Query 041664
Match_columns 268
No_of_seqs 234 out of 787
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 09:25:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041664.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041664hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3053 Uncharacterized conser 99.9 1.4E-28 2.9E-33 222.2 0.6 164 75-245 17-203 (293)
2 PHA02825 LAP/PHD finger-like p 99.8 2.2E-21 4.9E-26 165.0 7.7 96 74-176 4-99 (162)
3 PHA02862 5L protein; Provision 99.8 5.2E-21 1.1E-25 160.4 6.8 64 78-145 2-65 (156)
4 smart00744 RINGv The RING-vari 99.6 2.4E-16 5.1E-21 110.5 2.6 47 80-129 1-49 (49)
5 PF12906 RINGv: RING-variant d 99.6 5.8E-16 1.3E-20 107.6 1.1 45 81-128 1-47 (47)
6 COG5183 SSM4 Protein involved 99.6 4E-15 8.7E-20 151.1 6.5 74 75-152 9-84 (1175)
7 KOG1609 Protein involved in mR 99.4 1.4E-13 3.1E-18 126.2 3.1 80 64-146 64-148 (323)
8 PF13639 zf-RING_2: Ring finge 97.3 5.9E-05 1.3E-09 50.8 0.4 41 79-129 1-44 (44)
9 KOG0823 Predicted E3 ubiquitin 97.2 0.0005 1.1E-08 62.4 5.4 56 74-136 43-98 (230)
10 PHA02929 N1R/p28-like protein; 96.9 0.00062 1.3E-08 62.3 3.0 50 76-135 172-229 (238)
11 KOG4628 Predicted E3 ubiquitin 96.8 0.00079 1.7E-08 64.7 2.5 46 79-133 230-278 (348)
12 PLN03208 E3 ubiquitin-protein 96.5 0.0024 5.2E-08 56.8 3.6 54 76-134 16-80 (193)
13 COG5243 HRD1 HRD ubiquitin lig 96.4 0.0027 5.8E-08 61.5 3.4 52 75-136 284-348 (491)
14 PF11793 FANCL_C: FANCL C-term 96.3 0.0013 2.9E-08 49.1 0.9 55 78-135 2-68 (70)
15 PF13920 zf-C3HC4_3: Zinc fing 96.3 0.0016 3.5E-08 45.0 0.9 46 78-133 2-48 (50)
16 PF12861 zf-Apc11: Anaphase-pr 96.1 0.0049 1.1E-07 48.1 2.9 53 78-135 21-84 (85)
17 cd00162 RING RING-finger (Real 96.0 0.0057 1.2E-07 39.4 2.4 43 80-131 1-44 (45)
18 PF12678 zf-rbx1: RING-H2 zinc 96.0 0.0042 9.1E-08 46.7 1.9 42 78-129 19-73 (73)
19 smart00184 RING Ring finger. E 95.6 0.0092 2E-07 37.0 2.2 39 81-128 1-39 (39)
20 COG5540 RING-finger-containing 95.5 0.012 2.5E-07 55.9 3.3 48 76-132 321-371 (374)
21 KOG0802 E3 ubiquitin ligase [P 95.1 0.011 2.5E-07 59.6 2.2 47 77-133 290-341 (543)
22 PF00097 zf-C3HC4: Zinc finger 94.9 0.016 3.4E-07 38.0 1.7 40 81-128 1-41 (41)
23 PHA02926 zinc finger-like prot 94.9 0.029 6.3E-07 51.1 3.8 55 76-135 168-232 (242)
24 KOG0317 Predicted E3 ubiquitin 94.7 0.033 7.1E-07 52.3 3.8 51 73-133 234-284 (293)
25 KOG1493 Anaphase-promoting com 94.0 0.019 4.1E-07 44.2 0.5 51 79-135 21-83 (84)
26 PF13923 zf-C3HC4_2: Zinc fing 94.0 0.027 5.8E-07 36.9 1.2 38 81-128 1-39 (39)
27 smart00504 Ubox Modified RING 93.4 0.066 1.4E-06 37.8 2.5 46 79-134 2-47 (63)
28 PF11460 DUF3007: Protein of u 93.2 0.51 1.1E-05 38.2 7.5 80 167-262 12-98 (104)
29 COG5219 Uncharacterized conser 92.4 0.04 8.7E-07 58.9 0.3 53 76-134 1467-1524(1525)
30 TIGR00599 rad18 DNA repair pro 91.4 0.15 3.2E-06 50.1 2.9 49 76-134 24-72 (397)
31 COG5194 APC11 Component of SCF 91.1 0.16 3.4E-06 39.5 2.2 29 102-135 55-83 (88)
32 KOG0827 Predicted E3 ubiquitin 91.1 0.15 3.3E-06 49.9 2.5 45 78-129 4-52 (465)
33 PF15050 SCIMP: SCIMP protein 90.5 0.33 7.2E-06 40.4 3.6 62 196-257 8-75 (133)
34 KOG0828 Predicted E3 ubiquitin 90.0 0.2 4.3E-06 50.4 2.4 48 76-132 569-633 (636)
35 KOG2930 SCF ubiquitin ligase, 88.9 0.3 6.5E-06 39.7 2.2 30 102-136 82-111 (114)
36 KOG1785 Tyrosine kinase negati 88.7 0.16 3.5E-06 50.0 0.6 47 79-133 370-416 (563)
37 KOG4265 Predicted E3 ubiquitin 88.1 0.62 1.3E-05 45.0 4.1 51 75-134 287-337 (349)
38 PLN02189 cellulose synthase 85.9 0.48 1E-05 51.5 2.3 52 75-133 31-87 (1040)
39 PF15227 zf-C3HC4_4: zinc fing 82.4 0.68 1.5E-05 31.1 1.1 42 81-128 1-42 (42)
40 KOG0825 PHD Zn-finger protein 82.1 0.94 2E-05 48.1 2.4 27 102-133 145-171 (1134)
41 PLN02436 cellulose synthase A 82.0 1.1 2.3E-05 49.1 2.9 52 75-133 33-89 (1094)
42 PF10272 Tmpp129: Putative tra 81.1 2 4.3E-05 41.8 4.2 40 93-135 306-353 (358)
43 KOG0804 Cytoplasmic Zn-finger 80.0 0.9 2E-05 45.3 1.4 47 76-132 173-221 (493)
44 PF14569 zf-UDP: Zinc-binding 78.8 1.9 4.1E-05 33.3 2.6 54 75-135 6-64 (80)
45 COG4237 HyfE Hydrogenase 4 mem 76.9 16 0.00034 33.0 8.2 58 181-238 149-212 (218)
46 PF07800 DUF1644: Protein of u 76.4 3.4 7.4E-05 35.9 3.7 67 77-145 1-103 (162)
47 PF05883 Baculo_RING: Baculovi 76.2 1.2 2.5E-05 37.7 0.9 41 77-117 25-69 (134)
48 PF14634 zf-RING_5: zinc-RING 75.4 2 4.3E-05 28.7 1.7 40 81-130 2-44 (44)
49 PF14570 zf-RING_4: RING/Ubox 73.4 1.6 3.5E-05 30.6 0.8 46 81-133 1-48 (48)
50 PLN02195 cellulose synthase A 72.0 3.2 6.9E-05 45.1 3.0 50 77-133 5-59 (977)
51 PLN02638 cellulose synthase A 71.8 2.9 6.2E-05 45.9 2.7 51 76-133 15-70 (1079)
52 KOG1002 Nucleotide excision re 71.4 2.2 4.8E-05 43.6 1.6 59 73-136 531-589 (791)
53 KOG4445 Uncharacterized conser 70.9 2.1 4.5E-05 41.0 1.2 55 78-137 115-190 (368)
54 KOG3012 Uncharacterized conser 70.4 31 0.00067 31.9 8.6 13 231-243 141-153 (259)
55 TIGR00570 cdk7 CDK-activating 69.7 3.9 8.6E-05 39.0 2.8 49 78-135 3-56 (309)
56 PF08566 Pam17: Mitochondrial 67.4 22 0.00049 31.3 6.8 53 159-213 42-96 (173)
57 KOG1645 RING-finger-containing 67.3 4.7 0.0001 40.0 2.8 50 77-133 3-56 (463)
58 PF04564 U-box: U-box domain; 66.2 2.9 6.2E-05 31.0 0.9 48 78-134 4-51 (73)
59 PLN02400 cellulose synthase 64.0 4.6 0.0001 44.4 2.3 51 75-133 33-89 (1085)
60 COG5574 PEX10 RING-finger-cont 62.6 9 0.00019 35.9 3.6 51 75-134 212-263 (271)
61 COG5432 RAD18 RING-finger-cont 61.2 3.5 7.6E-05 39.4 0.7 49 77-135 24-72 (391)
62 PRK04987 fumarate reductase su 60.8 23 0.00049 29.9 5.4 53 141-194 14-68 (130)
63 PF09788 Tmemb_55A: Transmembr 60.7 21 0.00045 33.3 5.6 15 122-136 157-171 (256)
64 PRK13743 conjugal transfer pro 60.5 26 0.00056 29.7 5.7 45 198-242 85-132 (141)
65 PRK13603 fumarate reductase su 60.5 20 0.00044 30.1 5.0 54 141-194 10-64 (126)
66 PF04120 Iron_permease: Low af 60.3 73 0.0016 26.8 8.4 15 250-264 91-105 (132)
67 cd00546 QFR_TypeD_subunitC Qui 59.7 20 0.00043 30.0 4.8 53 141-194 10-64 (124)
68 PF13994 PgaD: PgaD-like prote 59.5 31 0.00067 28.7 6.1 41 222-265 83-123 (138)
69 PRK14584 hmsS hemin storage sy 59.0 1E+02 0.0022 26.7 9.2 8 222-229 82-89 (153)
70 PF02300 Fumarate_red_C: Fumar 58.9 25 0.00054 29.6 5.3 53 141-194 13-67 (129)
71 PF05290 Baculo_IE-1: Baculovi 57.7 6.3 0.00014 33.5 1.6 54 77-135 79-134 (140)
72 PRK05978 hypothetical protein; 57.4 58 0.0012 28.0 7.4 13 123-135 53-65 (148)
73 KOG2177 Predicted E3 ubiquitin 57.1 4.6 0.0001 34.9 0.7 45 75-129 10-54 (386)
74 COG4171 SapC ABC-type antimicr 56.6 69 0.0015 29.9 8.2 41 223-263 172-221 (296)
75 KOG0287 Postreplication repair 56.3 3.9 8.4E-05 39.8 0.1 46 78-133 23-68 (442)
76 PLN02915 cellulose synthase A 55.8 9.2 0.0002 42.0 2.8 52 75-133 12-68 (1044)
77 KOG2164 Predicted E3 ubiquitin 54.5 9.5 0.00021 38.7 2.5 53 78-135 186-238 (513)
78 PRK00523 hypothetical protein; 54.4 20 0.00044 27.3 3.7 23 196-218 6-28 (72)
79 PF13829 DUF4191: Domain of un 53.4 32 0.0007 31.5 5.5 28 207-234 58-86 (224)
80 PRK01844 hypothetical protein; 52.0 23 0.00051 26.9 3.7 21 197-217 6-26 (72)
81 PF13445 zf-RING_UBOX: RING-ty 51.3 7.6 0.00016 26.4 0.9 40 81-126 1-43 (43)
82 COG4325 Predicted membrane pro 51.2 70 0.0015 31.9 7.7 22 236-257 204-228 (464)
83 COG3763 Uncharacterized protei 50.5 27 0.00059 26.5 3.8 19 199-217 8-26 (71)
84 PF14018 DUF4234: Domain of un 50.0 99 0.0022 22.6 8.7 49 174-223 18-68 (75)
85 PF03839 Sec62: Translocation 48.2 52 0.0011 30.1 6.1 31 205-237 152-184 (224)
86 PF15086 UPF0542: Uncharacteri 47.3 43 0.00093 25.6 4.5 28 191-218 17-44 (74)
87 KOG4692 Predicted E3 ubiquitin 46.5 18 0.00039 35.5 3.0 49 73-134 417-468 (489)
88 COG5175 MOT2 Transcriptional r 46.2 14 0.0003 36.1 2.1 54 74-134 10-65 (480)
89 KOG2927 Membrane component of 45.3 49 0.0011 32.4 5.6 18 203-220 234-251 (372)
90 PF15176 LRR19-TM: Leucine-ric 43.9 54 0.0012 26.6 4.8 37 203-239 22-58 (102)
91 PRK10404 hypothetical protein; 43.5 26 0.00057 28.0 3.1 22 191-216 78-99 (101)
92 PF15179 Myc_target_1: Myc tar 42.7 35 0.00076 30.5 3.9 18 204-221 28-45 (197)
93 COG5236 Uncharacterized conser 42.4 25 0.00055 34.5 3.2 56 71-134 54-109 (493)
94 PRK11380 hypothetical protein; 42.3 83 0.0018 30.7 6.7 24 209-232 84-108 (353)
95 PF10571 UPF0547: Uncharacteri 42.1 11 0.00023 23.1 0.5 12 122-133 14-25 (26)
96 PF05191 ADK_lid: Adenylate ki 41.6 17 0.00038 23.7 1.4 17 123-139 2-18 (36)
97 PF05915 DUF872: Eukaryotic pr 41.5 84 0.0018 25.7 5.8 17 190-206 73-89 (115)
98 KOG1341 Na+/K+ transporter [In 41.2 97 0.0021 32.9 7.3 32 167-198 476-510 (854)
99 KOG1039 Predicted E3 ubiquitin 40.8 21 0.00045 34.7 2.4 57 73-134 156-222 (344)
100 PF05957 DUF883: Bacterial pro 38.7 34 0.00073 26.4 2.9 23 190-216 70-92 (94)
101 PF09889 DUF2116: Uncharacteri 38.7 15 0.00032 26.8 0.8 13 123-135 4-16 (59)
102 PF13937 DUF4212: Domain of un 38.6 1.3E+02 0.0029 23.2 6.2 28 179-209 32-62 (81)
103 PF06170 DUF983: Protein of un 38.5 1.9E+02 0.0041 22.5 7.2 13 123-135 9-21 (86)
104 TIGR02972 TMAO_torE trimethyla 38.2 63 0.0014 22.7 3.8 23 196-218 15-39 (47)
105 COG3029 FrdC Fumarate reductas 38.0 33 0.00071 28.7 2.8 53 142-194 14-67 (129)
106 PF06796 NapE: Periplasmic nit 37.7 61 0.0013 23.5 3.8 20 199-218 26-47 (56)
107 KOG4050 Glutamate transporter 36.6 1.6E+02 0.0035 26.0 7.0 25 168-194 85-110 (188)
108 COG4137 ABC-type uncharacteriz 36.5 1.1E+02 0.0024 28.7 6.3 48 171-218 212-261 (265)
109 KOG0320 Predicted E3 ubiquitin 36.4 23 0.00049 31.6 1.8 47 77-131 130-176 (187)
110 PF10367 Vps39_2: Vacuolar sor 36.0 13 0.00028 28.4 0.2 32 76-112 76-109 (109)
111 PF04423 Rad50_zn_hook: Rad50 35.5 27 0.00059 24.3 1.8 23 110-133 9-31 (54)
112 COG3071 HemY Uncharacterized e 35.2 1.8E+02 0.004 28.9 7.9 19 221-239 72-90 (400)
113 KOG0978 E3 ubiquitin ligase in 35.0 16 0.00035 38.6 0.7 47 79-134 644-690 (698)
114 PRK10132 hypothetical protein; 34.9 44 0.00095 27.1 3.1 22 191-216 84-105 (108)
115 KOG3268 Predicted E3 ubiquitin 34.7 42 0.00091 30.1 3.2 35 102-136 191-231 (234)
116 smart00249 PHD PHD zinc finger 34.3 14 0.0003 23.5 0.1 29 80-111 1-30 (47)
117 PF01299 Lamp: Lysosome-associ 34.1 25 0.00054 32.9 1.8 29 200-228 275-303 (306)
118 PF08746 zf-RING-like: RING-li 34.0 22 0.00048 24.0 1.0 22 104-128 22-43 (43)
119 KOG4684 Uncharacterized conser 33.7 1.2E+02 0.0027 28.0 6.0 49 122-172 170-224 (275)
120 KOG3899 Uncharacterized conser 33.6 30 0.00066 33.2 2.2 38 95-135 322-367 (381)
121 KOG4172 Predicted E3 ubiquitin 33.4 26 0.00056 25.6 1.3 42 79-133 8-54 (62)
122 PF03904 DUF334: Domain of unk 32.6 1.3E+02 0.0028 27.7 6.0 18 196-213 202-220 (230)
123 PF14447 Prok-RING_4: Prokaryo 31.8 35 0.00075 24.7 1.8 47 76-134 5-51 (55)
124 PF06679 DUF1180: Protein of u 31.7 54 0.0012 28.6 3.3 12 234-245 123-134 (163)
125 KOG0802 E3 ubiquitin ligase [P 30.8 19 0.00041 36.6 0.4 48 75-136 476-523 (543)
126 PF06750 DiS_P_DiS: Bacterial 29.8 66 0.0014 25.1 3.3 57 122-179 33-90 (92)
127 KOG1734 Predicted RING-contain 29.7 13 0.00028 35.3 -0.9 53 77-135 223-283 (328)
128 KOG2257 N-acetylglucosaminyltr 29.6 2.9E+02 0.0063 23.5 7.2 39 174-212 26-64 (135)
129 COG1422 Predicted membrane pro 29.1 3.8E+02 0.0082 24.3 8.3 41 180-220 30-70 (201)
130 PRK10747 putative protoheme IX 29.0 71 0.0015 30.7 4.0 9 212-220 59-67 (398)
131 PF12270 Cyt_c_ox_IV: Cytochro 28.9 1.6E+02 0.0035 25.0 5.6 42 208-249 40-81 (137)
132 COG3898 Uncharacterized membra 28.0 1.1E+02 0.0024 30.9 5.1 27 199-225 41-67 (531)
133 PF06570 DUF1129: Protein of u 27.9 3.3E+02 0.0072 23.9 7.8 10 222-231 195-204 (206)
134 PF03597 CcoS: Cytochrome oxid 27.6 97 0.0021 21.3 3.4 25 197-221 4-29 (45)
135 PF13894 zf-C2H2_4: C2H2-type 27.6 29 0.00062 18.9 0.7 11 124-134 2-12 (24)
136 PF06305 DUF1049: Protein of u 27.1 2E+02 0.0043 20.3 5.2 15 204-218 27-41 (68)
137 PF11947 DUF3464: Protein of u 26.8 1.7E+02 0.0036 25.3 5.5 18 199-216 104-121 (153)
138 TIGR00847 ccoS cytochrome oxid 26.8 1.1E+02 0.0023 21.7 3.6 23 196-218 4-26 (51)
139 COG3197 FixS Uncharacterized p 26.3 62 0.0013 23.7 2.3 26 197-222 5-31 (58)
140 COG2928 Uncharacterized conser 26.1 3.6E+02 0.0078 24.8 7.7 16 207-222 67-82 (222)
141 COG0598 CorA Mg2+ and Co2+ tra 25.5 1.6E+02 0.0035 27.6 5.7 25 190-214 292-316 (322)
142 PF12606 RELT: Tumour necrosis 25.2 74 0.0016 22.5 2.5 19 200-218 5-23 (50)
143 PRK00523 hypothetical protein; 25.2 1.6E+02 0.0036 22.4 4.5 30 197-226 3-32 (72)
144 PF03672 UPF0154: Uncharacteri 25.0 71 0.0015 23.8 2.5 13 205-217 7-19 (64)
145 PRK11677 hypothetical protein; 24.9 87 0.0019 26.4 3.3 13 206-218 11-23 (134)
146 PF02891 zf-MIZ: MIZ/SP-RING z 24.7 29 0.00062 24.1 0.3 30 102-131 19-50 (50)
147 KOG0956 PHD finger protein AF1 24.1 36 0.00078 36.2 1.0 57 77-133 116-182 (900)
148 TIGR00869 sec62 protein transl 23.9 2.6E+02 0.0056 25.8 6.4 31 208-240 163-193 (232)
149 PF13717 zinc_ribbon_4: zinc-r 23.8 39 0.00085 21.9 0.8 15 123-137 3-17 (36)
150 PRK05415 hypothetical protein; 23.3 6.5E+02 0.014 24.5 9.4 14 192-205 96-109 (341)
151 PRK09546 zntB zinc transporter 23.2 1.3E+02 0.0029 28.0 4.7 19 190-208 294-312 (324)
152 PLN02806 complex I subunit 23.1 3.7E+02 0.0079 20.9 7.2 74 167-246 7-81 (81)
153 PF04532 DUF587: Protein of un 22.9 43 0.00092 30.3 1.1 31 93-135 106-137 (215)
154 COG5336 Uncharacterized protei 22.8 2.2E+02 0.0048 23.5 5.1 8 207-214 83-90 (116)
155 COG4459 NapE Periplasmic nitra 22.7 1.2E+02 0.0027 22.2 3.3 10 201-210 31-40 (62)
156 KOG1952 Transcription factor N 22.7 89 0.0019 34.0 3.6 58 74-133 187-247 (950)
157 KOG4323 Polycomb-like PHD Zn-f 22.7 26 0.00057 35.3 -0.2 52 79-133 169-226 (464)
158 PF00096 zf-C2H2: Zinc finger, 22.5 35 0.00076 19.0 0.4 11 124-134 2-12 (23)
159 PF13719 zinc_ribbon_5: zinc-r 21.6 47 0.001 21.6 0.9 14 123-136 3-16 (37)
160 PF15052 TMEM169: TMEM169 prot 21.6 2.9E+02 0.0063 23.3 5.7 40 201-240 69-108 (133)
161 TIGR00540 hemY_coli hemY prote 21.6 1.2E+02 0.0026 29.2 4.0 6 213-218 60-65 (409)
162 PHA03231 glycoprotein BALF4; P 21.5 3.1E+02 0.0067 29.9 7.3 18 181-198 691-708 (829)
163 COG4420 Predicted membrane pro 21.2 3.3E+02 0.0072 24.5 6.4 17 227-243 125-141 (191)
