhhcccccccccccccccccccccccc
No 363
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=21.50 E-value=62 Score=23.26 Aligned_cols=38 Identities=16% Similarity=0.114 Sum_probs=0.0
Q ss_pred ccCCCCC-------CCcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 4 AVTPSTC-------PNDEGLRLLVLTTPLVISSVVCLILFLFYIC 41 (184)
Q Consensus 4 ~~~~~~~-------~~~~~~~~~~~~~~ivi~~iv~li~~l~~~~ 41 (184)
+.+|..| ....|..+..+.+.+|+++.++..+++.++.
T Consensus 42 ~~~~~Ccsy~~yi~~~lsgtAIaGIVfgiVfimgvva~i~icvCm 86 (155)
T PF10873_consen 42 GTTPYCCSYYAYIGDVLSGTAIAGIVFGIVFIMGVVAGIAICVCM 86 (155)
T ss_pred CCCcchhchhhhhccccccceeeeeehhhHHHHHHHHHHHHHHhh
No 364
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.44 E-value=28 Score=18.89 Aligned_cols=17 Identities=24% Similarity=0.628 Sum_probs=0.0
Q ss_pred ccccccccccccCCCCC
Q 042206 160 CPLCRGRVRRIAWPSVT 176 (184)
Q Consensus 160 CP~Cr~~~~~~~~~~~~ 176 (184)
||.|+..+....+..+.
T Consensus 2 CP~C~~~l~~~~~~~~~ 18 (41)
T PF13453_consen 2 CPRCGTELEPVRLGDVE 18 (41)
T ss_pred cCCCCcccceEEECCEE
No 365
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=21.24 E-value=93 Score=21.93 Aligned_cols=35 Identities=20% Similarity=0.333 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHH
Q 042206 20 VLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQ 54 (184)
Q Consensus 20 ~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~ 54 (184)
++.+++++.+.+.+++..+...++.++++..--+|
T Consensus 100 Yia~~~il~il~~i~is~~~~~~yr~~r~~~~~~~ 134 (139)
T PHA03099 100 YIPSPGIVLVLVGIIITCCLLSVYRFTRRTKLPLQ 134 (139)
T ss_pred hhhhhHHHHHHHHHHHHHHHHhhheeeecccCchh
No 366
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=21.16 E-value=45 Score=25.24 Aligned_cols=29 Identities=24% Similarity=0.501 Sum_probs=0.0
Q ss_pred HhhHHHHHh-CCCcccccccccccccCCCC
Q 042206 147 QTCIDDWLD-DHSTCPLCRGRVRRIAWPSV 175 (184)
Q Consensus 147 ~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~~ 175 (184)
..||.+--. .++-||+||....-....+.
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL~~DyRN~ 126 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYLYFDYRNP 126 (239)
T ss_pred hHHHhhcCeecCCCCCccccceEEEeccCH
No 367
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=21.06 E-value=1.7e+02 Score=16.27 Aligned_cols=40 Identities=8% Similarity=-0.006 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHH
Q 042206 22 TTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIE 61 (184)
Q Consensus 22 ~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~ 61 (184)
.....-+.+.+++++..++..+.-.+...++++++..+..
T Consensus 6 ~yVW~sYg~t~l~l~~li~~~~~~~r~~~~~l~~~~~r~~ 45 (45)
T TIGR03141 6 FYVWLAYGITALVLAGLILWSLLDRRRLLRELRRLEAREA 45 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
No 368
>KOG1094 consensus Discoidin domain receptor DDR1 [Signal transduction mechanisms]
Probab=20.94 E-value=1.3e+02 Score=27.20 Aligned_cols=28 Identities=14% Similarity=0.166 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206 25 LVISSVVCLILFLFYICYYLFTQLYSSR 52 (184)
Q Consensus 25 ivi~~iv~li~~l~~~~~~~~~~~~~~r 52 (184)
++|++++.+++++++++..+++++++.+
T Consensus 392 ~~~~~f~~if~iva~ii~~~L~R~rr~~ 419 (807)
T KOG1094|consen 392 ILIIIFVAIFLIVALIIALMLWRWRRLL 419 (807)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHHHH
No 369
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=20.94 E-value=2.1e+02 Score=20.02 Aligned_cols=29 Identities=28% Similarity=0.468 Sum_probs=0.0
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 11 PNDEGLRLLVLTTPLVISSVVCLILFLFY 39 (184)
Q Consensus 11 ~~~~~~~~~~~~~~ivi~~iv~li~~l~~ 39 (184)
|...+...+.++.+++++++..++++...