164 PRK14475 F0F1 ATP synthase sub 21.0 1.9E+02 0.0041 24.5 4.8 34 196-229 12-45 (167)
165 PF12072 DUF3552: Domain of un 21.0 1.1E+02 0.0025 26.9 3.5 21 198-218 3-23 (201)
166 KOG1428 Inhibitor of type V ad 21.0 89 0.0019 36.6 3.2 57 75-133 3483-3544(3738)
167 COG4575 ElaB Uncharacterized c 20.7 97 0.0021 25.2 2.7 23 190-216 80-102 (104)
168 COG3952 Predicted membrane pro 20.6 4.3E+02 0.0092 21.8 6.3 43 188-233 52-103 (113)
169 PF06298 PsbY: Photosystem II 20.4 2.6E+02 0.0056 18.6 4.1 25 162-186 7-31 (36)
170 COG3630 OadG Na+-transporting 20.2 4E+02 0.0086 20.9 5.9 20 199-218 13-32 (84)
171 PF09607 BrkDBD: Brinker DNA-b 20.2 46 0.00099 24.3 0.6 22 97-118 23-50 (58)
172 COG3105 Uncharacterized protei 20.2 1.8E+02 0.0038 24.8 4.2 22 197-219 8-29 (138)
173 PRK13240 pbsY photosystem II p 20.2 2.7E+02 0.0058 18.9 4.3 24 162-185 7-30 (40)
174 PF06638 Strabismus: Strabismu 20.2 2.9E+02 0.0063 28.4 6.5 23 158-180 163-186 (505)
No 1
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.94 E-value=1.4e-28 Score=222.18 Aligned_cols=164 Identities=26% Similarity=0.529 Sum_probs=119.7
Q ss_pred CCCCCceEEeccCCCC----ccccccccCCcCcccchhHHHHHHHhcCC---CcccccccCCceeeeeeecCCCchhhhc
Q 041664 75 NDDQPQCRICLDIGGE----DLIAPCHCRGTQKYVHRSCLDHWRSTKEG---FAFAHCTECRAMFILRTNCPPDRWWLRL 147 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~----~li~PC~CkGs~k~VH~~CL~~Wi~~s~~---~~~~~Ce~Ck~~y~~~~~~~p~~~w~~l 147 (268)
...++.||||+.+++| .|++||+|+||.||||++||.+|+++|+. .++..|++|+++|.+.. |..+|...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~---P~l~~~~~ 93 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVF---PQLGPFDR 93 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeec---cccChHHH
Confidence 3468999999998654 49999999999999999999999999853 47899999999999863 44444432
Q ss_pred cceeeeeccchhhHHHHHH-HHHHHHHHHHH---hhhH-HHHHHhccCC------chhHHHHHHHHHHHHHHHHHHHHHH
Q 041664 148 KFQFLVARDHTFIFVIVQL-IVALLGVLVYK---FYGE-ELREIFGYEE------HPYAFYIMAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 148 ~~~~lv~r~~~~if~~v~~-vv~~ig~~vy~---~yg~-elr~~~G~~~------~p~~f~~l~vL~ii~vgLll~~~i~ 216 (268)
-. .+.+..++-+..+ +.+++.+.+|| .||+ ++.|+.|++. ..++.+++++||.|||||++|+||+
T Consensus 94 ~L----e~~d~~i~r~cp~l~~g~~v~~iYWsAVtyGA~T~lQv~G~~~~m~ime~~d~~~lliGlP~ipv~LiL~Rlir 169 (293)
T KOG3053|consen 94 VL----ERLDILIFRLCPFLAAGIFVGSIYWSAVTYGAVTVLQVVGQEHGMQIMESGDPLFLLIGLPSIPVGLILGRLIR 169 (293)
T ss_pred HH----HHhhhHHhhcChHHHHHHHhheeehhhhhhcceeeeehhhhHHHHHHHhcCCceEEEEcCCcchHHHHHhhhee
Confidence 22 2333445544443 34566666666 5666 7777778752 1123467899999999999999999
Q ss_pred HH-HhhhhhhhhhHHHh----Hhhccccceeecc
Q 041664 217 II-CGQRIHERHYHVLA----KQELTKEYVVEDR 245 (268)
Q Consensus 217 ~~-~~~r~~~r~y~~l~----k~~l~~e~~~~d~ 245 (268)
|. +++|.++|.|-+++ --++.+||-+.+.
T Consensus 170 WeD~vLRl~R~~~s~ir~sl~~~~l~re~~~~~~ 203 (293)
T KOG3053|consen 170 WEDAVLRLIRRKYSIIRVSLDDYELGREYPASLP 203 (293)
T ss_pred HHHHHHHHHHHhccccccccccccccccCCCCCC
Confidence 99 99999998887775 2344555555443
No 2
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.84 E-value=2.2e-21 Score=165.01 Aligned_cols=96 Identities=24% Similarity=0.451 Sum_probs=73.9
Q ss_pred CCCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeeeecCCCchhhhccceeee
Q 041664 74 VNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRTNCPPDRWWLRLKFQFLV 153 (268)
Q Consensus 74 ~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~~~~p~~~w~~l~~~~lv 153 (268)
++..++.||||+++++ ++.+||+|+|+.+|||++||++|++.++ ...||+|+++|.++...+|.++|.-.+..-
T Consensus 4 ~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~---~~~CeiC~~~Y~i~~~~kpl~~W~~~~~dc-- 77 (162)
T PHA02825 4 VSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSK---NKSCKICNGPYNIKKNYKKCTKWRCSFRDC-- 77 (162)
T ss_pred cCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCC---CCcccccCCeEEEEEecCCCccccccCcch--
Confidence 4567899999998754 6789999999999999999999999987 489999999999999999999997554431
Q ss_pred eccchhhHHHHHHHHHHHHHHHH
Q 041664 154 ARDHTFIFVIVQLIVALLGVLVY 176 (268)
Q Consensus 154 ~r~~~~if~~v~~vv~~ig~~vy 176 (268)
.+..+++..+.++++.++.++-
T Consensus 78 -~~~~l~~~llcl~~~~i~~~l~ 99 (162)
T PHA02825 78 -HDSAIVNSLLCLIVGGITYLLV 99 (162)
T ss_pred -hhHHHHHHHHHHHHhhhhheee
Confidence 2234444444444555544433
No 3
>PHA02862 5L protein; Provisional
Probab=99.83 E-value=5.2e-21 Score=160.41 Aligned_cols=64 Identities=23% Similarity=0.563 Sum_probs=58.4
Q ss_pred CCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeeeecCCCchhh
Q 041664 78 QPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRTNCPPDRWWL 145 (268)
Q Consensus 78 ~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~~~~p~~~w~ 145 (268)
.++||||+++++++ ++||+|+|+.||||++||++|++.++ ...||+|+++|.++.+.+|.++|.
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~---k~~CeLCkteY~Ik~~yKpf~kW~ 65 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK---KKECNLCKTKYNIKKTYVSFKKWN 65 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC---CcCccCCCCeEEEEEccccHHHhh
Confidence 46899999986544 79999999999999999999998887 589999999999999999999996
No 4
>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=99.61 E-value=2.4e-16 Score=110.49 Aligned_cols=47 Identities=43% Similarity=1.145 Sum_probs=41.9
Q ss_pred ceEEeccC--CCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCC
Q 041664 80 QCRICLDI--GGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECR 129 (268)
Q Consensus 80 ~CRIC~~~--~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck 129 (268)
+||||++. ++++++.||+|+|+++|||++||++|+..+++ ..||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~---~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGN---KTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCC---CcCCCCC
Confidence 59999983 35679999999999999999999999999873 6999996
No 5
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.56 E-value=5.8e-16 Score=107.64 Aligned_cols=45 Identities=51% Similarity=1.178 Sum_probs=35.8
Q ss_pred eEEeccCCC--CccccccccCCcCcccchhHHHHHHHhcCCCcccccccC
Q 041664 81 CRICLDIGG--EDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 81 CRIC~~~~~--~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
||||+++++ ++|++||+|+|+++|||++||++|+..++ ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~---~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG---NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT----SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC---CCcCCCC
Confidence 899999854 36999999999999999999999999876 3789998
No 6
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.55 E-value=4e-15 Score=151.08 Aligned_cols=74 Identities=31% Similarity=0.713 Sum_probs=61.5
Q ss_pred CCCCCceEEeccCC--CCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeeeecCCCchhhhccceee
Q 041664 75 NDDQPQCRICLDIG--GEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRTNCPPDRWWLRLKFQFL 152 (268)
Q Consensus 75 ~~~~~~CRIC~~~~--~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~~~~p~~~w~~l~~~~l 152 (268)
+.+.+.||||+.++ +++|.+||+|+||.||+|++||..|...++ +.+|++|||+|+++...++.. .+..+++.+
T Consensus 9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~---~~kCdiChy~~~Fk~IY~e~m-P~~IPfsiL 84 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG---TKKCDICHYEYKFKDIYKEDM-PQIIPFSIL 84 (1175)
T ss_pred CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC---CcceeeecceeeeeeecccCC-Ccccceehh
Confidence 34568999999884 678999999999999999999999999877 589999999999987655543 455666643
No 7
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.39 E-value=1.4e-13 Score=126.23 Aligned_cols=80 Identities=35% Similarity=0.681 Sum_probs=61.9
Q ss_pred ccccccccccCCCCCCceEEeccCCC--C--ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeee-ec
Q 041664 64 NLHVDETSYLVNDDQPQCRICLDIGG--E--DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT-NC 138 (268)
Q Consensus 64 ~~~~~~~~~~~~~~~~~CRIC~~~~~--~--~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~-~~ 138 (268)
...+++.....+.+++.||||+++.+ + +++.||.|+|+.++||++|+++|+..++ ...||+|++.|.... ..
T Consensus 64 ~~~~~~~~~~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~---~~~CeiC~~~~~~~~~~~ 140 (323)
T KOG1609|consen 64 ELSAEESLEESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG---NITCEICKSFFINVGTKL 140 (323)
T ss_pred CCCCCCccccCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc---Ceeeecccccceecceee
Confidence 33444444455666899999998743 2 6899999999999999999999999888 489999999999873 44
Q ss_pred CCCchhhh
Q 041664 139 PPDRWWLR 146 (268)
Q Consensus 139 ~p~~~w~~ 146 (268)
++...|..
T Consensus 141 ~~~~~~~~ 148 (323)
T KOG1609|consen 141 KPLIVISK 148 (323)
T ss_pred cceeehhh
Confidence 44444443
No 8
>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=97.33 E-value=5.9e-05 Score=50.79 Aligned_cols=41 Identities=39% Similarity=0.949 Sum_probs=29.7
Q ss_pred CceEEeccCC--CC-ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCC
Q 041664 79 PQCRICLDIG--GE-DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECR 129 (268)
Q Consensus 79 ~~CRIC~~~~--~~-~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck 129 (268)
+.|-||+++- ++ ....|| .+.+|.+|+.+|++.+. .||+|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C-----~H~fh~~Ci~~~~~~~~-----~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPC-----GHVFHRSCIKEWLKRNN-----SCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETT-----SEEEEHHHHHHHHHHSS-----B-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccC-----CCeeCHHHHHHHHHhCC-----cCCccC
Confidence 3688999872 22 344554 48999999999998853 999995
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=0.0005 Score=62.43 Aligned_cols=56 Identities=25% Similarity=0.611 Sum_probs=47.8
Q ss_pred CCCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeee
Q 041664 74 VNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT 136 (268)
Q Consensus 74 ~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~ 136 (268)
.+...-.|-||++...|+.+++|. +..--.||.||+..+.+ ...|++||.+-...+
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCG-----HLFCWpClyqWl~~~~~--~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCG-----HLFCWPCLYQWLQTRPN--SKECPVCKAEVSIDT 98 (230)
T ss_pred CCCCceeeeeeccccCCCEEeecc-----cceehHHHHHHHhhcCC--CeeCCccccccccce
Confidence 456678999999999999999995 78888999999998764 578999999987654
No 10
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.92 E-value=0.00062 Score=62.32 Aligned_cols=50 Identities=26% Similarity=0.749 Sum_probs=37.8
Q ss_pred CCCCceEEeccCC-CC-------ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 76 DDQPQCRICLDIG-GE-------DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 76 ~~~~~CRIC~~~~-~~-------~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
..+..|-||++.- +. ..+.|| .+.+|..|+.+|+..+ ..||+|+.+|...
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C-----~H~FC~~CI~~Wl~~~-----~tCPlCR~~~~~v 229 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNC-----NHVFCIECIDIWKKEK-----NTCPVCRTPFISV 229 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCC-----CCcccHHHHHHHHhcC-----CCCCCCCCEeeEE
Confidence 3468999999862 21 134556 4899999999999764 4899999998753
No 11
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.77 E-value=0.00079 Score=64.66 Aligned_cols=46 Identities=33% Similarity=0.853 Sum_probs=37.6
Q ss_pred CceEEeccC--CCCcc-ccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 79 PQCRICLDI--GGEDL-IAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 79 ~~CRIC~~~--~~~~l-i~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
..|-||+++ +++.+ +-||+ +..|..|.+.|+...+ ..||+||..-.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~r----~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQTR----TFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhcC----ccCCCCCCcCC
Confidence 499999997 34554 68985 8999999999998875 67999999544
No 12
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.51 E-value=0.0024 Score=56.78 Aligned_cols=54 Identities=19% Similarity=0.502 Sum_probs=42.2
Q ss_pred CCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcC-----------CCcccccccCCceeee
Q 041664 76 DDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKE-----------GFAFAHCTECRAMFIL 134 (268)
Q Consensus 76 ~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~-----------~~~~~~Ce~Ck~~y~~ 134 (268)
.+.-.|-||++.-.++.+.+| .+..+..|+.+|+..+. ......|++|+.++..
T Consensus 16 ~~~~~CpICld~~~dPVvT~C-----GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVTLC-----GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCcEEcCC-----CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 356789999998778888887 48899999999986432 1134689999999754
No 13
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0027 Score=61.55 Aligned_cols=52 Identities=29% Similarity=0.729 Sum_probs=40.4
Q ss_pred CCCCCceEEeccC----CCCc---------cccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeee
Q 041664 75 NDDQPQCRICLDI----GGED---------LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT 136 (268)
Q Consensus 75 ~~~~~~CRIC~~~----~~~~---------li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~ 136 (268)
.++...|-||.++ +.++ ---||. +..|-+||+.|...++ .||+|+.+-.+..
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERqQ-----TCPICr~p~ifd~ 348 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQQ-----TCPICRRPVIFDQ 348 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhcc-----CCCcccCcccccc
Confidence 5678999999987 1222 245774 7899999999998876 9999999966544
No 14
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.34 E-value=0.0013 Score=49.10 Aligned_cols=55 Identities=25% Similarity=0.572 Sum_probs=27.1
Q ss_pred CCceEEeccCC--CC-c--cc-cccccCCcCcccchhHHHHHHHhcCC----C--cccccccCCceeeee
Q 041664 78 QPQCRICLDIG--GE-D--LI-APCHCRGTQKYVHRSCLDHWRSTKEG----F--AFAHCTECRAMFILR 135 (268)
Q Consensus 78 ~~~CRIC~~~~--~~-~--li-~PC~CkGs~k~VH~~CL~~Wi~~s~~----~--~~~~Ce~Ck~~y~~~ 135 (268)
+..|.||+... ++ . .+ ...+| .+..|..||.+|+....+ + -.-.||.|+.+....
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C---~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSC---GKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCccc---CCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 45799999863 22 1 22 33567 579999999999976422 1 134799999998754
No 15
>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=96.28 E-value=0.0016 Score=44.96 Aligned_cols=46 Identities=22% Similarity=0.603 Sum_probs=36.6
Q ss_pred CCceEEeccCCCCccccccccCCcCcc-cchhHHHHHHHhcCCCcccccccCCceee
Q 041664 78 QPQCRICLDIGGEDLIAPCHCRGTQKY-VHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 78 ~~~CRIC~~~~~~~li~PC~CkGs~k~-VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
...|.||++...+..+.||+ +. +...|+.+|++.+ ..|++|+.++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCg-----H~~~C~~C~~~~~~~~-----~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCG-----HLCFCEECAERLLKRK-----KKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTC-----EEEEEHHHHHHHHHTT-----SBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCC-----ChHHHHHHhHHhcccC-----CCCCcCChhhc
Confidence 46799999987778889995 56 8999999999943 69999998864
No 16
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.11 E-value=0.0049 Score=48.15 Aligned_cols=53 Identities=25% Similarity=0.542 Sum_probs=37.7
Q ss_pred CCceEEeccCCC----------Cc-cccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 78 QPQCRICLDIGG----------ED-LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 78 ~~~CRIC~~~~~----------~~-li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
+..|-||+..-+ ++ -+-=+.| .+.+|..|+.+|+++... ...||.|+.+|+++
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C---~H~FH~hCI~kWl~~~~~--~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKC---SHNFHMHCILKWLSTQSS--KGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccC---ccHHHHHHHHHHHccccC--CCCCCCcCCeeeeC
Confidence 677888876411 11 1223456 589999999999987532 36999999999874
No 17
>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=95.97 E-value=0.0057 Score=39.40 Aligned_cols=43 Identities=35% Similarity=0.826 Sum_probs=31.7
Q ss_pred ceEEeccCCCCc-cccccccCCcCcccchhHHHHHHHhcCCCcccccccCCce
Q 041664 80 QCRICLDIGGED-LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAM 131 (268)
Q Consensus 80 ~CRIC~~~~~~~-li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~ 131 (268)
.|-||++.-.++ .+.|| .+.+|..|+..|++.. ...|++|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C-----~H~~c~~C~~~~~~~~----~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPC-----GHVFCRSCIDKWLKSG----KNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCC-----CChhcHHHHHHHHHhC----cCCCCCCCCc
Confidence 478998765444 34556 3679999999999873 2689999875
No 18
>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=95.97 E-value=0.0042 Score=46.66 Aligned_cols=42 Identities=26% Similarity=0.802 Sum_probs=29.6
Q ss_pred CCceEEeccCCC----------Cc---cccccccCCcCcccchhHHHHHHHhcCCCcccccccCC
Q 041664 78 QPQCRICLDIGG----------ED---LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECR 129 (268)
Q Consensus 78 ~~~CRIC~~~~~----------~~---li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck 129 (268)
++.|-||++.-. ++ ...+| .+..|..||.+|++.+. .||+|+
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C-----~H~FH~~Ci~~Wl~~~~-----~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPC-----GHIFHFHCISQWLKQNN-----TCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETT-----SEEEEHHHHHHHHTTSS-----B-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEeccc-----CCCEEHHHHHHHHhcCC-----cCCCCC
Confidence 456999987521 11 23455 58999999999997754 999996
No 19
>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=95.63 E-value=0.0092 Score=36.98 Aligned_cols=39 Identities=31% Similarity=0.822 Sum_probs=30.0
Q ss_pred eEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccC
Q 041664 81 CRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 81 CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
|.||++...+..+.||. +.+|..|+..|++.. ...|++|
T Consensus 1 C~iC~~~~~~~~~~~C~-----H~~c~~C~~~~~~~~----~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCG-----HTFCRSCIRKWLKSG----NNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCC-----ChHHHHHHHHHHHhC----cCCCCCC
Confidence 67898876666778874 578999999999832 2578887
No 20
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.012 Score=55.86 Aligned_cols=48 Identities=27% Similarity=0.749 Sum_probs=37.3
Q ss_pred CCCCceEEeccC--CCCc-cccccccCCcCcccchhHHHHHHHhcCCCcccccccCCcee
Q 041664 76 DDQPQCRICLDI--GGED-LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMF 132 (268)
Q Consensus 76 ~~~~~CRIC~~~--~~~~-li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y 132 (268)
..+-.|-||.+. .++. .+.||+ +-.|..|+++|+.--. ..|++|+++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y~----~~CPvCrt~i 371 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGYS----NKCPVCRTAI 371 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhhc----ccCCccCCCC
Confidence 346899999886 2344 579995 7899999999997432 4999999874
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.13 E-value=0.011 Score=59.59 Aligned_cols=47 Identities=30% Similarity=0.723 Sum_probs=38.4
Q ss_pred CCCceEEeccCCCC-----ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 77 DQPQCRICLDIGGE-----DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 77 ~~~~CRIC~~~~~~-----~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
....|.||.++-.. +-..|| .+..|..||..|+..++ .|++|+..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C-----~Hifh~~CL~~W~er~q-----tCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPC-----GHIFHDSCLRSWFERQQ-----TCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccceeec-----ccchHHHHHHHHHHHhC-----cCCcchhhhh
Confidence 47899999997432 567788 58999999999999865 9999999443
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=94.94 E-value=0.016 Score=38.01 Aligned_cols=40 Identities=30% Similarity=0.803 Sum_probs=32.4
Q ss_pred eEEeccCCCCcc-ccccccCCcCcccchhHHHHHHHhcCCCcccccccC
Q 041664 81 CRICLDIGGEDL-IAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 81 CRIC~~~~~~~l-i~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
|.||++.-.++. +.|| .+.++..|+.+|++.++ ...|++|
T Consensus 1 C~iC~~~~~~~~~~~~C-----~H~fC~~C~~~~~~~~~---~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPC-----GHSFCRDCLRKWLENSG---SVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTT-----SEEEEHHHHHHHHHHTS---SSBTTTT
T ss_pred CCcCCccccCCCEEecC-----CCcchHHHHHHHHHhcC---CccCCcC
Confidence 678988766665 8998 48899999999999644 4789988
No 23
>PHA02926 zinc finger-like protein; Provisional
Probab=94.86 E-value=0.029 Score=51.15 Aligned_cols=55 Identities=24% Similarity=0.632 Sum_probs=41.4
Q ss_pred CCCCceEEeccCC------CC---ccccccccCCcCcccchhHHHHHHHhcC-CCcccccccCCceeeee
Q 041664 76 DDQPQCRICLDIG------GE---DLIAPCHCRGTQKYVHRSCLDHWRSTKE-GFAFAHCTECRAMFILR 135 (268)
Q Consensus 76 ~~~~~CRIC~~~~------~~---~li~PC~CkGs~k~VH~~CL~~Wi~~s~-~~~~~~Ce~Ck~~y~~~ 135 (268)
+.+..|-||++.- ++ .++.+| .+.....|+.+|.+.+. ......||+|+..|...
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~C-----nHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSC-----NHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCC-----CchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 4578999999851 11 356777 47899999999998753 22357899999999854
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.033 Score=52.32 Aligned_cols=51 Identities=27% Similarity=0.680 Sum_probs=43.9
Q ss_pred cCCCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 73 LVNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 73 ~~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
..+...+.|-+|++.-.++--+||. +..--+|+..|..++. .||+|+..++
T Consensus 234 ~i~~a~~kC~LCLe~~~~pSaTpCG-----HiFCWsCI~~w~~ek~-----eCPlCR~~~~ 284 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENRSNPSATPCG-----HIFCWSCILEWCSEKA-----ECPLCREKFQ 284 (293)
T ss_pred cCCCCCCceEEEecCCCCCCcCcCc-----chHHHHHHHHHHcccc-----CCCcccccCC
Confidence 3455678999999988888899995 7888999999999976 6999999886
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.01 E-value=0.019 Score=44.18 Aligned_cols=51 Identities=25% Similarity=0.595 Sum_probs=38.4
Q ss_pred CceEEeccCC----------CC--ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 79 PQCRICLDIG----------GE--DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 79 ~~CRIC~~~~----------~~--~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
..|-||+..- ++ +|+-. .| .+.+|..|+.+|+..+.+ ...|+.|+.+|++.
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C---~h~fh~hCI~~wl~~~ts--q~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWG-YC---LHAFHAHCILKWLNTPTS--QGQCPMCRQTWQFK 83 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHH-HH---HHHHHHHHHHHHhcCccc--cccCCcchheeEec
Confidence 3888887641 12 45544 56 578999999999988754 47999999999874
No 26
>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=93.99 E-value=0.027 Score=36.89 Aligned_cols=38 Identities=26% Similarity=0.837 Sum_probs=29.4
Q ss_pred eEEeccCCCCc-cccccccCCcCcccchhHHHHHHHhcCCCcccccccC
Q 041664 81 CRICLDIGGED-LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 81 CRIC~~~~~~~-li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
|-||++.-.++ .+.|| .+.+...|+.+|++. + ..|++|
T Consensus 1 C~iC~~~~~~~~~~~~C-----GH~fC~~C~~~~~~~-~----~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPC-----GHSFCKECIEKYLEK-N----PKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTT-----SEEEEHHHHHHHHHC-T----SB-TTT
T ss_pred CCCCCCcccCcCEECCC-----CCchhHHHHHHHHHC-c----CCCcCC
Confidence 67898876677 57887 478999999999988 4 589887
No 27
>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=93.42 E-value=0.066 Score=37.84 Aligned_cols=46 Identities=15% Similarity=0.290 Sum_probs=37.4
Q ss_pred CceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 79 PQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 79 ~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
-.|.||.+.-.++.+.||. +-+-+.|+.+|++. + ..|++|+.++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G-----~v~~~~~i~~~~~~-~----~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSG-----QTYERRAIEKWLLS-H----GTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCC-----CEEeHHHHHHHHHH-C----CCCCCCcCCCCh
Confidence 3689998876778888873 78899999999987 3 489999988743
No 28
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=93.25 E-value=0.51 Score=38.25 Aligned_cols=80 Identities=28% Similarity=0.417 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHhhhHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhh-------hhhhhhhHHHhHhhcccc
Q 041664 167 IVALLGVLVYKFYGEELREIFGYEEHPYAFYIMAVLAIILVGVLYGFFIAIICGQ-------RIHERHYHVLAKQELTKE 239 (268)
Q Consensus 167 vv~~ig~~vy~~yg~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~~~~-------r~~~r~y~~l~k~~l~~e 239 (268)
.+.++|.+.|..+ +.+|++.--..+|.-++|.++++|-+.+++++..-+. |.++..|--++..++.|.
T Consensus 12 gv~~~Gg~~Y~~l-----~~~G~d~~~AGi~sq~~lv~glvgW~~sYlfRV~t~~MTy~~Q~k~Ye~a~~~~~~~~lqkR 86 (104)
T PF11460_consen 12 GVFLLGGLLYGGL-----QAAGLDSLSAGIWSQALLVLGLVGWVSSYLFRVVTGKMTYMQQRKDYEEAVDQLTNEELQKR 86 (104)
T ss_pred HHHHHHHHHHHHH-----HHcCCCchhhhHHHHHHHHHHHHHHHhHHHhhhccCCCcHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4455666667643 5678766545677777777777888888888776553 333444444455555553
Q ss_pred ceeecccCCCCCCCCChhHHHHH
Q 041664 240 YVVEDREKNKDIPELDPSHVSEL 262 (268)
Q Consensus 240 ~~~~d~~~~~~~p~~~~~~~~~~ 262 (268)
. -.|+||..+.|
T Consensus 87 l-----------e~l~~eE~~~L 98 (104)
T PF11460_consen 87 L-----------EELSPEELEAL 98 (104)
T ss_pred H-----------HhCCHHHHHHH
Confidence 3 34888887766
No 29
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.45 E-value=0.04 Score=58.94 Aligned_cols=53 Identities=25% Similarity=0.724 Sum_probs=37.8
Q ss_pred CCCCceEEeccCC---CCcc-cccc-ccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 76 DDQPQCRICLDIG---GEDL-IAPC-HCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 76 ~~~~~CRIC~~~~---~~~l-i~PC-~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
.....|.||+.-- +..+ -..| .|| .-.|.+||-+|++++++ ..||+|+.++.+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCk---nKFH~~CLyKWf~Ss~~---s~CPlCRseitf 1524 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCK---NKFHTRCLYKWFASSAR---SNCPLCRSEITF 1524 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhh---hhhhHHHHHHHHHhcCC---CCCCcccccccc
Confidence 3468899999751 1112 1223 243 57899999999999984 899999988764
No 30
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.37 E-value=0.15 Score=50.08 Aligned_cols=49 Identities=24% Similarity=0.496 Sum_probs=40.4
Q ss_pred CCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 76 DDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 76 ~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
.....|.||++.-.++.+.|| .+.+...|+..|+... ..|++|+..+..
T Consensus 24 e~~l~C~IC~d~~~~PvitpC-----gH~FCs~CI~~~l~~~-----~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPVLTSC-----SHTFCSLCIRRCLSNQ-----PKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCccCCCC-----CCchhHHHHHHHHhCC-----CCCCCCCCcccc
Confidence 456799999987677888888 4788999999999763 489999999864
No 31
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=91.13 E-value=0.16 Score=39.50 Aligned_cols=29 Identities=28% Similarity=0.596 Sum_probs=26.2
Q ss_pred CcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 102 QKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 102 ~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
.+.+|..|+.+|+++++ .||+++.+|++.
T Consensus 55 nHaFH~HCI~rWL~Tk~-----~CPld~q~w~~~ 83 (88)
T COG5194 55 NHAFHDHCIYRWLDTKG-----VCPLDRQTWVLA 83 (88)
T ss_pred chHHHHHHHHHHHhhCC-----CCCCCCceeEEe
Confidence 47899999999999976 899999999875
No 32
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.05 E-value=0.15 Score=49.87 Aligned_cols=45 Identities=27% Similarity=0.730 Sum_probs=32.5
Q ss_pred CCceEEeccCCC-C-c--cccccccCCcCcccchhHHHHHHHhcCCCcccccccCC
Q 041664 78 QPQCRICLDIGG-E-D--LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECR 129 (268)
Q Consensus 78 ~~~CRIC~~~~~-~-~--li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck 129 (268)
...|.||-+.-. + + -|+-| -+.+|..||.+|+..... ++.||+|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~c-----Ghifh~~cl~qwfe~~Ps--~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTC-----GHIFHTTCLTQWFEGDPS--NRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccch-----hhHHHHHHHHHHHccCCc--cCCCCcee
Confidence 357999955422 2 2 35555 478999999999987542 37999999
No 33
>PF15050 SCIMP: SCIMP protein
Probab=90.48 E-value=0.33 Score=40.39 Aligned_cols=62 Identities=26% Similarity=0.555 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhh-hhhhHH---Hh--HhhccccceeecccCCCCCCCCChh
Q 041664 196 FYIMAVLAIILVGVLYGFFIAIICGQRIH-ERHYHV---LA--KQELTKEYVVEDREKNKDIPELDPS 257 (268)
Q Consensus 196 f~~l~vL~ii~vgLll~~~i~~~~~~r~~-~r~y~~---l~--k~~l~~e~~~~d~~~~~~~p~~~~~ 257 (268)
||+++.++||+|++.+|+.++.+|...+. .+.+.| ++ .|+-.|-|.-.-..-....|+|+|.
T Consensus 8 FWiiLAVaII~vS~~lglIlyCvcR~~lRqGkkweiakp~k~~~rdeEkmYENv~n~~~~~LPpLPPR 75 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLILYCVCRWQLRQGKKWEIAKPLKQKQRDEEKMYENVLNQSPVQLPPLPPR 75 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccceeccchhhhcccHHHHHHHhhcCCcCCCCCCCCC
Confidence 78988889999999999888777664332 233333 22 2344444432222234467778774
No 34
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.02 E-value=0.2 Score=50.45 Aligned_cols=48 Identities=33% Similarity=0.839 Sum_probs=35.5
Q ss_pred CCCCceEEeccC-C----CC------------ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCcee
Q 041664 76 DDQPQCRICLDI-G----GE------------DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMF 132 (268)
Q Consensus 76 ~~~~~CRIC~~~-~----~~------------~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y 132 (268)
.....|-||... + +. =+++||+ +..|.+||++|.+.-. ..|+.|+.+.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~yk----l~CPvCR~pL 633 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTYK----LICPVCRCPL 633 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhhc----ccCCccCCCC
Confidence 356789999864 1 11 1456995 7999999999998543 6899998753
No 35
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=88.93 E-value=0.3 Score=39.68 Aligned_cols=30 Identities=17% Similarity=0.522 Sum_probs=26.4
Q ss_pred CcccchhHHHHHHHhcCCCcccccccCCceeeeee
Q 041664 102 QKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT 136 (268)
Q Consensus 102 ~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~ 136 (268)
.+.+|..|+.+|++.++ .||+|..++.+..
T Consensus 82 NHaFH~hCisrWlktr~-----vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 82 NHAFHFHCISRWLKTRN-----VCPLDNKEWVFQR 111 (114)
T ss_pred chHHHHHHHHHHHhhcC-----cCCCcCcceeEee
Confidence 57899999999999976 9999999988753
No 36
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=88.67 E-value=0.16 Score=49.98 Aligned_cols=47 Identities=32% Similarity=0.790 Sum_probs=39.7
Q ss_pred CceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 79 PQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 79 ~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
..|.||-+.+.+.-|-||. +..-.+||-.|..++++ ..|+.|+.+.+
T Consensus 370 eLCKICaendKdvkIEPCG-----HLlCt~CLa~WQ~sd~g---q~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCG-----HLLCTSCLAAWQDSDEG---QTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhccCCCccccccc-----chHHHHHHHhhcccCCC---CCCCceeeEec
Confidence 6899998887788899995 67788999999988753 68999998875
No 37
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.10 E-value=0.62 Score=45.01 Aligned_cols=51 Identities=22% Similarity=0.541 Sum_probs=36.9
Q ss_pred CCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 75 NDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
+++++.|=||+++..+-++.||+= -..-..|.+.-+-. +..|++|+.++.-
T Consensus 287 ~~~gkeCVIClse~rdt~vLPCRH----LCLCs~Ca~~Lr~q-----~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 287 SESGKECVICLSESRDTVVLPCRH----LCLCSGCAKSLRYQ-----TNNCPICRQPIEE 337 (349)
T ss_pred ccCCCeeEEEecCCcceEEecchh----hehhHhHHHHHHHh-----hcCCCccccchHh
Confidence 356899999999877778888761 23445788776633 3589999998753
No 38
>PLN02189 cellulose synthase
Probab=85.90 E-value=0.48 Score=51.49 Aligned_cols=52 Identities=31% Similarity=0.616 Sum_probs=38.2
Q ss_pred CCCCCceEEeccC----CCCccccccc-cCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 75 NDDQPQCRICLDI----GGEDLIAPCH-CRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 75 ~~~~~~CRIC~~~----~~~~li~PC~-CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
.....+|+||-+. .+.++.-.|+ | .--|-+.|.+.=+++- +..|++||++|.
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C---~fpvCr~Cyeyer~eg----~q~CpqCkt~Y~ 87 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNEC---GFPVCRPCYEYERREG----TQNCPQCKTRYK 87 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccC---CCccccchhhhhhhcC----CccCcccCCchh
Confidence 3456799999886 2344667787 7 3558889997555443 379999999998
No 39
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=82.41 E-value=0.68 Score=31.07 Aligned_cols=42 Identities=36% Similarity=0.739 Sum_probs=28.7
Q ss_pred eEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccC
Q 041664 81 CRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 81 CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
|-||++--.++...+|. +-+=++||.+|.+..++. ...|++|
T Consensus 1 CpiC~~~~~~Pv~l~CG-----H~FC~~Cl~~~~~~~~~~-~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCG-----HSFCRSCLERLWKEPSGS-GFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSS-----SEEEHHHHHHHHCCSSSS-T---SSS
T ss_pred CCccchhhCCccccCCc-----CHHHHHHHHHHHHccCCc-CCCCcCC
Confidence 66888877788888884 678899999999776531 2689987
No 40
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.06 E-value=0.94 Score=48.07 Aligned_cols=27 Identities=22% Similarity=0.584 Sum_probs=23.6
Q ss_pred CcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 102 QKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 102 ~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
.+|+|..|+..|-+..+ .|++|+.+|-
T Consensus 145 ~H~FC~~Ci~sWsR~aq-----TCPiDR~EF~ 171 (1134)
T KOG0825|consen 145 AHYFCEECVGSWSRCAQ-----TCPVDRGEFG 171 (1134)
T ss_pred ccccHHHHhhhhhhhcc-----cCchhhhhhh
Confidence 35999999999988765 9999999995
No 41
>PLN02436 cellulose synthase A
Probab=81.96 E-value=1.1 Score=49.09 Aligned_cols=52 Identities=23% Similarity=0.521 Sum_probs=37.3
Q ss_pred CCCCCceEEeccC----CCCccccccc-cCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 75 NDDQPQCRICLDI----GGEDLIAPCH-CRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 75 ~~~~~~CRIC~~~----~~~~li~PC~-CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
.....+|+||-++ .+.++.-.|+ | .--|-+.|.+.=+++- ...|++||++|.
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C---~fpvCr~Cyeyer~eg----~~~Cpqckt~Y~ 89 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNEC---AFPVCRPCYEYERREG----NQACPQCKTRYK 89 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccC---CCccccchhhhhhhcC----CccCcccCCchh
Confidence 3456799999876 1234666676 6 3458889997555443 379999999998
No 42
>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=81.08 E-value=2 Score=41.78 Aligned_cols=40 Identities=25% Similarity=0.654 Sum_probs=30.3
Q ss_pred ccccccCCcCcccchhHHHHHHHhcCC--------CcccccccCCceeeee
Q 041664 93 IAPCHCRGTQKYVHRSCLDHWRSTKEG--------FAFAHCTECRAMFILR 135 (268)
Q Consensus 93 i~PC~CkGs~k~VH~~CL~~Wi~~s~~--------~~~~~Ce~Ck~~y~~~ 135 (268)
-.+|.|+- -=--+|+-+|+.++++ ..+..||.|++.|=+.