T Consensus 95 Pp~~~~t~~LW~~P~~lll~g~~~~~~~~ 123 (126)
T PRK10144 95 PPLTGQTLVLWALPVVLLLLMALILWRVR 123 (126)
T ss_pred CCCCcchHHHHHHHHHHHHHHHHHHHHHH
No 370
>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=20.86 E-value=48 Score=19.78 Aligned_cols=19 Identities=21% Similarity=0.464 Sum_probs=0.0
Q ss_pred cccccccccccccCCCCCC
Q 042206 159 TCPLCRGRVRRIAWPSVTT 177 (184)
Q Consensus 159 ~CP~Cr~~~~~~~~~~~~~ 177 (184)
.||.|++.+.......+.+
T Consensus 4 ~CP~C~k~~~~~~~n~~rP 22 (57)
T PF03884_consen 4 KCPICGKPVEWSPENPFRP 22 (57)
T ss_dssp E-TTT--EEE-SSSSS--S
T ss_pred cCCCCCCeecccCCCCcCC
No 371
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=20.74 E-value=1.1e+02 Score=21.99 Aligned_cols=34 Identities=12% Similarity=0.368 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHH
Q 042206 26 VISSVVCLILFLFYICYYLFTQLYSSRIQTQNQD 59 (184)
Q Consensus 26 vi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~ 59 (184)
+|+.+.+.+++.+++++++++..+.+|.....++
T Consensus 121 lilaisvtvv~~iliii~CLiei~shr~a~~~~e 154 (154)
T PF14914_consen 121 LILAISVTVVVMILIIIFCLIEICSHRRASEEDE 154 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcccccccCC
No 372
>PF07835 COX4_pro_2: Bacterial aa3 type cytochrome c oxidase subunit IV; InterPro: IPR012422 Bacterial cytochrome c oxidase is found bound to the to the cell membrane, where it is involved in the generation of the transmembrane proton electrochemical gradient. It is composed of four subunits. Subunit IV consists of one transmembrane helix that does not interact directly with the other subunits, but maintains its position by indirect contacts via phospholipid molecules found in the structure. The function of subunit IV is as yet unknown []. ; PDB: 1QLE_D 1M57_J 1M56_J.
Probab=20.63 E-value=1.6e+02 Score=16.41 Aligned_cols=27 Identities=11% Similarity=0.150 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042206 16 LRLLVLTTPLVISSVVCLILFLFYICY 42 (184)
Q Consensus 16 ~~~~~~~~~ivi~~iv~li~~l~~~~~ 42 (184)
+..|+-..-...++++++++++.+..+
T Consensus 18 y~gFi~~~k~~~~~~~~~li~lai~~~ 44 (44)
T PF07835_consen 18 YDGFIKLTKWGTIAIAAILIFLAIFFT 44 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCC-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhC
No 373
>KOG3927 consensus Na+/K+ ATPase, beta subunit [Inorganic ion transport and metabolism]
Probab=20.61 E-value=2.1e+02 Score=23.31 Aligned_cols=34 Identities=6% Similarity=0.002 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206 19 LVLTTPLVISSVVCLILFLFYICYYLFTQLYSSR 52 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r 52 (184)
|.-++.+.++..+++..+++++++.++....++.
T Consensus 44 W~~IllfYivFY~~la~lf~~~~~~~~~tidp~~ 77 (300)
T KOG3927|consen 44 WAKILLFYIVFYGVLAALFAGCMWFMLQTIDPKV 77 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
No 374
>PRK09731 putative general secretion pathway protein YghD; Provisional
Probab=20.59 E-value=3.7e+02 Score=20.04 Aligned_cols=46 Identities=17% Similarity=0.211 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHH
Q 042206 28 SSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQR 73 (184)
Q Consensus 28 ~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 73 (184)
+..++.+++++.++|+.+.+....+..+.....+...+....-+..
T Consensus 39 ll~~~g~vL~l~i~Y~~iWqPl~~~~~~a~~~l~~~~qll~wvq~~ 84 (178)
T PRK09731 39 MLLAAVVFLFSVGYYVLIWQPLSERIEQQETMLQQLVAMNTRLKSA 84 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
No 375
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=20.58 E-value=73 Score=18.92 Aligned_cols=23 Identities=26% Similarity=0.715 Sum_probs=0.0
Q ss_pred CCcccccccccccccCCCCCCCC
Q 042206 157 HSTCPLCRGRVRRIAWPSVTTAD 179 (184)
Q Consensus 157 ~~~CP~Cr~~~~~~~~~~~~~~~ 179 (184)
+..||.|-.+.....=+.++++|
T Consensus 17 k~~CP~CG~~t~~~~P~rfSp~D 39 (56)
T PRK13130 17 KEICPVCGGKTKNPHPPRFSPED 39 (56)
T ss_pred cccCcCCCCCCCCCCCCCCCCCC
No 376
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.53 E-value=54 Score=29.45 Aligned_cols=25 Identities=32% Similarity=0.987 Sum_probs=0.0
Q ss_pred CCCcccHhhHHHHHh-----CCCccccccc
Q 042206 141 CNHIFHQTCIDDWLD-----DHSTCPLCRG 165 (184)
Q Consensus 141 C~H~Fh~~Ci~~w~~-----~~~~CP~Cr~ 165 (184)
|+-.+|..|...|+. +.-.||-||.