T Consensus 306 C~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 306 CQQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred Cccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 45788862 3356999999998863 1578999999999663
No 43
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=79.97 E-value=0.9 Score=45.29 Aligned_cols=47 Identities=30% Similarity=0.673 Sum_probs=32.8
Q ss_pred CCCCceEEeccCCCC--ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCcee
Q 041664 76 DDQPQCRICLDIGGE--DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMF 132 (268)
Q Consensus 76 ~~~~~CRIC~~~~~~--~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y 132 (268)
.+-++|-+|++--++ ..|.|=.| .+-.|-+||++|-. ..|++|++--
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c---~Hsfh~~cl~~w~~-------~scpvcR~~q 221 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILC---NHSFHCSCLMKWWD-------SSCPVCRYCQ 221 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeec---ccccchHHHhhccc-------CcChhhhhhc
Confidence 467999999975322 23444444 68999999999974 4677776644
No 44
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=78.79 E-value=1.9 Score=33.32 Aligned_cols=54 Identities=26% Similarity=0.593 Sum_probs=22.4
Q ss_pred CCCCCceEEeccC----CCCccccccc-cCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 75 NDDQPQCRICLDI----GGEDLIAPCH-CRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 75 ~~~~~~CRIC~~~----~~~~li~PC~-CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
..+..+|.||-+. ++.++.--|+ | .--|-+.|.+-=+++-. ..|++||++|...
T Consensus 6 ~~~~qiCqiCGD~VGl~~~Ge~FVAC~eC---~fPvCr~CyEYErkeg~----q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 6 NLNGQICQICGDDVGLTENGEVFVACHEC---AFPVCRPCYEYERKEGN----QVCPQCKTRYKRH 64 (80)
T ss_dssp --SS-B-SSS--B--B-SSSSB--S-SSS--------HHHHHHHHHTS-----SB-TTT--B----
T ss_pred hcCCcccccccCccccCCCCCEEEEEccc---CCccchhHHHHHhhcCc----ccccccCCCcccc
Confidence 3467899999875 1223333332 3 34688899987776644 7999999999854
No 45
>COG4237 HyfE Hydrogenase 4 membrane component (E) [Energy production and conversion]
Probab=76.89 E-value=16 Score=33.04 Aligned_cols=58 Identities=24% Similarity=0.508 Sum_probs=36.9
Q ss_pred HHHHHHhcc--CCchh---HHHHHHHHHHHH-HHHHHHHHHHHHHhhhhhhhhhHHHhHhhccc
Q 041664 181 EELREIFGY--EEHPY---AFYIMAVLAIIL-VGVLYGFFIAIICGQRIHERHYHVLAKQELTK 238 (268)
Q Consensus 181 ~elr~~~G~--~~~p~---~f~~l~vL~ii~-vgLll~~~i~~~~~~r~~~r~y~~l~k~~l~~ 238 (268)
.+++|++|| +++-. ++..+-..|.+. +|..+-.+.+.++..-..+|.++++.|-+.++
T Consensus 149 ~t~~q~~Gy~~~eNg~~l~a~lL~~~iP~lvE~gv~lDvLfaVIv~~ilt~~~~r~~g~ad~~~ 212 (218)
T COG4237 149 NTLRQIIGYCEEENGSHLFAALLLPRIPELVEIGVFLDVLFAVIVSSILTRKIWRTLGKADHNN 212 (218)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHhcCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcccch
Confidence 478899999 22322 222222234443 56666667777777777788888888887766
No 46
>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=76.36 E-value=3.4 Score=35.94 Aligned_cols=67 Identities=25% Similarity=0.538 Sum_probs=42.7
Q ss_pred CCCceEEeccCCCCcc----------ccccccCCcCcccchhHHHHHHHhcCC--------------------------C
Q 041664 77 DQPQCRICLDIGGEDL----------IAPCHCRGTQKYVHRSCLDHWRSTKEG--------------------------F 120 (268)
Q Consensus 77 ~~~~CRIC~~~~~~~l----------i~PC~CkGs~k~VH~~CL~~Wi~~s~~--------------------------~ 120 (268)
++..|-||.+-.-+.. -.|=-|. +.|-|..||+|..+.... .
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~--Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCD--TSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccC--CccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 3568999988654432 2333464 578899999999876421 0
Q ss_pred cccccccCCceeeeeeecCCCchhh
Q 041664 121 AFAHCTECRAMFILRTNCPPDRWWL 145 (268)
Q Consensus 121 ~~~~Ce~Ck~~y~~~~~~~p~~~w~ 145 (268)
....||+|+-+-.-=+.+.|.|..+
T Consensus 79 ~~L~CPLCRG~V~GWtvve~AR~~L 103 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTVVEPARRFL 103 (162)
T ss_pred ccccCccccCceeceEEchHHHHHh
Confidence 2568999998765444445555433
No 47
>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=76.18 E-value=1.2 Score=37.71 Aligned_cols=41 Identities=27% Similarity=0.536 Sum_probs=26.4
Q ss_pred CCCceEEeccC-CCCccccccccCCcC---cccchhHHHHHHHhc
Q 041664 77 DQPQCRICLDI-GGEDLIAPCHCRGTQ---KYVHRSCLDHWRSTK 117 (268)
Q Consensus 77 ~~~~CRIC~~~-~~~~li~PC~CkGs~---k~VH~~CL~~Wi~~s 117 (268)
-...|+||++. .++.-+-+=.|.|++ +..|.+|+++|.+..
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 46789999986 222322223334444 459999999996543
No 48
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=75.45 E-value=2 Score=28.74 Aligned_cols=40 Identities=25% Similarity=0.660 Sum_probs=30.4
Q ss_pred eEEeccCC---CCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCc
Q 041664 81 CRICLDIG---GEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRA 130 (268)
Q Consensus 81 CRIC~~~~---~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~ 130 (268)
|-||+..- ...++.+| .+.+.+.|+.++. .+ ...|++|+.
T Consensus 2 C~~C~~~~~~~~~~~l~~C-----gH~~C~~C~~~~~-~~----~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSC-----GHIFCEKCLKKLK-GK----SVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEccc-----CCHHHHHHHHhhc-CC----CCCCcCCCC
Confidence 67888763 23578998 4899999999988 22 479999974
No 49
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=73.43 E-value=1.6 Score=30.64 Aligned_cols=46 Identities=22% Similarity=0.555 Sum_probs=20.1
Q ss_pred eEEeccCC--CCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 81 CRICLDIG--GEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 81 CRIC~~~~--~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
|.+|-+.- .+.-+.||.|. ++-|+.=|.+...+ ....|+-|+.+|.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cg------f~IC~~C~~~i~~~-~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECG------FQICRFCYHDILEN-EGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----------HHHHHHHTTS-S-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCC------CcHHHHHHHHHHhc-cCCCCCCCCCCCC
Confidence 44565542 34468999994 35666667665431 1369999999984
No 50
>PLN02195 cellulose synthase A
Probab=71.98 E-value=3.2 Score=45.14 Aligned_cols=50 Identities=22% Similarity=0.472 Sum_probs=33.3
Q ss_pred CCCceEEeccC-----CCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 77 DQPQCRICLDI-----GGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 77 ~~~~CRIC~~~-----~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
+...|+||-+. ++++.+.-=.| .--|-+.|.+-=+++- +.+|++||++|+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC---~~pvCrpCyeyer~eg----~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHEC---SYPLCKACLEYEIKEG----RKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccC---CCccccchhhhhhhcC----CccCCccCCccc
Confidence 46799999875 12344322123 2457789997555443 379999999999
No 51
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=71.83 E-value=2.9 Score=45.91 Aligned_cols=51 Identities=27% Similarity=0.537 Sum_probs=33.7
Q ss_pred CCCCceEEeccC-----CCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 76 DDQPQCRICLDI-----GGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 76 ~~~~~CRIC~~~-----~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
.++.+|+||-++ +++.++.-=.| .--|-+.|.+-=+++- +..|++||++|+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC---~FPVCrpCYEYEr~eG----~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVC---AFPVCRPCYEYERKDG----NQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccC---CCccccchhhhhhhcC----CccCCccCCchh
Confidence 456799999876 12344322123 2347779987555443 379999999998
No 52
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=71.36 E-value=2.2 Score=43.65 Aligned_cols=59 Identities=17% Similarity=0.390 Sum_probs=46.1
Q ss_pred cCCCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeee
Q 041664 73 LVNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT 136 (268)
Q Consensus 73 ~~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~ 136 (268)
..+.++..|-+|++...+...+-|+ +-.-+.|+...+..-.......||.|.....+..
T Consensus 531 ~enk~~~~C~lc~d~aed~i~s~Ch-----H~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAEDYIESSCH-----HKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ccccCceeecccCChhhhhHhhhhh-----HHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 4456789999999987888888886 4567799999987643333499999999888754
No 53
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=70.86 E-value=2.1 Score=40.96 Aligned_cols=55 Identities=27% Similarity=0.507 Sum_probs=37.4
Q ss_pred CCceEEeccC---CCCccccccccCCcCcccchhHHHHHHHhcC------------------CCcccccccCCceeeeee
Q 041664 78 QPQCRICLDI---GGEDLIAPCHCRGTQKYVHRSCLDHWRSTKE------------------GFAFAHCTECRAMFILRT 136 (268)
Q Consensus 78 ~~~CRIC~~~---~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~------------------~~~~~~Ce~Ck~~y~~~~ 136 (268)
.-.|-||+=+ ...-.+++| -+|.|-.||.+.+.+-. ......|++|+.+..++.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C-----~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTAC-----DHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCceEEEEEeecCCCceeeehh-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 3466666644 223357888 58999999988876521 012356999999998876
Q ss_pred e
Q 041664 137 N 137 (268)
Q Consensus 137 ~ 137 (268)
+
T Consensus 190 ~ 190 (368)
T KOG4445|consen 190 N 190 (368)
T ss_pred c
Confidence 4
No 54
>KOG3012 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.42 E-value=31 Score=31.90 Aligned_cols=13 Identities=38% Similarity=0.667 Sum_probs=7.2
Q ss_pred HhHhhccccceee
Q 041664 231 LAKQELTKEYVVE 243 (268)
Q Consensus 231 l~k~~l~~e~~~~ 243 (268)
++|+.-.+||.||
T Consensus 141 l~k~~~s~d~~vE 153 (259)
T KOG3012|consen 141 LRKRKSSRDYDVE 153 (259)
T ss_pred HHhhcccccccee
Confidence 3444455666665
No 55
>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=69.71 E-value=3.9 Score=39.03 Aligned_cols=49 Identities=18% Similarity=0.422 Sum_probs=35.4
Q ss_pred CCceEEeccCC--CCc---cccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 78 QPQCRICLDIG--GED---LIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 78 ~~~CRIC~~~~--~~~---li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
+..|-||.... +.. ++++| -+-+-.+|+.+.+... ...|+.|+..+.-.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~C-----GH~~C~sCv~~l~~~~----~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVC-----GHTLCESCVDLLFVRG----SGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCC-----CCcccHHHHHHHhcCC----CCCCCCCCCccchh
Confidence 46899999863 222 57776 3778889999976443 25899999887643
No 56
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=67.39 E-value=22 Score=31.30 Aligned_cols=53 Identities=23% Similarity=0.263 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhhh--HHHHHHhccCCchhHHHHHHHHHHHHHHHHHHH
Q 041664 159 FIFVIVQLIVALLGVLVYKFYG--EELREIFGYEEHPYAFYIMAVLAIILVGVLYGF 213 (268)
Q Consensus 159 ~if~~v~~vv~~ig~~vy~~yg--~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~~ 213 (268)
.++.+++.+++..+.+.|+.-. +...+++|. +|..++.++.++.+.+|.++|=
T Consensus 42 ~~~si~t~~~g~~~g~~yl~~~~~D~~~~I~Gl--DP~~~~g~~t~a~g~lG~L~GP 96 (173)
T PF08566_consen 42 LVSSIPTGLLGSSAGWAYLSTIEIDPTQQIMGL--DPFMVYGLATLACGALGWLVGP 96 (173)
T ss_pred HHhHHHHHHHHHHHHHHHHhhccccccccccCc--CHHHHHHHHHHHHHHHHHHhcc
Confidence 3444444444444444554322 244567787 3543444555666666666653
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.31 E-value=4.7 Score=40.02 Aligned_cols=50 Identities=24% Similarity=0.630 Sum_probs=36.5
Q ss_pred CCCceEEeccCC---CC-ccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 77 DQPQCRICLDIG---GE-DLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 77 ~~~~CRIC~~~~---~~-~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
.+-+|-||+++- ++ .++.| .| .+..-.+|.++|+-.+. ...|++|+.+-.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~c---ghlFgs~cie~wl~k~~---~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QC---GHLFGSQCIEKWLGKKT---KMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-cc---cccccHHHHHHHHhhhh---hhhCcccCChhH
Confidence 467899999972 33 35544 44 57899999999995333 479999998754
No 58
>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=66.17 E-value=2.9 Score=31.03 Aligned_cols=48 Identities=17% Similarity=0.250 Sum_probs=34.3
Q ss_pred CCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 78 QPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 78 ~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
+-.|-|+.+--.++.+.|+. +.+=++|+++|+...+ ..|++|+.+...
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G-----~tyer~~I~~~l~~~~----~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSG-----HTYERSAIERWLEQNG----GTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTS-----EEEEHHHHHHHHCTTS----SB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhCceeCCcC-----CEEcHHHHHHHHHcCC----CCCCCCCCcCCc
Confidence 45678887777788888863 6888999999998854 699999887654
No 59
>PLN02400 cellulose synthase
Probab=64.04 E-value=4.6 Score=44.37 Aligned_cols=51 Identities=27% Similarity=0.629 Sum_probs=33.3
Q ss_pred CCCCCceEEeccC-----CCCccccccc-cCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 75 NDDQPQCRICLDI-----GGEDLIAPCH-CRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 75 ~~~~~~CRIC~~~-----~~~~li~PC~-CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
..++.+|+||-++ +++.++ -|+ | ---|-+.|.+-=+++- +..|++||++|+
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FV-AC~eC---aFPVCRpCYEYERkeG----nq~CPQCkTrYk 89 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFV-ACNEC---AFPVCRPCYEYERKDG----TQCCPQCKTRYR 89 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEE-EEccC---CCccccchhheecccC----CccCcccCCccc
Confidence 4467799999876 123443 232 2 2347778986444433 479999999998
No 60
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.56 E-value=9 Score=35.92 Aligned_cols=51 Identities=27% Similarity=0.505 Sum_probs=40.6
Q ss_pred CCCCCceEEeccCCCCccccccccCCcCcccchhHHHH-HHHhcCCCcccccccCCceeee
Q 041664 75 NDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDH-WRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~-Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
+.....|-||.+....+.-.||. +..--.||.. |-..+- -.|++|+..-.+
T Consensus 212 p~~d~kC~lC~e~~~~ps~t~Cg-----HlFC~~Cl~~~~t~~k~----~~CplCRak~~p 263 (271)
T COG5574 212 PLADYKCFLCLEEPEVPSCTPCG-----HLFCLSCLLISWTKKKY----EFCPLCRAKVYP 263 (271)
T ss_pred cccccceeeeecccCCccccccc-----chhhHHHHHHHHHhhcc----ccCchhhhhccc
Confidence 33467899999987888889984 7788899999 887764 579999986544
No 61
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=61.23 E-value=3.5 Score=39.35 Aligned_cols=49 Identities=20% Similarity=0.316 Sum_probs=36.4
Q ss_pred CCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 77 DQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 77 ~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
.-..||||.+--.-+.+.||. +-+-.-|+.+-+... -.|++|.+++...
T Consensus 24 s~lrC~IC~~~i~ip~~TtCg-----HtFCslCIR~hL~~q-----p~CP~Cr~~~~es 72 (391)
T COG5432 24 SMLRCRICDCRISIPCETTCG-----HTFCSLCIRRHLGTQ-----PFCPVCREDPCES 72 (391)
T ss_pred hHHHhhhhhheeecceecccc-----cchhHHHHHHHhcCC-----CCCccccccHHhh
Confidence 357899998754556788884 456667888777665 4899999998753
No 62
>PRK04987 fumarate reductase subunit C; Provisional
Probab=60.78 E-value=23 Score=29.91 Aligned_cols=53 Identities=21% Similarity=0.464 Sum_probs=27.1
Q ss_pred Cchhhhcccee-eeeccchhhHHHHHHHHHHHHHHHHHhhhH-HHHHHhccCCchh
Q 041664 141 DRWWLRLKFQF-LVARDHTFIFVIVQLIVALLGVLVYKFYGE-ELREIFGYEEHPY 194 (268)
Q Consensus 141 ~~~w~~l~~~~-lv~r~~~~if~~v~~vv~~ig~~vy~~yg~-elr~~~G~~~~p~ 194 (268)
..||.+++|=. ...|+-..++.++..++.+.|++... -|+ ......++..+|.
T Consensus 14 ~~WW~k~~FYr~YMlRE~T~v~~~~f~lvLl~Gl~~L~-~g~~aw~~f~~flqnPi 68 (130)
T PRK04987 14 PTWWKKLPFYRFYMLREATAVPAVWFSLVLIYGLFALK-NGPEAWAGFVSFLQNPI 68 (130)
T ss_pred cchhhcCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc-cCHHHHHHHHHHHhCcH
Confidence 46899888632 23355555555443333333433332 233 3344556777885
No 63
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=60.69 E-value=21 Score=33.33 Aligned_cols=15 Identities=27% Similarity=0.678 Sum_probs=12.0
Q ss_pred ccccccCCceeeeee
Q 041664 122 FAHCTECRAMFILRT 136 (268)
Q Consensus 122 ~~~Ce~Ck~~y~~~~ 136 (268)
...|.-|+..|-+.+
T Consensus 157 rv~CghC~~~Fl~~~ 171 (256)
T PF09788_consen 157 RVICGHCSNTFLFNT 171 (256)
T ss_pred eEECCCCCCcEeccC
Confidence 468999999998764
No 64
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=60.55 E-value=26 Score=29.66 Aligned_cols=45 Identities=18% Similarity=0.324 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh--hhhhhhhhHHH-hHhhcccccee
Q 041664 198 IMAVLAIILVGVLYGFFIAIICG--QRIHERHYHVL-AKQELTKEYVV 242 (268)
Q Consensus 198 ~l~vL~ii~vgLll~~~i~~~~~--~r~~~r~y~~l-~k~~l~~e~~~ 242 (268)
.+.++|..+.++-.|+|++.... ..+...||++. .|+.-.+|--+
T Consensus 85 lMYaIPy~L~Ala~GFlv~~~~~p~~~~i~~~~~~f~l~r~~r~~n~l 132 (141)
T PRK13743 85 LMYVIPYTLWALAAGFLVAGVRNPLCELINGGIRIFRLKRRMRRENTL 132 (141)
T ss_pred HHHHHHHHHHHHHhchhhhhhhhHHHHHHhcceeeeehhcccchhhhh
Confidence 35567888888888888776632 46777788765 45555555544
No 65
>PRK13603 fumarate reductase subunit C; Provisional
Probab=60.51 E-value=20 Score=30.06 Aligned_cols=54 Identities=19% Similarity=0.410 Sum_probs=28.0
Q ss_pred Cchhhhcccee-eeeccchhhHHHHHHHHHHHHHHHHHhhhHHHHHHhccCCchh
Q 041664 141 DRWWLRLKFQF-LVARDHTFIFVIVQLIVALLGVLVYKFYGEELREIFGYEEHPY 194 (268)
Q Consensus 141 ~~~w~~l~~~~-lv~r~~~~if~~v~~vv~~ig~~vy~~yg~elr~~~G~~~~p~ 194 (268)
..||.+++|=. ...|+-..++.++..++.+.|++...--.+......++..+|.
T Consensus 10 ~~WW~k~~FYr~YMlRE~T~v~~~~f~lvLl~Gl~~L~~G~~aw~~f~~flqnPi 64 (126)
T PRK13603 10 RYWWARRRSYLRFMLREISCIFVAWFVLYLVLVLRAVGAGGNSYQRFLDFSANPV 64 (126)
T ss_pred cchhhcCcHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHhCcH
Confidence 46899888632 3335555555554434444444433321223334556677884
No 66
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=60.26 E-value=73 Score=26.82 Aligned_cols=15 Identities=33% Similarity=0.594 Sum_probs=11.0
Q ss_pred CCCCCChhHHHHHHH
Q 041664 250 DIPELDPSHVSELRM 264 (268)
Q Consensus 250 ~~p~~~~~~~~~~~~ 264 (268)
....+++++.++++.
T Consensus 91 ~iE~l~~~el~~~~~ 105 (132)
T PF04120_consen 91 DIEDLTEEELEEIRK 105 (132)
T ss_pred CcccCCHHHHHHHHH
Confidence 566788888887764
No 67
>cd00546 QFR_TypeD_subunitC Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine oxidoreductase (SQR). QFRs oxidize low potential quinols such as menaquinol and are involved in anaerobic respiration with fumarate as the terminal electron acceptor. SQR and QFR share a common subunit arrangement, composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type D as they contain two transmembrane subunits (C and D) and no heme groups. The structural arrangement allows efficient electron transfer between the catalytic subunit, through iron-sulfur centers, and the transmembrane subunit containing the electron donor (quinol). The quinone binding site resides in the transmembrane subunits.
Probab=59.65 E-value=20 Score=30.01 Aligned_cols=53 Identities=23% Similarity=0.513 Sum_probs=27.7
Q ss_pred Cchhhhccce-eeeeccchhhHHHHHHHHHHHHHHHHHhhhH-HHHHHhccCCchh
Q 041664 141 DRWWLRLKFQ-FLVARDHTFIFVIVQLIVALLGVLVYKFYGE-ELREIFGYEEHPY 194 (268)
Q Consensus 141 ~~~w~~l~~~-~lv~r~~~~if~~v~~vv~~ig~~vy~~yg~-elr~~~G~~~~p~ 194 (268)
..||.+++|= ....|+-..++.++..++.+.|++... -|. ......++..+|.
T Consensus 10 ~~WW~k~~FYr~YMlRE~T~v~~~~f~lvLl~Gl~~L~-~g~~aw~~f~~flqnPi 64 (124)
T cd00546 10 PTWWKKLDFYRFYMLREATAVPTVWFSLVLLYGLFALG-SGPESWAGFVSFLQNPI 64 (124)
T ss_pred cchhhcCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHhCcH
Confidence 4689888753 233355555555543334444443333 232 3344556777885
No 68
>PF13994 PgaD: PgaD-like protein
Probab=59.47 E-value=31 Score=28.72 Aligned_cols=41 Identities=12% Similarity=0.215 Sum_probs=25.5
Q ss_pred hhhhhhhHHHhHhhccccceeecccCCCCCCCCChhHHHHHHHh
Q 041664 222 RIHERHYHVLAKQELTKEYVVEDREKNKDIPELDPSHVSELRML 265 (268)
Q Consensus 222 r~~~r~y~~l~k~~l~~e~~~~d~~~~~~~p~~~~~~~~~~~~~ 265 (268)
+++++.++..++|.....+-.+|.-+.+. ++++.+++++.=
T Consensus 83 ~yn~~Rf~~~~rr~~~~~~~~~elA~~f~---l~~~~l~~lr~~ 123 (138)
T PF13994_consen 83 KYNRLRFRGRRRRRRPPPVSDEELARSFG---LSPEQLQQLRQA 123 (138)
T ss_pred HHHHHHhcchhhccCCCCCCHHHHHHHcC---CCHHHHHHHHhC
Confidence 56677777777776655544444444444 457888888753
No 69
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=59.02 E-value=1e+02 Score=26.71 Aligned_cols=8 Identities=0% Similarity=0.409 Sum_probs=5.1
Q ss_pred hhhhhhhH
Q 041664 222 RIHERHYH 229 (268)
Q Consensus 222 r~~~r~y~ 229 (268)
+++++.|+
T Consensus 82 ~YN~~RF~ 89 (153)
T PRK14584 82 KYNQVRFQ 89 (153)
T ss_pred HHHHHHhc
Confidence 56666665
No 70
>PF02300 Fumarate_red_C: Fumarate reductase subunit C; InterPro: IPR003510 Fumarate reductase is a membrane-bound flavoenzyme consisting of four subunits, A-B. A and B comprise the membrane-extrinsic catalytic domain and C and D link the catalytic centres to the electron-transport chain. This family consists of the 15kDa hydrophobic subunit C.; GO: 0016020 membrane; PDB: 1KFY_O 1L0V_O 3P4S_O 2B76_O 3CIR_O 3P4R_C 1KF6_O 3P4P_C 3P4Q_C.
Probab=58.91 E-value=25 Score=29.63 Aligned_cols=53 Identities=26% Similarity=0.491 Sum_probs=26.0
Q ss_pred Cchhhhccce-eeeeccchhhHHHHHHHHHHHHHHHHHhhhHH-HHHHhccCCchh
Q 041664 141 DRWWLRLKFQ-FLVARDHTFIFVIVQLIVALLGVLVYKFYGEE-LREIFGYEEHPY 194 (268)
Q Consensus 141 ~~~w~~l~~~-~lv~r~~~~if~~v~~vv~~ig~~vy~~yg~e-lr~~~G~~~~p~ 194 (268)
..||.+.+|- ....|+-..++.+...++.+.|+.. ..-|++ .....++..+|+
T Consensus 13 ~~WW~k~~FY~~YMlRE~T~v~~~~f~l~Ll~Gl~~-L~~G~~aw~~~~~fl~nP~ 67 (129)
T PF02300_consen 13 RTWWKKLPFYRFYMLREGTSVPVAWFSLVLLYGLFA-LGQGPEAWQGWLAFLQNPI 67 (129)
T ss_dssp TTGGGSSHHHHHHHHHHHTHHHHHHHHHHHHHHHHH-HHTHHHHHHHHHHHHTSHH
T ss_pred cchhhcCcHHHHHHHHHHhHHHHHHHHHHHHHHHHH-HccCHHHHHHHHHHHcCcH
Confidence 4689988873 2233555545444422222223222 223443 344556677885
No 71
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=57.75 E-value=6.3 Score=33.47 Aligned_cols=54 Identities=20% Similarity=0.581 Sum_probs=38.8
Q ss_pred CCCceEEeccCCC-CccccccccCCcCcccchh-HHHHHHHhcCCCcccccccCCceeeee
Q 041664 77 DQPQCRICLDIGG-EDLIAPCHCRGTQKYVHRS-CLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 77 ~~~~CRIC~~~~~-~~li~PC~CkGs~k~VH~~-CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
.--.|-||.+... +.++.|=.|-| .-+-.. |..-|--.+- ...||+||+.|+-.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCg--Y~iCn~Cya~LWK~~~~---ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCG--YSICNACYANLWKFCNL---YPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccc--hHHHHHHHHHHHHHccc---CCCCCccccccccc
Confidence 4568999999864 56899988877 233444 4566765553 47999999999753
No 72
>PRK05978 hypothetical protein; Provisional
Probab=57.42 E-value=58 Score=27.98 Aligned_cols=13 Identities=31% Similarity=0.779 Sum_probs=11.2
Q ss_pred cccccCCceeeee
Q 041664 123 AHCTECRAMFILR 135 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~ 135 (268)
..|+.|+.+|..+
T Consensus 53 ~~C~~CG~~~~~~ 65 (148)
T PRK05978 53 DHCAACGEDFTHH 65 (148)
T ss_pred CCccccCCccccC
Confidence 4899999999875
No 73
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.05 E-value=4.6 Score=34.89 Aligned_cols=45 Identities=29% Similarity=0.633 Sum_probs=36.8
Q ss_pred CCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCC
Q 041664 75 NDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECR 129 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck 129 (268)
..++-.|.||++.-.++.+.|| .+.+=..|+..+.. . ...|+.|+
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C-----~H~~c~~C~~~~~~--~---~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPC-----GHNFCRACLTRSWE--G---PLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcCccccc-----cchHhHHHHHHhcC--C---CcCCcccC
Confidence 3467899999997666678888 47888899999998 2 48999999
No 74
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=56.60 E-value=69 Score=29.91 Aligned_cols=41 Identities=27% Similarity=0.424 Sum_probs=27.6
Q ss_pred hhhhhhHHHhHhhccccceeecc-cCCCC--------CCCCChhHHHHHH
Q 041664 223 IHERHYHVLAKQELTKEYVVEDR-EKNKD--------IPELDPSHVSELR 263 (268)
Q Consensus 223 ~~~r~y~~l~k~~l~~e~~~~d~-~~~~~--------~p~~~~~~~~~~~ 263 (268)
.+-|.-|.--..|+.|||++--| ||.-+ .|...+--|+|..
T Consensus 172 rfirsiY~avh~EleKeYViaarLdGas~~~lL~~~IlPNI~~~~v~Eit 221 (296)
T COG4171 172 RFIRSIYSAVHDELEKEYVIAARLDGASTLNLLWFAILPNITAILVTEIT 221 (296)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHccchHHHHHHHHH
Confidence 33444455558899999999775 77654 5666666666643
No 75
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=56.35 E-value=3.9 Score=39.81 Aligned_cols=46 Identities=24% Similarity=0.587 Sum_probs=37.0
Q ss_pred CCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 78 QPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 78 ~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
--.|-||++--.-++|.||. +-+-.-|+...+..+. .|+.|.++|.
T Consensus 23 lLRC~IC~eyf~ip~itpCs-----HtfCSlCIR~~L~~~p-----~CP~C~~~~~ 68 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPMITPCS-----HTFCSLCIRKFLSYKP-----QCPTCCVTVT 68 (442)
T ss_pred HHHHhHHHHHhcCceecccc-----chHHHHHHHHHhccCC-----CCCceecccc
Confidence 45899999866678999974 5666788888887764 8999999886
No 76
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=55.84 E-value=9.2 Score=42.00 Aligned_cols=52 Identities=27% Similarity=0.557 Sum_probs=34.0
Q ss_pred CCCCCceEEeccC-----CCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceee
Q 041664 75 NDDQPQCRICLDI-----GGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 75 ~~~~~~CRIC~~~-----~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
+-+..+|+||-+. +++.++.-=.| .--|-+.|.+-=+++- ...|++||++|.
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC---~fpvCr~cyeye~~~g----~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVC---GFPVCKPCYEYERSEG----NQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccC---CCccccchhhhhhhcC----CccCCccCCchh
Confidence 4468899999875 13444422123 2347779986544443 379999999998
No 77
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.54 E-value=9.5 Score=38.74 Aligned_cols=53 Identities=21% Similarity=0.443 Sum_probs=40.7
Q ss_pred CCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 78 QPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 78 ~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
...|-||++...-+..+-| -++.--.||.+....+.-.....|++|...+.++
T Consensus 186 ~~~CPICL~~~~~p~~t~C-----GHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNC-----GHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCccccccc-----CceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 6799999998666666655 4778889998888765323468999999998773
No 78
>PRK00523 hypothetical protein; Provisional
Probab=54.39 E-value=20 Score=27.26 Aligned_cols=23 Identities=17% Similarity=0.488 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041664 196 FYIMAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 196 f~~l~vL~ii~vgLll~~~i~~~ 218 (268)
+|+++++..+++|++.|+|++.-
T Consensus 6 l~I~l~i~~li~G~~~Gffiark 28 (72)
T PRK00523 6 LALGLGIPLLIVGGIIGYFVSKK 28 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555567888888886643
No 79
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=53.41 E-value=32 Score=31.50 Aligned_cols=28 Identities=29% Similarity=0.540 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhh-hhhhhhhHHHhHh
Q 041664 207 VGVLYGFFIAIICGQ-RIHERHYHVLAKQ 234 (268)
Q Consensus 207 vgLll~~~i~~~~~~-r~~~r~y~~l~k~ 234 (268)
+|+++|.++++++-. |.-.-.|..+..|
T Consensus 58 ~gi~~g~l~am~vl~rra~ra~Y~qieGq 86 (224)
T PF13829_consen 58 IGILLGLLAAMIVLSRRAQRAAYAQIEGQ 86 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 345555555666443 4434455544443
No 80
>PRK01844 hypothetical protein; Provisional
Probab=52.00 E-value=23 Score=26.93 Aligned_cols=21 Identities=38% Similarity=0.616 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 041664 197 YIMAVLAIILVGVLYGFFIAI 217 (268)
Q Consensus 197 ~~l~vL~ii~vgLll~~~i~~ 217 (268)
|+++++..+++|++.|+|++.
T Consensus 6 ~I~l~I~~li~G~~~Gff~ar 26 (72)
T PRK01844 6 GILVGVVALVAGVALGFFIAR 26 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444445678888887664
No 81
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=51.26 E-value=7.6 Score=26.37 Aligned_cols=40 Identities=20% Similarity=0.596 Sum_probs=20.1
Q ss_pred eEEeccC--CC-CccccccccCCcCcccchhHHHHHHHhcCCCcccccc
Q 041664 81 CRICLDI--GG-EDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCT 126 (268)
Q Consensus 81 CRIC~~~--~~-~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce 126 (268)
|-||.+- ++ .+.+.|| .+-+=++||+++.+.+. .+..+|+
T Consensus 1 CpIc~e~~~~~n~P~~L~C-----GH~~c~~cl~~l~~~~~-~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPC-----GHVFCKDCLQKLSKKSD-RNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-SS-----S-EEEHHHHHHHHHH-S--S-B--T
T ss_pred CCccccccCCCCCCEEEeC-----ccHHHHHHHHHHHhcCC-CCeeeCc
Confidence 4566652 22 2578887 47889999999998753 1246664
No 82
>COG4325 Predicted membrane protein [Function unknown]
Probab=51.18 E-value=70 Score=31.95 Aligned_cols=22 Identities=18% Similarity=0.223 Sum_probs=11.6
Q ss_pred ccccceee--cccC-CCCCCCCChh
Q 041664 236 LTKEYVVE--DREK-NKDIPELDPS 257 (268)
Q Consensus 236 l~~e~~~~--d~~~-~~~~p~~~~~ 257 (268)
+.+.|..+ |-.| ..+||+++.+
T Consensus 204 l~~qlyp~~~d~~g~vetpp~~~~~ 228 (464)
T COG4325 204 LVDQLYPESDDADGQVETPPSPPAD 228 (464)
T ss_pred HHHHhcCCCCcccCcccCCCCCCcc
Confidence 44555555 4444 4466665544
No 83
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.51 E-value=27 Score=26.47 Aligned_cols=19 Identities=37% Similarity=0.758 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 041664 199 MAVLAIILVGVLYGFFIAI 217 (268)
Q Consensus 199 l~vL~ii~vgLll~~~i~~ 217 (268)
++++..+++|+++|+||+.
T Consensus 8 l~ivl~ll~G~~~G~fiar 26 (71)
T COG3763 8 LLIVLALLAGLIGGFFIAR 26 (71)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333445578888877654
No 84
>PF14018 DUF4234: Domain of unknown function (DUF4234)
Probab=50.03 E-value=99 Score=22.61 Aligned_cols=49 Identities=29% Similarity=0.438 Sum_probs=21.1
Q ss_pred HHHHhh--hHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 041664 174 LVYKFY--GEELREIFGYEEHPYAFYIMAVLAIILVGVLYGFFIAIICGQRI 223 (268)
Q Consensus 174 ~vy~~y--g~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~~~~r~ 223 (268)
..|++| .+++.+..|....+......+++. ++++.+++.+-+.-.+.++
T Consensus 18 ~l~W~y~~~~~~~~~~~~~~~~~~~~~~lll~-ilt~gi~~i~w~~k~~~~i 68 (75)
T PF14018_consen 18 GLYWLYKIWKELNQLTGRIISPRSMTLWLLLS-ILTCGIYSIYWAYKLGNRI 68 (75)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 344455 356776666553333222322232 3344444433333344443
No 85
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=48.17 E-value=52 Score=30.10 Aligned_cols=31 Identities=6% Similarity=0.120 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHhhhhh--hhhhHHHhHhhcc
Q 041664 205 ILVGVLYGFFIAIICGQRIH--ERHYHVLAKQELT 237 (268)
Q Consensus 205 i~vgLll~~~i~~~~~~r~~--~r~y~~l~k~~l~ 237 (268)
++.++.+.|+|.+++.--+. ..|++++ .||+
T Consensus 152 ~~~~laivRlilf~i~w~~~~g~~~fWlf--PNLf 184 (224)
T PF03839_consen 152 LFFALAIVRLILFLITWFFTGGKHGFWLF--PNLF 184 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCEEeC--Cccc
Confidence 33444445555555444444 3556665 6677
No 86
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=47.30 E-value=43 Score=25.60 Aligned_cols=28 Identities=14% Similarity=0.314 Sum_probs=18.6
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 041664 191 EHPYAFYIMAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 191 ~~p~~f~~l~vL~ii~vgLll~~~i~~~ 218 (268)
++||.|.+.+.+.+.|..++.+++-|-.
T Consensus 17 kdP~~Fl~~vll~LtPlfiisa~lSwkL 44 (74)
T PF15086_consen 17 KDPYEFLTTVLLILTPLFIISAVLSWKL 44 (74)
T ss_pred cChHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4788888877777777666555554444
No 87
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.54 E-value=18 Score=35.52 Aligned_cols=49 Identities=29% Similarity=0.609 Sum_probs=36.0
Q ss_pred cCCCCCCceEEeccCCCCccccccccCCcCcccchh---HHHHHHHhcCCCcccccccCCceeee
Q 041664 73 LVNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRS---CLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 73 ~~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~---CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
.+..++..|-||+..+-+..+.||+ |++ |+.|=+.. ...|=.||+.-.-
T Consensus 417 lp~sEd~lCpICyA~pi~Avf~PC~--------H~SC~~CI~qHlmN-----~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGPINAVFAPCS--------HRSCYGCITQHLMN-----CKRCFFCKTTVID 468 (489)
T ss_pred CCCcccccCcceecccchhhccCCC--------CchHHHHHHHHHhc-----CCeeeEecceeee
Confidence 3456789999999987788999996 445 44444433 3589999998773
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=46.18 E-value=14 Score=36.15 Aligned_cols=54 Identities=19% Similarity=0.605 Sum_probs=36.8
Q ss_pred CCCCCCceEEeccCC--CCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 74 VNDDQPQCRICLDIG--GEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 74 ~~~~~~~CRIC~~~~--~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
+..+++.|-.|.+.- .+.-..||.| -.-|-+-| |-..+++. .-.|+-|+..|.=
T Consensus 10 sedeed~cplcie~mditdknf~pc~c---gy~ic~fc---~~~irq~l-ngrcpacrr~y~d 65 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPC---GYQICQFC---YNNIRQNL-NGRCPACRRKYDD 65 (480)
T ss_pred cccccccCcccccccccccCCcccCCc---ccHHHHHH---HHHHHhhc-cCCChHhhhhccc
Confidence 455778899998863 3556889999 34466666 54443321 2589999998863
No 89
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.31 E-value=49 Score=32.41 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 041664 203 AIILVGVLYGFFIAIICG 220 (268)
Q Consensus 203 ~ii~vgLll~~~i~~~~~ 220 (268)
++.++-+|+...+|++.+
T Consensus 234 vLaIvRlILF~I~~il~~ 251 (372)
T KOG2927|consen 234 VLAIVRLILFGITWILTG 251 (372)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 334445555556666666
No 90
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=43.90 E-value=54 Score=26.57 Aligned_cols=37 Identities=8% Similarity=0.224 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhHHHhHhhcccc
Q 041664 203 AIILVGVLYGFFIAIICGQRIHERHYHVLAKQELTKE 239 (268)
Q Consensus 203 ~ii~vgLll~~~i~~~~~~r~~~r~y~~l~k~~l~~e 239 (268)
.++++++.++.+|++.++.-+|+|.+.--+-|.|...
T Consensus 22 GVv~~al~~SlLIalaaKC~~~~k~~~SY~H~rL~e~ 58 (102)
T PF15176_consen 22 GVVVTALVTSLLIALAAKCPVWYKYLASYRHHRLPET 58 (102)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHhccccccCCcc
Confidence 4445667788899999998888887766666666554
No 91
>PRK10404 hypothetical protein; Provisional
Probab=43.47 E-value=26 Score=28.01 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=15.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH
Q 041664 191 EHPYAFYIMAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 191 ~~p~~f~~l~vL~ii~vgLll~~~i~ 216 (268)
++| |..++++.+ +||++|+++.