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCcee
No 377
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=20.47 E-value=34 Score=27.63 Aligned_cols=47 Identities=26% Similarity=0.379 Sum_probs=0.0
Q ss_pred CCCCCCcchhHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHhhchHH
Q 042206 7 PSTCPNDEGLRLLVLTTPLVISSV---------------VCLILFLFYICYYLFTQLYSSRI 53 (184)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~ivi~~i---------------v~li~~l~~~~~~~~~~~~~~r~ 53 (184)
|--||.-++..+|-..+.++.+.+ |+..++++++++.+++-.+++|+
T Consensus 15 ~pr~p~~~a~l~~~~llll~ail~w~~iimsd~t~~a~~vl~sfAvvliiIIiIImlF~RrL 76 (381)
T PF05297_consen 15 PPRCPQPHASLLFGLLLLLVAILVWFFIIMSDLTQGALTVLYSFAVVLIIIIIIIMLFKRRL 76 (381)
T ss_dssp --------------------------------------------------------------
T ss_pred CCCCCCcchhHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHhh
No 378
>PF15179 Myc_target_1: Myc target protein 1
Probab=20.46 E-value=3.1e+02 Score=20.64 Aligned_cols=45 Identities=20% Similarity=0.057 Sum_probs=0.0
Q ss_pred CCCCCcchhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Q 042206 8 STCPNDEGLRLL-VLTTPLVISSVVCLILFLFYICYYLFTQLYSSR 52 (184)
Q Consensus 8 ~~~~~~~~~~~~-~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r 52 (184)
+|++..+=+.-| .-=+.+.+.+..++.+++..++|.++....++|
T Consensus 5 ~T~~~~~~~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 5 TTSLLLEWLENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred cccccccchhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
No 379
>KOG4550 consensus Predicted membrane protein [Function unknown]
Probab=20.32 E-value=1.7e+02 Score=25.23 Aligned_cols=41 Identities=10% Similarity=0.074 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHH
Q 042206 21 LTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIE 61 (184)
Q Consensus 21 ~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~ 61 (184)
+++.-+++++.+-+.+++++.++.+..+..+++.++++...
T Consensus 560 lIl~s~~al~gvC~~il~ii~~Lh~~EKkeD~~Er~QesHR 600 (606)
T KOG4550|consen 560 LILLSAIALIGVCVFILAIIGILHWQEKKEDDRERRQESHR 600 (606)
T ss_pred HHHHHHHHHHHHHHHHHHHHhheehhhhhhhhHHHHhhhhc
No 380
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.28 E-value=53 Score=29.65 Aligned_cols=40 Identities=23% Similarity=0.415 Sum_probs=0.0
Q ss_pred cCcccccccccCCcceeccCCCCcccHhhHHHHHhCCCccccc
Q 042206 121 TCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163 (184)
Q Consensus 121 ~C~ICl~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~CP~C 163 (184)
.|-+|...-..+..+.-++.|+-.||..| |..-.+.||+|
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC 695 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVC 695 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCccc
No 381
>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=20.20 E-value=45 Score=16.65 Aligned_cols=13 Identities=38% Similarity=0.994 Sum_probs=0.0
Q ss_pred ccccccccccccc
Q 042206 159 TCPLCRGRVRRIA 171 (184)
Q Consensus 159 ~CP~Cr~~~~~~~ 171 (184)
.||.|-..+....
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
No 382
>PF13584 BatD: Oxygen tolerance
Probab=20.04 E-value=3.2e+02 Score=23.39 Aligned_cols=62 Identities=8% Similarity=0.054 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHhhhHHHHhhhhhHHHHHHHHHhhccc
Q 042206 19 LVLTTPLVISSVVCLILFLFYICYYLFTQLYSSRIQTQNQDIEQGLSSQQQQQQRVIINSTE 80 (184)
Q Consensus 19 ~~~~~~ivi~~iv~li~~l~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (184)
+....++.+..++.+++++++++++...++....................-+..+.-.++..
T Consensus 422 ~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~ 483 (484)
T PF13584_consen 422 FFGNWWFWLLLLLPLLLLLLLLILRRKRRKRQSDPAAKRQKKANKVAKKSLKAAEQALQGNQ 483 (484)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhccccccHHHHHHHHHHHHHhhcCC
Done!