T Consensus 78 e~P---w~avGiaag-vGlllG~Ll~ 99 (101)
T PRK10404 78 EKP---WQGIGVGAA-VGLVLGLLLA 99 (101)
T ss_pred hCc---HHHHHHHHH-HHHHHHHHHh
Confidence 478 466566665 7888888753
No 92
>PF15179 Myc_target_1: Myc target protein 1
Probab=42.74 E-value=35 Score=30.51 Aligned_cols=18 Identities=17% Similarity=0.288 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 041664 204 IILVGVLYGFFIAIICGQ 221 (268)
Q Consensus 204 ii~vgLll~~~i~~~~~~ 221 (268)
.+.+||++|-+||++.+.
T Consensus 28 Sm~iGLviG~li~~Lltw 45 (197)
T PF15179_consen 28 SMAIGLVIGALIWALLTW 45 (197)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 356788888888888653
No 93
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.41 E-value=25 Score=34.48 Aligned_cols=56 Identities=18% Similarity=0.331 Sum_probs=35.4
Q ss_pred cccCCCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 71 SYLVNDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 71 ~~~~~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
+.....++..|-||-..-.-.-+.||+= -.-.-|--+-+.-=. +..|++|+++..-
T Consensus 54 addtDEen~~C~ICA~~~TYs~~~PC~H-----~~CH~Ca~RlRALY~---~K~C~~CrTE~e~ 109 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTYSARYPCGH-----QICHACAVRLRALYM---QKGCPLCRTETEA 109 (493)
T ss_pred ccccccccceeEEecCCceEEEeccCCc-----hHHHHHHHHHHHHHh---ccCCCccccccce
Confidence 3445667889999977644455788862 222345544443322 4789999999753
No 94
>PRK11380 hypothetical protein; Provisional
Probab=42.27 E-value=83 Score=30.73 Aligned_cols=24 Identities=8% Similarity=0.199 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHh-hhhhhhhhHHHh
Q 041664 209 VLYGFFIAIICG-QRIHERHYHVLA 232 (268)
Q Consensus 209 Lll~~~i~~~~~-~r~~~r~y~~l~ 232 (268)
.+++.+|+.+++ -|--|++|+..+
T Consensus 84 ~~l~~~~~~~~~~~~~eq~~yy~~~ 108 (353)
T PRK11380 84 IMLGLIVRAGFKKAKKEQLRYYQAK 108 (353)
T ss_pred HHHHHHHHHHHccchHHHHHHHHHc
Confidence 344555555553 355577888763
No 95
>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=42.14 E-value=11 Score=23.07 Aligned_cols=12 Identities=25% Similarity=0.523 Sum_probs=10.2
Q ss_pred ccccccCCceee
Q 041664 122 FAHCTECRAMFI 133 (268)
Q Consensus 122 ~~~Ce~Ck~~y~ 133 (268)
...|+.|++.|.
T Consensus 14 ~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 14 AKFCPHCGYDFE 25 (26)
T ss_pred cCcCCCCCCCCc
Confidence 479999999985
No 96
>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=41.58 E-value=17 Score=23.73 Aligned_cols=17 Identities=24% Similarity=0.678 Sum_probs=12.7
Q ss_pred cccccCCceeeeeeecC
Q 041664 123 AHCTECRAMFILRTNCP 139 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~~~~~ 139 (268)
+.|+.|+..|++..+.|
T Consensus 2 r~C~~Cg~~Yh~~~~pP 18 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPP 18 (36)
T ss_dssp EEETTTTEEEETTTB--
T ss_pred cCcCCCCCccccccCCC
Confidence 57999999999876543
No 97
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=41.52 E-value=84 Score=25.74 Aligned_cols=17 Identities=24% Similarity=0.553 Sum_probs=11.8
Q ss_pred CCchhHHHHHHHHHHHH
Q 041664 190 EEHPYAFYIMAVLAIIL 206 (268)
Q Consensus 190 ~~~p~~f~~l~vL~ii~ 206 (268)
..+.++|++++.|.++|
T Consensus 73 ~~~~~~llilG~L~fIP 89 (115)
T PF05915_consen 73 RDRGWALLILGILCFIP 89 (115)
T ss_pred CcccchHHHHHHHHHhc
Confidence 44556777887777777
No 98
>KOG1341 consensus Na+/K+ transporter [Inorganic ion transport and metabolism]
Probab=41.20 E-value=97 Score=32.88 Aligned_cols=32 Identities=31% Similarity=0.585 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHhhhHHHHHHh---ccCCchhHHHH
Q 041664 167 IVALLGVLVYKFYGEELREIF---GYEEHPYAFYI 198 (268)
Q Consensus 167 vv~~ig~~vy~~yg~elr~~~---G~~~~p~~f~~ 198 (268)
+++++..++|...+.+.+++. |.....|+||+
T Consensus 476 IvafV~llv~i~t~k~~~eVv~~~gisp~ww~~FT 510 (854)
T KOG1341|consen 476 IVAFVTLLVFIYTAKTSREVVRSKGISPGWWAFFT 510 (854)
T ss_pred HHHHHHHHHHhhcchhhhhhcccCCCCcchhhhhh
Confidence 455666667765444444433 33333355554
No 99
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.77 E-value=21 Score=34.67 Aligned_cols=57 Identities=23% Similarity=0.574 Sum_probs=38.1
Q ss_pred cCCCCCCceEEeccCCCCcc-------c-cccccCCcCcccchhHHHHHHHhcC--CCcccccccCCceeee
Q 041664 73 LVNDDQPQCRICLDIGGEDL-------I-APCHCRGTQKYVHRSCLDHWRSTKE--GFAFAHCTECRAMFIL 134 (268)
Q Consensus 73 ~~~~~~~~CRIC~~~~~~~l-------i-~PC~CkGs~k~VH~~CL~~Wi~~s~--~~~~~~Ce~Ck~~y~~ 134 (268)
.....++.|-||.+.-.+.. | -+| .+..-..|..+|....+ ..-...||+|+..-..
T Consensus 156 ~~~s~~k~CGICme~i~ek~~~~~rfgilpnC-----~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 156 LQKSSEKECGICMETINEKAASERRFGILPNC-----NHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cCccccccceehhhhccccchhhhhcccCCCc-----chhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 34567899999998743221 3 346 35667789999995543 2224799999987543
No 100
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=38.72 E-value=34 Score=26.36 Aligned_cols=23 Identities=30% Similarity=0.540 Sum_probs=15.3
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHH
Q 041664 190 EEHPYAFYIMAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 190 ~~~p~~f~~l~vL~ii~vgLll~~~i~ 216 (268)
.++| |.-++++++ +|+++|+++.
T Consensus 70 ~e~P---~~svgiAag-vG~llG~Ll~ 92 (94)
T PF05957_consen 70 RENP---WQSVGIAAG-VGFLLGLLLR 92 (94)
T ss_pred HHCh---HHHHHHHHH-HHHHHHHHHh
Confidence 4578 566566665 7888887753
No 101
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=38.66 E-value=15 Score=26.85 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=10.3
Q ss_pred cccccCCceeeee
Q 041664 123 AHCTECRAMFILR 135 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~ 135 (268)
.+|..||.+-...
T Consensus 4 kHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 4 KHCPVCGKPIPPD 16 (59)
T ss_pred CcCCcCCCcCCcc
Confidence 6899999887654
No 102
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=38.57 E-value=1.3e+02 Score=23.16 Aligned_cols=28 Identities=29% Similarity=0.545 Sum_probs=14.3
Q ss_pred hhHHHHH--HhccCCchhHHHHHH-HHHHHHHHH
Q 041664 179 YGEELRE--IFGYEEHPYAFYIMA-VLAIILVGV 209 (268)
Q Consensus 179 yg~elr~--~~G~~~~p~~f~~l~-vL~ii~vgL 209 (268)
+++++.+ +.| .|..||... +.+++.+.|
T Consensus 32 fa~~Ln~~~~~G---fPlgfw~aaQGsi~~fviL 62 (81)
T PF13937_consen 32 FADELNQITFGG---FPLGFWFAAQGSIIVFVIL 62 (81)
T ss_pred HHHHHcCCeeCC---CChHHHHHHHhHHHHHHHH
Confidence 4555532 345 588888753 333343443
No 103
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=38.52 E-value=1.9e+02 Score=22.47 Aligned_cols=13 Identities=15% Similarity=0.514 Sum_probs=11.1
Q ss_pred cccccCCceeeee
Q 041664 123 AHCTECRAMFILR 135 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~ 135 (268)
.+|+.|+.+|...
T Consensus 9 ~~C~~CG~d~~~~ 21 (86)
T PF06170_consen 9 PRCPHCGLDYSHA 21 (86)
T ss_pred CcccccCCccccC
Confidence 5899999999764
No 104
>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=38.19 E-value=63 Score=22.68 Aligned_cols=23 Identities=39% Similarity=0.775 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHH--HHHHHHHH
Q 041664 196 FYIMAVLAIILVGVL--YGFFIAII 218 (268)
Q Consensus 196 f~~l~vL~ii~vgLl--l~~~i~~~ 218 (268)
|.+.+.+|++.++++ ||+.||+.
T Consensus 15 fl~v~l~PiLsV~~Vg~YGF~vWm~ 39 (47)
T TIGR02972 15 FIIVVLFPILSVAGIGGYGFIIWMI 39 (47)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566555554 55666654
No 105
>COG3029 FrdC Fumarate reductase subunit C [Energy production and conversion]
Probab=37.98 E-value=33 Score=28.69 Aligned_cols=53 Identities=19% Similarity=0.377 Sum_probs=24.2
Q ss_pred chhhhccceee-eeccchhhHHHHHHHHHHHHHHHHHhhhHHHHHHhccCCchh
Q 041664 142 RWWLRLKFQFL-VARDHTFIFVIVQLIVALLGVLVYKFYGEELREIFGYEEHPY 194 (268)
Q Consensus 142 ~~w~~l~~~~l-v~r~~~~if~~v~~vv~~ig~~vy~~yg~elr~~~G~~~~p~ 194 (268)
.||.+++|-.+ ..|+...++.++..+....|....-.-++.-..+.+|..+|.
T Consensus 14 tWWkkl~fYr~yMlRE~T~ip~vwF~l~Li~gl~al~~gp~~~~~fldFl~NPv 67 (129)
T COG3029 14 TWWKKLPFYRFYMLREATAIPAVWFSLELIYGLFALGSGPEAWQGFLDFLANPV 67 (129)
T ss_pred HHHhcCcHHHHHHHHHhhhHHHHHHHHHHHHHHHHHccCchHHHHHHHHhcCCe
Confidence 58998887432 235555555444322222232222111222223556666773
No 106
>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=37.72 E-value=61 Score=23.52 Aligned_cols=20 Identities=25% Similarity=0.682 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHH--HHHHHHHH
Q 041664 199 MAVLAIILVGVL--YGFFIAII 218 (268)
Q Consensus 199 l~vL~ii~vgLl--l~~~i~~~ 218 (268)
.+.+|++.++++ ||+.||+.
T Consensus 26 ~~l~PiL~v~~Vg~YGF~VWm~ 47 (56)
T PF06796_consen 26 VVLFPILAVAFVGGYGFIVWMY 47 (56)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 333444443333 55566654
No 107
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=36.63 E-value=1.6e+02 Score=26.01 Aligned_cols=25 Identities=20% Similarity=0.607 Sum_probs=15.3
Q ss_pred HHHHHHHHHHhhhH-HHHHHhccCCchh
Q 041664 168 VALLGVLVYKFYGE-ELREIFGYEEHPY 194 (268)
Q Consensus 168 v~~ig~~vy~~yg~-elr~~~G~~~~p~ 194 (268)
+.++|.++|-+.++ .+|.+. .+||+
T Consensus 85 vlvi~~liwa~~~~a~~krmr--~~hp~ 110 (188)
T KOG4050|consen 85 VLVIGTLIWAASADANIKRMR--TDHPL 110 (188)
T ss_pred HHHHHHHHHHHhccHHHHHHh--hcCcH
Confidence 45677788876543 555544 45776
No 108
>COG4137 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=36.47 E-value=1.1e+02 Score=28.65 Aligned_cols=48 Identities=17% Similarity=0.397 Sum_probs=29.6
Q ss_pred HHHHHHHhhhHHH--HHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 041664 171 LGVLVYKFYGEEL--REIFGYEEHPYAFYIMAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 171 ig~~vy~~yg~el--r~~~G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~ 218 (268)
++++.|..||--+ +-..||...-...|++++..+...+.+.|+++.=+
T Consensus 212 lsilaW~vfg~lL~Gh~~~gWRG~kav~wtlag~~lL~LAYfGSr~v~Ei 261 (265)
T COG4137 212 LSILAWVVFGGLLWGHYRYGWRGRKAVWWTLAGFVLLTLAYFGSRFVLEI 261 (265)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCceehhhHHHHHHHHHHHHHhHHHHHHH
Confidence 3445555555422 23457766555578888887777777777775433
No 109
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.40 E-value=23 Score=31.56 Aligned_cols=47 Identities=23% Similarity=0.551 Sum_probs=33.8
Q ss_pred CCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCce
Q 041664 77 DQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAM 131 (268)
Q Consensus 77 ~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~ 131 (268)
+---|-||++...+..+--=+| -+.+-..|++.-++.. ..|++|+..
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkC---GHvFC~~Cik~alk~~-----~~CP~C~kk 176 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKC---GHVFCSQCIKDALKNT-----NKCPTCRKK 176 (187)
T ss_pred cccCCCceecchhhcccccccc---chhHHHHHHHHHHHhC-----CCCCCcccc
Confidence 3468999999765554333344 4677889998877663 699999973
No 110
>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=36.03 E-value=13 Score=28.43 Aligned_cols=32 Identities=28% Similarity=0.755 Sum_probs=22.9
Q ss_pred CCCCceEEeccCCCCc--cccccccCCcCcccchhHHHH
Q 041664 76 DDQPQCRICLDIGGED--LIAPCHCRGTQKYVHRSCLDH 112 (268)
Q Consensus 76 ~~~~~CRIC~~~~~~~--li~PC~CkGs~k~VH~~CL~~ 112 (268)
++...|.+|...=++. .+.||. ..||.+|++|
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCC-----eEEecccccC
Confidence 4577899998763333 467773 7899999764
No 111
>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=35.48 E-value=27 Score=24.27 Aligned_cols=23 Identities=13% Similarity=0.195 Sum_probs=10.9
Q ss_pred HHHHHHhcCCCcccccccCCceee
Q 041664 110 LDHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 110 L~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
+.+++..-... ..+||+|+.+|.
T Consensus 9 ~~k~i~~l~~~-~~~CPlC~r~l~ 31 (54)
T PF04423_consen 9 LKKYIEELKEA-KGCCPLCGRPLD 31 (54)
T ss_dssp HHHHHHHHTT--SEE-TTT--EE-
T ss_pred HHHHHHHHhcC-CCcCCCCCCCCC
Confidence 45566443221 239999999985
No 112
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=35.21 E-value=1.8e+02 Score=28.91 Aligned_cols=19 Identities=11% Similarity=-0.101 Sum_probs=11.6
Q ss_pred hhhhhhhhHHHhHhhcccc
Q 041664 221 QRIHERHYHVLAKQELTKE 239 (268)
Q Consensus 221 ~r~~~r~y~~l~k~~l~~e 239 (268)
.+.|++.++..+-+.-+.|
T Consensus 72 ~~~w~~~rKrrra~~~~~e 90 (400)
T COG3071 72 TRGWFSRRKRRRARKALNE 90 (400)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4677776666665555544
No 113
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=35.04 E-value=16 Score=38.59 Aligned_cols=47 Identities=21% Similarity=0.550 Sum_probs=36.6
Q ss_pred CceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 79 PQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 79 ~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
-.|-.|..--.+..|.-| .+.+-..|++.-+..++ ++||.|++.|--
T Consensus 644 LkCs~Cn~R~Kd~vI~kC-----~H~FC~~Cvq~r~etRq----RKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVITKC-----GHVFCEECVQTRYETRQ----RKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCchhhHHHHhc-----chHHHHHHHHHHHHHhc----CCCCCCCCCCCc
Confidence 467778643345577777 47788999999999887 899999999953
No 114
>PRK10132 hypothetical protein; Provisional
Probab=34.94 E-value=44 Score=27.13 Aligned_cols=22 Identities=27% Similarity=0.520 Sum_probs=14.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH
Q 041664 191 EHPYAFYIMAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 191 ~~p~~f~~l~vL~ii~vgLll~~~i~ 216 (268)
++| |..++++.+ +|+++|+++.
T Consensus 84 ~~P---w~svgiaag-vG~llG~Ll~ 105 (108)
T PRK10132 84 ERP---WCSVGTAAA-VGIFIGALLS 105 (108)
T ss_pred hCc---HHHHHHHHH-HHHHHHHHHh
Confidence 477 566666555 7888887743
No 115
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.67 E-value=42 Score=30.10 Aligned_cols=35 Identities=29% Similarity=0.707 Sum_probs=26.4
Q ss_pred CcccchhHHHHHHHh----cCCC--cccccccCCceeeeee
Q 041664 102 QKYVHRSCLDHWRST----KEGF--AFAHCTECRAMFILRT 136 (268)
Q Consensus 102 ~k~VH~~CL~~Wi~~----s~~~--~~~~Ce~Ck~~y~~~~ 136 (268)
.+-.|+-||-.|++. ++.+ -+-.|+-|..+..+++
T Consensus 191 gkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 191 GKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred CCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 578999999999965 2322 2568999998887653
No 116
>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 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=34.11 E-value=25 Score=32.90 Aligned_cols=29 Identities=24% Similarity=0.411 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 041664 200 AVLAIILVGVLYGFFIAIICGQRIHERHY 228 (268)
Q Consensus 200 ~vL~ii~vgLll~~~i~~~~~~r~~~r~y 228 (268)
|++.++++||++..+|+++++.|-.++.|
T Consensus 275 IaVG~~La~lvlivLiaYli~Rrr~~~gY 303 (306)
T PF01299_consen 275 IAVGAALAGLVLIVLIAYLIGRRRSRAGY 303 (306)
T ss_pred HHHHHHHHHHHHHHHHhheeEeccccccc
Confidence 44555567777777778777777666655
No 118
>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=34.00 E-value=22 Score=23.99 Aligned_cols=22 Identities=18% Similarity=0.748 Sum_probs=15.0
Q ss_pred ccchhHHHHHHHhcCCCcccccccC
Q 041664 104 YVHRSCLDHWRSTKEGFAFAHCTEC 128 (268)
Q Consensus 104 ~VH~~CL~~Wi~~s~~~~~~~Ce~C 128 (268)
-+|..|++++++...+ ..||.|
T Consensus 22 r~H~~C~~~y~r~~~~---~~CP~C 43 (43)
T PF08746_consen 22 RLHDDCFKKYFRHRSN---PKCPNC 43 (43)
T ss_dssp EE-HHHHHHHTTT-SS----B-TTT
T ss_pred hHHHHHHHHHHhcCCC---CCCcCC
Confidence 4999999999988763 478877
No 119
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=33.73 E-value=1.2e+02 Score=27.95 Aligned_cols=49 Identities=29% Similarity=0.527 Sum_probs=25.3
Q ss_pred ccccccCCceeeeeee------cCCCchhhhccceeeeeccchhhHHHHHHHHHHHH
Q 041664 122 FAHCTECRAMFILRTN------CPPDRWWLRLKFQFLVARDHTFIFVIVQLIVALLG 172 (268)
Q Consensus 122 ~~~Ce~Ck~~y~~~~~------~~p~~~w~~l~~~~lv~r~~~~if~~v~~vv~~ig 172 (268)
..+|--|+..|-+.+- .|.-|+......+ .+|.+.++|+++.+++++.+
T Consensus 170 RV~CgHC~~tFLfnt~tnaLArCPHCrKvSsvGsr--far~Ra~~ffilal~~avta 224 (275)
T KOG4684|consen 170 RVKCGHCNETFLFNTLTNALARCPHCRKVSSVGSR--FARRRALLFFILALTVAVTA 224 (275)
T ss_pred EEEecCccceeehhhHHHHHhcCCcccchhhhhhH--HhhhhhHHHHHHHHHHHHHH
Confidence 4678899999887542 2223332221111 23455666766654444333
No 120
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.57 E-value=30 Score=33.18 Aligned_cols=38 Identities=34% Similarity=0.672 Sum_probs=27.9
Q ss_pred ccccCCcCcccchhHHHHHHHhcCC--------CcccccccCCceeeee
Q 041664 95 PCHCRGTQKYVHRSCLDHWRSTKEG--------FAFAHCTECRAMFILR 135 (268)
Q Consensus 95 PC~CkGs~k~VH~~CL~~Wi~~s~~--------~~~~~Ce~Ck~~y~~~ 135 (268)
-|-|+ -.--.+||.+|+..++. .....|+.|+..|-+.
T Consensus 322 nc~cr---p~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 322 NCICR---PLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred ccccc---cHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 34564 24567999999977643 2468999999999874
No 121
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.37 E-value=26 Score=25.60 Aligned_cols=42 Identities=24% Similarity=0.609 Sum_probs=27.1
Q ss_pred CceEEeccCCCCccc----cccccCCcCcccchhHH-HHHHHhcCCCcccccccCCceee
Q 041664 79 PQCRICLDIGGEDLI----APCHCRGTQKYVHRSCL-DHWRSTKEGFAFAHCTECRAMFI 133 (268)
Q Consensus 79 ~~CRIC~~~~~~~li----~PC~CkGs~k~VH~~CL-~~Wi~~s~~~~~~~Ce~Ck~~y~ 133 (268)
+.|-||++..-+..+ +-|.| -.|- ..|.... ..||+|+.+.+
T Consensus 8 dECTICye~pvdsVlYtCGHMCmC--------y~Cg~rl~~~~~-----g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMC--------YACGLRLKKALH-----GCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhH--------HHHHHHHHHccC-----CcCcchhhHHH
Confidence 789999997666554 34444 2454 3444332 59999998753
No 122
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=32.62 E-value=1.3e+02 Score=27.73 Aligned_cols=18 Identities=22% Similarity=0.602 Sum_probs=9.9
Q ss_pred HHHHHHHHHHH-HHHHHHH
Q 041664 196 FYIMAVLAIIL-VGVLYGF 213 (268)
Q Consensus 196 f~~l~vL~ii~-vgLll~~ 213 (268)
+|+..++|-++ +|++.+.
T Consensus 202 wyi~Y~vPY~~~ig~~i~l 220 (230)
T PF03904_consen 202 WYIAYLVPYIFAIGLFIYL 220 (230)
T ss_pred HHHHHhhHHHHHHHHHHHH
Confidence 45556677665 5554433
No 123
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=31.78 E-value=35 Score=24.70 Aligned_cols=47 Identities=19% Similarity=0.621 Sum_probs=31.9
Q ss_pred CCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeee
Q 041664 76 DDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFIL 134 (268)
Q Consensus 76 ~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~ 134 (268)
..+..|..|-.......+.||. ++|=..|. =.++ ..-|++|+.+|..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~pCg-----H~I~~~~f---~~~r----YngCPfC~~~~~~ 51 (55)
T PF14447_consen 5 QPEQPCVFCGFVGTKGTVLPCG-----HLICDNCF---PGER----YNGCPFCGTPFEF 51 (55)
T ss_pred ccceeEEEcccccccccccccc-----ceeecccc---Chhh----ccCCCCCCCcccC
Confidence 3456777886665567889984 56655554 3333 3689999999864
No 124
>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=31.70 E-value=54 Score=28.59 Aligned_cols=12 Identities=25% Similarity=0.288 Sum_probs=7.0
Q ss_pred hhccccceeecc
Q 041664 234 QELTKEYVVEDR 245 (268)
Q Consensus 234 ~~l~~e~~~~d~ 245 (268)
+.-+|.|.|.+-
T Consensus 123 ~rktRkYgvl~~ 134 (163)
T PF06679_consen 123 NRKTRKYGVLTT 134 (163)
T ss_pred cccceeecccCC
Confidence 344667776663
No 125
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.80 E-value=19 Score=36.63 Aligned_cols=48 Identities=27% Similarity=0.647 Sum_probs=36.3
Q ss_pred CCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeeee
Q 041664 75 NDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILRT 136 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~~ 136 (268)
.+..+.|+||+.+- ..-+.||. |..||..|...+. .|++|+.......
T Consensus 476 ~~~~~~~~~~~~~~-~~~~~~~~--------~~~~l~~~~~~~~-----~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 476 REPNDVCAICYQEM-SARITPCS--------HALCLRKWLYVQE-----VCPLCHTYMKEDD 523 (543)
T ss_pred hcccCcchHHHHHH-Hhcccccc--------chhHHHhhhhhcc-----ccCCCchhhhccc
Confidence 34568999998865 22345654 9999999998875 8999988876654
No 126
>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=29.82 E-value=66 Score=25.12 Aligned_cols=57 Identities=18% Similarity=0.260 Sum_probs=29.4
Q ss_pred ccccccCCceeeeeeecCCCchhhhccceee-eeccchhhHHHHHHHHHHHHHHHHHhh
Q 041664 122 FAHCTECRAMFILRTNCPPDRWWLRLKFQFL-VARDHTFIFVIVQLIVALLGVLVYKFY 179 (268)
Q Consensus 122 ~~~Ce~Ck~~y~~~~~~~p~~~w~~l~~~~l-v~r~~~~if~~v~~vv~~ig~~vy~~y 179 (268)
...|+.|+++-..... -|...|..++-+=- -.......+.++-++.+++.+++++.|
T Consensus 33 rS~C~~C~~~L~~~~l-IPi~S~l~lrGrCr~C~~~I~~~y~l~El~~~~l~~~~~~~f 90 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDL-IPILSYLLLRGRCRYCGAPIPPRYPLIELLTGILFLLLYWRF 90 (92)
T ss_pred CCcCcCCCCcCccccc-chHHHHHHhCCCCcccCCCCChHHHHHHHHHHHHHHHHHHHh
Confidence 5899999998876443 34444554433211 111223444444444555555555433
No 127
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.69 E-value=13 Score=35.28 Aligned_cols=53 Identities=19% Similarity=0.478 Sum_probs=36.1
Q ss_pred CCCceEEeccC----C-CCcc---ccccccCCcCcccchhHHHHHHHhcCCCcccccccCCceeeee
Q 041664 77 DQPQCRICLDI----G-GEDL---IAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAHCTECRAMFILR 135 (268)
Q Consensus 77 ~~~~CRIC~~~----~-~~~l---i~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~Ce~Ck~~y~~~ 135 (268)
+...|-+|-.. . +|.+ +.-=.| .+-.|+-|..-|--.-. ...||-||.+-..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsC---nHvFHEfCIrGWcivGK---kqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSC---NHVFHEFCIRGWCIVGK---KQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeec---ccchHHHhhhhheeecC---CCCCchHHHHhhHh
Confidence 56789999653 1 1212 234445 58899999999975432 36999999987654
No 128
>KOG2257 consensus N-acetylglucosaminyltransferase complex, subunit PIG-P, required for phosphatidylinositol biosynthesis [Function unknown]
Probab=29.61 E-value=2.9e+02 Score=23.47 Aligned_cols=39 Identities=23% Similarity=0.423 Sum_probs=20.3
Q ss_pred HHHHhhhHHHHHHhccCCchhHHHHHHHHHHHHHHHHHH
Q 041664 174 LVYKFYGEELREIFGYEEHPYAFYIMAVLAIILVGVLYG 212 (268)
Q Consensus 174 ~vy~~yg~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~ 212 (268)
++|.+--+.+-+.+|..-.|.-.|+++.=...+++++++
T Consensus 26 lIWai~P~~~l~~~gi~y~Psk~WalAip~~l~v~~l~~ 64 (135)
T KOG2257|consen 26 LIWAITPVPILESLGITYYPSKYWALAIPTYLLVAVLLA 64 (135)
T ss_pred HHhhcccHHHHhhcCceeehHHHHHHHHHHHHHHHHHHH
Confidence 334333345556777655666667765333344444443
No 129
>COG1422 Predicted membrane protein [Function unknown]
Probab=29.10 E-value=3.8e+02 Score=24.28 Aligned_cols=41 Identities=17% Similarity=0.363 Sum_probs=20.5
Q ss_pred hHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041664 180 GEELREIFGYEEHPYAFYIMAVLAIILVGVLYGFFIAIICG 220 (268)
Q Consensus 180 g~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~~~ 220 (268)
+..+-.++|-.-.|.+|...+.+..+++|++....=+..+.
T Consensus 30 ~~~ln~~f~P~i~~~~p~lvilV~avi~gl~~~i~~~~liD 70 (201)
T COG1422 30 GGALNVVFGPLLSPLPPHLVILVAAVITGLYITILQKLLID 70 (201)
T ss_pred HHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44555566543333344555555556677765544333333
No 130
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=29.02 E-value=71 Score=30.70 Aligned_cols=9 Identities=11% Similarity=0.253 Sum_probs=4.0
Q ss_pred HHHHHHHHh
Q 041664 212 GFFIAIICG 220 (268)
Q Consensus 212 ~~~i~~~~~ 220 (268)
.+++..+.+
T Consensus 59 ~~~~~~~~~ 67 (398)
T PRK10747 59 EWLLRRIFR 67 (398)
T ss_pred HHHHHHHHh
Confidence 344444444
No 131
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=28.91 E-value=1.6e+02 Score=25.03 Aligned_cols=42 Identities=10% Similarity=0.067 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhHhhccccceeecccCCC
Q 041664 208 GVLYGFFIAIICGQRIHERHYHVLAKQELTKEYVVEDREKNK 249 (268)
Q Consensus 208 gLll~~~i~~~~~~r~~~r~y~~l~k~~l~~e~~~~d~~~~~ 249 (268)
+|+++..+..+++..++.-+-++=...|=.++=.|+|..|+.
T Consensus 40 aL~ls~~l~~mig~yl~~~~rr~~~rPED~~daEI~dgAGe~ 81 (137)
T PF12270_consen 40 ALVLSGGLALMIGFYLRFTARRIGPRPEDREDAEIADGAGEL 81 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCccccccccccCCCCc
Confidence 344444444444443333332222223333444555655543
No 132
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=27.98 E-value=1.1e+02 Score=30.89 Aligned_cols=27 Identities=22% Similarity=0.260 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 041664 199 MAVLAIILVGVLYGFFIAIICGQRIHE 225 (268)
Q Consensus 199 l~vL~ii~vgLll~~~i~~~~~~r~~~ 225 (268)
+++-+.+++.++..+++.|-.+..||+
T Consensus 41 lm~Aa~~iva~vaav~llwwlv~~iw~ 67 (531)
T COG3898 41 LMVAASIIVALVAAVLLLWWLVRSIWE 67 (531)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444555555555554444555554
No 133
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=27.85 E-value=3.3e+02 Score=23.87 Aligned_cols=10 Identities=10% Similarity=0.318 Sum_probs=7.1
Q ss_pred hhhhhhhHHH
Q 041664 222 RIHERHYHVL 231 (268)
Q Consensus 222 r~~~r~y~~l 231 (268)
+..+|||||-
T Consensus 195 ~~lkkk~~i~ 204 (206)
T PF06570_consen 195 FYLKKKYNIT 204 (206)
T ss_pred HHHHHHhCCC
Confidence 5667888873
No 134
>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=27.64 E-value=97 Score=21.31 Aligned_cols=25 Identities=28% Similarity=0.481 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-Hhh
Q 041664 197 YIMAVLAIILVGVLYGFFIAII-CGQ 221 (268)
Q Consensus 197 ~~l~vL~ii~vgLll~~~i~~~-~~~ 221 (268)
|.++.+.+++.++.+..|+|.+ -||
T Consensus 4 ~~lip~sl~l~~~~l~~f~Wavk~GQ 29 (45)
T PF03597_consen 4 YILIPVSLILGLIALAAFLWAVKSGQ 29 (45)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 5666666776666677777766 444
No 135
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=27.58 E-value=29 Score=18.88 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=7.1
Q ss_pred ccccCCceeee
Q 041664 124 HCTECRAMFIL 134 (268)
Q Consensus 124 ~Ce~Ck~~y~~ 134 (268)
.|++|+..|.-
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 69999998863
No 136
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=27.07 E-value=2e+02 Score=20.31 Aligned_cols=15 Identities=27% Similarity=0.733 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHH
Q 041664 204 IILVGVLYGFFIAII 218 (268)
Q Consensus 204 ii~vgLll~~~i~~~ 218 (268)
...+|+++|+++.+.
T Consensus 27 ~f~~G~llg~l~~~~ 41 (68)
T PF06305_consen 27 AFLLGALLGWLLSLP 41 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334566666554444
No 137
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=26.77 E-value=1.7e+02 Score=25.34 Aligned_cols=18 Identities=28% Similarity=0.652 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 041664 199 MAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 199 l~vL~ii~vgLll~~~i~ 216 (268)
++.+.+.++|+-||.|-+
T Consensus 104 ~~~Fg~gllGisYGilSa 121 (153)
T PF11947_consen 104 LVFFGLGLLGISYGILSA 121 (153)
T ss_pred HHHHHHHHHhhhhhhccc
Confidence 445566677887876543
No 138
>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=26.77 E-value=1.1e+02 Score=21.73 Aligned_cols=23 Identities=22% Similarity=0.316 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041664 196 FYIMAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 196 f~~l~vL~ii~vgLll~~~i~~~ 218 (268)
.|.++.+.+++.++.+..|+|.+
T Consensus 4 l~~LIpiSl~l~~~~l~~f~Wav 26 (51)
T TIGR00847 4 LTILIPISLLLGGVGLVAFLWSL 26 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666677776666666777766
No 139
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=26.34 E-value=62 Score=23.67 Aligned_cols=26 Identities=35% Similarity=0.543 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-Hhhh
Q 041664 197 YIMAVLAIILVGVLYGFFIAII-CGQR 222 (268)
Q Consensus 197 ~~l~vL~ii~vgLll~~~i~~~-~~~r 222 (268)
++++.++++++++.++.|.|.+ .||.
T Consensus 5 ~~Lipvsi~l~~v~l~~flWavksgQy 31 (58)
T COG3197 5 YILIPVSILLGAVGLGAFLWAVKSGQY 31 (58)
T ss_pred eeHHHHHHHHHHHHHHHHHHhcccCCc
Confidence 5677777777777777787777 6663
No 140
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=26.12 E-value=3.6e+02 Score=24.78 Aligned_cols=16 Identities=25% Similarity=0.461 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhhh
Q 041664 207 VGVLYGFFIAIICGQR 222 (268)
Q Consensus 207 vgLll~~~i~~~~~~r 222 (268)
+.+++|++.+.+.+++
T Consensus 67 li~l~G~l~~~~ig~~ 82 (222)
T COG2928 67 LIFLLGFLARNMIGRS 82 (222)
T ss_pred HHHHHHHHHHHHhhhH
Confidence 3446777777777764
No 141
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=25.48 E-value=1.6e+02 Score=27.63 Aligned_cols=25 Identities=32% Similarity=0.695 Sum_probs=15.7
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHH
Q 041664 190 EEHPYAFYIMAVLAIILVGVLYGFF 214 (268)
Q Consensus 190 ~~~p~~f~~l~vL~ii~vgLll~~~ 214 (268)
.+||+++|..+++.+++.++++.+|
T Consensus 292 l~~~~Gy~~~l~~m~~~~~~~~~~f 316 (322)
T COG0598 292 LDWPYGYPIALILMLLLALLLYLYF 316 (322)
T ss_pred CCCcccHHHHHHHHHHHHHHHHHHH
Confidence 4577777777666666555544443
No 142
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=25.23 E-value=74 Score=22.51 Aligned_cols=19 Identities=26% Similarity=0.392 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 041664 200 AVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 200 ~vL~ii~vgLll~~~i~~~ 218 (268)
++++++++..++|..|..+
T Consensus 5 ~iV~i~iv~~lLg~~I~~~ 23 (50)
T PF12606_consen 5 LIVSIFIVMGLLGLSICTT 23 (50)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455555566666665544
No 143
>PRK00523 hypothetical protein; Provisional
Probab=25.16 E-value=1.6e+02 Score=22.38 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 041664 197 YIMAVLAIILVGVLYGFFIAIICGQRIHER 226 (268)
Q Consensus 197 ~~l~vL~ii~vgLll~~~i~~~~~~r~~~r 226 (268)
|+.+.+.+++++|+.|.++-+....+.+++
T Consensus 3 ~~~l~I~l~i~~li~G~~~Gffiark~~~k 32 (72)
T PRK00523 3 AIGLALGLGIPLLIVGGIIGYFVSKKMFKK 32 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455556666677777777666655554444
No 144
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=25.03 E-value=71 Score=23.76 Aligned_cols=13 Identities=54% Similarity=1.060 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHH
Q 041664 205 ILVGVLYGFFIAI 217 (268)
Q Consensus 205 i~vgLll~~~i~~ 217 (268)
+++|++.|+|++.
T Consensus 7 li~G~~~Gff~ar 19 (64)
T PF03672_consen 7 LIVGAVIGFFIAR 19 (64)
T ss_pred HHHHHHHHHHHHH
Confidence 3467777777654
No 145
>PRK11677 hypothetical protein; Provisional
Probab=24.86 E-value=87 Score=26.43 Aligned_cols=13 Identities=23% Similarity=0.475 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHH
Q 041664 206 LVGVLYGFFIAII 218 (268)
Q Consensus 206 ~vgLll~~~i~~~ 218 (268)
++|+++|+++...
T Consensus 11 ivG~iiG~~~~R~ 23 (134)
T PRK11677 11 VVGIIIGAVAMRF 23 (134)
T ss_pred HHHHHHHHHHHhh
Confidence 3566677666655
No 146
>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=24.66 E-value=29 Score=24.11 Aligned_cols=30 Identities=13% Similarity=0.383 Sum_probs=12.6
Q ss_pred CcccchhHH--HHHHHhcCCCcccccccCCce
Q 041664 102 QKYVHRSCL--DHWRSTKEGFAFAHCTECRAM 131 (268)
Q Consensus 102 ~k~VH~~CL--~~Wi~~s~~~~~~~Ce~Ck~~ 131 (268)
..-.|-.|+ +.|+..........|++|+.+
T Consensus 19 ~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 19 KNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp TT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred CcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 455788885 567766443335899999863
No 147
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=24.10 E-value=36 Score=36.20 Aligned_cols=57 Identities=19% Similarity=0.402 Sum_probs=37.7
Q ss_pred CCCceEEeccCCC-Cc----cccccccCCcCcccchhHHHHHH---HhcCC--CcccccccCCceee
Q 041664 77 DQPQCRICLDIGG-ED----LIAPCHCRGTQKYVHRSCLDHWR---STKEG--FAFAHCTECRAMFI 133 (268)
Q Consensus 77 ~~~~CRIC~~~~~-~~----li~PC~CkGs~k~VH~~CL~~Wi---~~s~~--~~~~~Ce~Ck~~y~ 133 (268)
-.+.|.||.+++. ++ --.-|+=.|-.+.+|-.|.++-= .+.++ .+..+|--|+|.|.
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 3589999988642 21 23455545556789999987641 12212 24689999999996
No 148
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=23.86 E-value=2.6e+02 Score=25.82 Aligned_cols=31 Identities=10% Similarity=0.045 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHhHhhccccc
Q 041664 208 GVLYGFFIAIICGQRIHERHYHVLAKQELTKEY 240 (268)
Q Consensus 208 gLll~~~i~~~~~~r~~~r~y~~l~k~~l~~e~ 240 (268)
++++.|+|.+++.--+...+++++ .||+-+.
T Consensus 163 ~laivRlilF~i~~~~~g~~fWlf--PNLfeD~ 193 (232)
T TIGR00869 163 AVAILRLILFVLTLIVVKPGIWIF--PNLFADV 193 (232)
T ss_pred HHHHHHHHHHHHHHHHhCCCeeee--cchhccc
Confidence 344444444443333333455554 6777443
No 149
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=23.82 E-value=39 Score=21.88 Aligned_cols=15 Identities=20% Similarity=0.693 Sum_probs=12.8
Q ss_pred cccccCCceeeeeee
Q 041664 123 AHCTECRAMFILRTN 137 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~~~ 137 (268)
..|+-|++.|.+...
T Consensus 3 i~Cp~C~~~y~i~d~ 17 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDE 17 (36)
T ss_pred EECCCCCCEEeCCHH
Confidence 589999999998654
No 150
>PRK05415 hypothetical protein; Provisional
Probab=23.26 E-value=6.5e+02 Score=24.50 Aligned_cols=14 Identities=14% Similarity=0.043 Sum_probs=6.3
Q ss_pred chhHHHHHHHHHHH
Q 041664 192 HPYAFYIMAVLAII 205 (268)
Q Consensus 192 ~p~~f~~l~vL~ii 205 (268)
+||..|...++..+
T Consensus 96 ~~wlg~~~~~~~~~ 109 (341)
T PRK05415 96 SDWLGLGAAVVGAL 109 (341)
T ss_pred CcHHHHHHHHHHHH
Confidence 45544544444333
No 151
>PRK09546 zntB zinc transporter; Reviewed
Probab=23.24 E-value=1.3e+02 Score=28.04 Aligned_cols=19 Identities=32% Similarity=0.815 Sum_probs=11.4
Q ss_pred CCchhHHHHHHHHHHHHHH
Q 041664 190 EEHPYAFYIMAVLAIILVG 208 (268)
Q Consensus 190 ~~~p~~f~~l~vL~ii~vg 208 (268)
.+||++||+.+++.+++++
T Consensus 294 l~~~~gy~~~l~im~~i~~ 312 (324)
T PRK09546 294 GGWPFGFSIFCLLLVVLIG 312 (324)
T ss_pred cCCcchHHHHHHHHHHHHH
Confidence 4577877766555544433
No 152
>PLN02806 complex I subunit
Probab=23.07 E-value=3.7e+02 Score=20.94 Aligned_cols=74 Identities=19% Similarity=0.280 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHhhhHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhhhhhHHHhHhhccccceeecc
Q 041664 167 IVALLGVLVYKFYGEELREIFGYEEHPYAFYIMAVLAIILVGVLYGFFIAIICGQR-IHERHYHVLAKQELTKEYVVEDR 245 (268)
Q Consensus 167 vv~~ig~~vy~~yg~elr~~~G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~~~~r-~~~r~y~~l~k~~l~~e~~~~d~ 245 (268)
+++++..+--.+|...+|. .-+..|||--.+..++... +.-.++-|-...+ .-.+...- .++..+++|+-+|+
T Consensus 7 ~~GA~lGlg~qlysNalRK-LP~mrhPWeHV~~~G~GA~----~~n~l~~we~kL~edldk~L~~-~r~an~~ry~~~~~ 80 (81)
T PLN02806 7 VVGALLGLGTQLYSNALRK-LPLMRHPWEHVLAMGLGAV----FANQLVKWEVKLKEDLDKMLAK-ARAANNARYMDEDR 80 (81)
T ss_pred HHHHHHHHHHHHHHhHHhh-CccccCcHHHHHHHhhHHH----HHHHHHHHHHHHHHHHHHHHHH-HHHHHhhhhhhhcc
Confidence 4455444445566667765 3456688744333333322 2234455554432 22232322 36778888887776
Q ss_pred c
Q 041664 246 E 246 (268)
Q Consensus 246 ~ 246 (268)
+
T Consensus 81 ~ 81 (81)
T PLN02806 81 D 81 (81)
T ss_pred C
Confidence 4
No 153
>PF04532 DUF587: Protein of unknown function (DUF587); InterPro: IPR007618 This domain is found at the N-termini of some human herpesvirus U58 proteins, and some cytomegalovirus UL87 proteins. This region is always found N-terminal to the UL87 (IPR004285 from INTERPRO), which has no known function.
Probab=22.92 E-value=43 Score=30.34 Aligned_cols=31 Identities=26% Similarity=0.334 Sum_probs=22.4
Q ss_pred ccccccCCcCcccchhHHHHHHHhcCCCcccc-cccCCceeeee
Q 041664 93 IAPCHCRGTQKYVHRSCLDHWRSTKEGFAFAH-CTECRAMFILR 135 (268)
Q Consensus 93 i~PC~CkGs~k~VH~~CL~~Wi~~s~~~~~~~-Ce~Ck~~y~~~ 135 (268)
-.++.|.|.+-|||+++- .+ ++.+...|.+-
T Consensus 106 ~~~~~C~GP~LYVhr~rC------------rC~~~~~~~~ftvm 137 (215)
T PF04532_consen 106 ECAYFCRGPLLYVHRKRC------------RCGPEGRALAFTVM 137 (215)
T ss_pred hCCcccCCceEEEEccce------------eecCCCCeeEEEEe
Confidence 589999999999999431 23 46677777653
No 154
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.76 E-value=2.2e+02 Score=23.52 Aligned_cols=8 Identities=25% Similarity=0.443 Sum_probs=4.0
Q ss_pred HHHHHHHH
Q 041664 207 VGVLYGFF 214 (268)
Q Consensus 207 vgLll~~~ 214 (268)
+|+..|++
T Consensus 83 lGf~AG~l 90 (116)
T COG5336 83 LGFGAGVL 90 (116)
T ss_pred HHHHHHHH
Confidence 35555544
No 155
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=22.74 E-value=1.2e+02 Score=22.22 Aligned_cols=10 Identities=20% Similarity=0.487 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 041664 201 VLAIILVGVL 210 (268)
Q Consensus 201 vL~ii~vgLl 210 (268)
..|++.||++
T Consensus 31 l~PilsV~~V 40 (62)
T COG4459 31 LFPILSVAFV 40 (62)
T ss_pred HHHHHHHHHh
Confidence 3344444444
No 156
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=22.73 E-value=89 Score=34.03 Aligned_cols=58 Identities=19% Similarity=0.513 Sum_probs=40.4
Q ss_pred CCCCCCceEEeccCCC-CccccccccCCcCcccchhHHHHHHHhcC--CCcccccccCCceee
Q 041664 74 VNDDQPQCRICLDIGG-EDLIAPCHCRGTQKYVHRSCLDHWRSTKE--GFAFAHCTECRAMFI 133 (268)
Q Consensus 74 ~~~~~~~CRIC~~~~~-~~li~PC~CkGs~k~VH~~CL~~Wi~~s~--~~~~~~Ce~Ck~~y~ 133 (268)
+.++.-.|-||.+.-+ ..-+=- |+.--+.+|-.|+.+|-.+++ +.+.+.|+-|++.+.
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WS--C~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWS--CKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred HhcCceEEEEeeeeccccCCcee--cchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 4566789999998622 111111 222267899999999987653 336799999998887
No 157
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=22.68 E-value=26 Score=35.33 Aligned_cols=52 Identities=21% Similarity=0.485 Sum_probs=39.4
Q ss_pred CceEEeccCC---CCccccccccCCcCcccchhHHHHHHHhc---CCCcccccccCCceee
Q 041664 79 PQCRICLDIG---GEDLIAPCHCRGTQKYVHRSCLDHWRSTK---EGFAFAHCTECRAMFI 133 (268)
Q Consensus 79 ~~CRIC~~~~---~~~li~PC~CkGs~k~VH~~CL~~Wi~~s---~~~~~~~Ce~Ck~~y~ 133 (268)
..|-.|++.. .+.++.-|+| ..|.|+.|-+--++-. +.+....|..|...=.
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C---~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKC---RQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred ceeeeeecCCcCccceeeeeccc---ccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 4599999863 4678999999 5899999987776442 2345789999987644
No 158
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=22.48 E-value=35 Score=18.98 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=9.2
Q ss_pred ccccCCceeee
Q 041664 124 HCTECRAMFIL 134 (268)
Q Consensus 124 ~Ce~Ck~~y~~ 134 (268)
.|+.|+..|.-
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 69999999964
No 159
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=21.61 E-value=47 Score=21.56 Aligned_cols=14 Identities=21% Similarity=0.686 Sum_probs=12.3
Q ss_pred cccccCCceeeeee
Q 041664 123 AHCTECRAMFILRT 136 (268)
Q Consensus 123 ~~Ce~Ck~~y~~~~ 136 (268)
..||-|++.|.+..
T Consensus 3 i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD 16 (37)
T ss_pred EECCCCCceEEcCH
Confidence 58999999999865
No 160
>PF15052 TMEM169: TMEM169 protein family
Probab=21.58 E-value=2.9e+02 Score=23.34 Aligned_cols=40 Identities=10% Similarity=-0.020 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHhHhhccccc
Q 041664 201 VLAIILVGVLYGFFIAIICGQRIHERHYHVLAKQELTKEY 240 (268)
Q Consensus 201 vL~ii~vgLll~~~i~~~~~~r~~~r~y~~l~k~~l~~e~ 240 (268)
..|++++...+|.-++.-+.|--|.-.-+.-.-++++|-+
T Consensus 69 ~YP~lIv~~t~~LglYaa~~QlSw~~~~W~~~v~D~EKGF 108 (133)
T PF15052_consen 69 FYPFLIVLVTLSLGLYAAFVQLSWSFGSWWNEVRDFEKGF 108 (133)
T ss_pred HHHHHHHHHHHHHHHHHHhhheeeeHHHHHHHhhHhhcch
Confidence 3455555555555556666676555544444555555543
No 161
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=21.56 E-value=1.2e+02 Score=29.15 Aligned_cols=6 Identities=0% Similarity=-0.042 Sum_probs=2.2
Q ss_pred HHHHHH
Q 041664 213 FFIAII 218 (268)
Q Consensus 213 ~~i~~~ 218 (268)
+++..+
T Consensus 60 ~l~~~~ 65 (409)
T TIGR00540 60 WGLRRF 65 (409)
T ss_pred HHHHHH
Confidence 333333
No 162
>PHA03231 glycoprotein BALF4; Provisional
Probab=21.53 E-value=3.1e+02 Score=29.90 Aligned_cols=18 Identities=6% Similarity=0.274 Sum_probs=11.1
Q ss_pred HHHHHHhccCCchhHHHH
Q 041664 181 EELREIFGYEEHPYAFYI 198 (268)
Q Consensus 181 ~elr~~~G~~~~p~~f~~ 198 (268)
..+-.+.+|..+|.+=++
T Consensus 691 SiVsG~~sFl~NPFGg~~ 708 (829)
T PHA03231 691 SIVSGVISFLKNPFGGLA 708 (829)
T ss_pred HHHHHHHHHhcCchHHHH
Confidence 345566778888864333
No 163
>COG4420 Predicted membrane protein [Function unknown]
Probab=21.21 E-value=3.3e+02 Score=24.45 Aligned_cols=17 Identities=29% Similarity=0.257 Sum_probs=9.3
Q ss_pred hhHHHhHhhccccceee
Q 041664 227 HYHVLAKQELTKEYVVE 243 (268)
Q Consensus 227 ~y~~l~k~~l~~e~~~~ 243 (268)
.|.+-.|.++..++..+
T Consensus 125 d~qvnlkaE~e~~~l~~ 141 (191)
T COG4420 125 DYQVNLKAEQEVAALHE 141 (191)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56555565555555443
No 164
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=21.02 E-value=1.9e+02 Score=24.55 Aligned_cols=34 Identities=12% Similarity=0.034 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhH
Q 041664 196 FYIMAVLAIILVGVLYGFFIAIICGQRIHERHYH 229 (268)
Q Consensus 196 f~~l~vL~ii~vgLll~~~i~~~~~~r~~~r~y~ 229 (268)
||.++.+.+++..|++.+|.|--+..-+-.|.=.
T Consensus 12 ~w~~i~f~il~~iL~~~k~l~~pi~~~le~R~~~ 45 (167)
T PRK14475 12 FWVGAGLLIFFGILIALKVLPKALAGALDAYAAK 45 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 6766666555544444455444444444444333
No 165
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=20.96 E-value=1.1e+02 Score=26.86 Aligned_cols=21 Identities=19% Similarity=0.532 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 041664 198 IMAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 198 ~l~vL~ii~vgLll~~~i~~~ 218 (268)
+++++..+++|+++||++...
T Consensus 3 ii~~i~~~~vG~~~G~~~~~~ 23 (201)
T PF12072_consen 3 IIIAIVALIVGIGIGYLVRKK 23 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444455556677777666444
No 166
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=20.95 E-value=89 Score=36.60 Aligned_cols=57 Identities=21% Similarity=0.422 Sum_probs=40.1
Q ss_pred CCCCCceEEeccCCCCccccccccCCcCcccchhHHHHHHHhc--C---CCcccccccCCceee
Q 041664 75 NDDQPQCRICLDIGGEDLIAPCHCRGTQKYVHRSCLDHWRSTK--E---GFAFAHCTECRAMFI 133 (268)
Q Consensus 75 ~~~~~~CRIC~~~~~~~li~PC~CkGs~k~VH~~CL~~Wi~~s--~---~~~~~~Ce~Ck~~y~ 133 (268)
....++|-||+.+.-. -.||---|-.+..|-.|..+=+..+ + .+.+..|++|+.+..
T Consensus 3483 QD~DDmCmICFTE~L~--AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALS--AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhC--CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456899999976211 2566544557899999998766554 1 236889999999875
No 167
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=20.67 E-value=97 Score=25.22 Aligned_cols=23 Identities=30% Similarity=0.598 Sum_probs=13.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHH
Q 041664 190 EEHPYAFYIMAVLAIILVGVLYGFFIA 216 (268)
Q Consensus 190 ~~~p~~f~~l~vL~ii~vgLll~~~i~ 216 (268)
.++| |--++++.. +||++|+++.
T Consensus 80 ~e~P---Wq~VGvaAa-VGlllGlLls 102 (104)
T COG4575 80 RENP---WQGVGVAAA-VGLLLGLLLS 102 (104)
T ss_pred HcCC---chHHHHHHH-HHHHHHHHHh
Confidence 3578 455555444 6777777653
No 168
>COG3952 Predicted membrane protein [Function unknown]
Probab=20.59 E-value=4.3e+02 Score=21.76 Aligned_cols=43 Identities=26% Similarity=0.462 Sum_probs=23.1
Q ss_pred ccCCchhHHHHHHHHHHHHHHHHHHHHHHHH---------HhhhhhhhhhHHHhH
Q 041664 188 GYEEHPYAFYIMAVLAIILVGVLYGFFIAII---------CGQRIHERHYHVLAK 233 (268)
Q Consensus 188 G~~~~p~~f~~l~vL~ii~vgLll~~~i~~~---------~~~r~~~r~y~~l~k 233 (268)
+-+.-|.+||.+-+|.-. +++++||+.. |+.-+.-|..+...|
T Consensus 52 ~rsv~P~~FW~~sllGg~---l~L~Yfi~~~DpV~Vl~~~~glF~~l~nL~L~~k 103 (113)
T COG3952 52 NRSVIPVLFWYFSLLGGL---LLLSYFIRRQDPVFVLGQACGLFIYLRNLWLIIK 103 (113)
T ss_pred CCCcchHHHHHHHHHhhH---HHHHHHHHhcchHHHHHHhhhHHHHHHHHHHHHH
Confidence 444458889987655433 3345555533 333445555555433
No 169
>PF06298 PsbY: Photosystem II protein Y (PsbY); InterPro: IPR009388 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbY found in PSII. In higher plants, two related PsbY proteins exist, PsbY-1 and PsbY-2, which appear to function as a heterodimer. In spinach and Arabidopsis, these two proteins arise from a single-copy nuclear gene that is processed in the chloroplast. By contrast, prokaryotic and organellar chromosomes encode a single PsbY protein, as found in cyanobacteria and red algae, indicating a duplication event in the evolution of higher plants []. PsbY has two low manganese-dependent activities: a catalase-like activity and an L-arginine metabolising activity that converts L-arginine into ornithine and urea []. In addition, a redox-active group is thought to be present in the protein. In cyanobacteria, PsbY deletion mutants have a slightly impaired PSII that is less capable of coping with low levels of calcium ions than the wild-type.; GO: 0030145 manganese ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane
Probab=20.36 E-value=2.6e+02 Score=18.57 Aligned_cols=25 Identities=12% Similarity=0.309 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHH
Q 041664 162 VIVQLIVALLGVLVYKFYGEELREI 186 (268)
Q Consensus 162 ~~v~~vv~~ig~~vy~~yg~elr~~ 186 (268)
.++..++.++|+.+|+.....++|.
T Consensus 7 iVl~Pil~A~gWa~fNIg~~Al~Q~ 31 (36)
T PF06298_consen 7 IVLLPILPAAGWALFNIGRAALNQL 31 (36)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3444567788888888765566553
No 170
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=20.24 E-value=4e+02 Score=20.90 Aligned_cols=20 Identities=20% Similarity=0.316 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 041664 199 MAVLAIILVGVLYGFFIAII 218 (268)
Q Consensus 199 l~vL~ii~vgLll~~~i~~~ 218 (268)
+.++..++|.++|+.+|+.+
T Consensus 13 L~vlGmg~VflfL~iLi~~~ 32 (84)
T COG3630 13 LMVLGMGFVFLFLSILIYAM 32 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34566666777777777766
No 171
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=20.22 E-value=46 Score=24.33 Aligned_cols=22 Identities=36% Similarity=0.862 Sum_probs=14.8
Q ss_pred ccCCcCcc------cchhHHHHHHHhcC
Q 041664 97 HCRGTQKY------VHRSCLDHWRSTKE 118 (268)
Q Consensus 97 ~CkGs~k~------VH~~CL~~Wi~~s~ 118 (268)
.|+|.++. |++.|..+|++.+.
T Consensus 23 nc~~~~RAaarkf~V~r~~Vr~W~kqe~ 50 (58)
T PF09607_consen 23 NCKGNQRAAARKFNVSRRQVRKWRKQEE 50 (58)
T ss_dssp TTTT-HHHHHHHTTS-HHHHHHHHTTHH
T ss_pred chhhhHHHHHHHhCccHHHHHHHHHHHH
Confidence 46655554 89999999997653
No 172
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.20 E-value=1.8e+02 Score=24.77 Aligned_cols=22 Identities=27% Similarity=0.643 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041664 197 YIMAVLAIILVGVLYGFFIAIIC 219 (268)
Q Consensus 197 ~~l~vL~ii~vgLll~~~i~~~~ 219 (268)
|..++++++ ||+++|++|+...
T Consensus 8 W~~a~igLv-vGi~IG~li~Rlt 29 (138)
T COG3105 8 WEYALIGLV-VGIIIGALIARLT 29 (138)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHc
Confidence 444444433 6888888777653
No 173
>PRK13240 pbsY photosystem II protein Y; Reviewed
Probab=20.19 E-value=2.7e+02 Score=18.89 Aligned_cols=24 Identities=17% Similarity=0.268 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHH
Q 041664 162 VIVQLIVALLGVLVYKFYGEELRE 185 (268)
Q Consensus 162 ~~v~~vv~~ig~~vy~~yg~elr~ 185 (268)
+++..++.+++|.+|++-...++|
T Consensus 7 iVl~Pil~A~~Wa~fNIg~~Al~Q 30 (40)
T PRK13240 7 IVLAPILAAAGWAVFNIGKAAREQ 30 (40)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHH
Confidence 334456677888888876555554
No 174
>PF06638 Strabismus: Strabismus protein; InterPro: IPR009539 This family consists of several strabismus (STB) or Van Gogh-like (VANGL) proteins 1 and 2. The exact function of this family is unknown. It is thought, however that STB1 gene and STB2 may be potent tumour suppressor gene candidates [].; GO: 0007275 multicellular organismal development, 0016021 integral to membrane
Probab=20.15 E-value=2.9e+02 Score=28.35 Aligned_cols=23 Identities=35% Similarity=0.756 Sum_probs=12.0
Q ss_pred hhhHHHHHHHHHHHHHHHHH-hhh
Q 041664 158 TFIFVIVQLIVALLGVLVYK-FYG 180 (268)
Q Consensus 158 ~~if~~v~~vv~~ig~~vy~-~yg 180 (268)
.++|-++.++++++..+.|| ||+
T Consensus 163 if~fRa~ll~Lvfl~~~syWLFY~ 186 (505)
T PF06638_consen 163 IFVFRALLLVLVFLFLFSYWLFYG 186 (505)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455554455555555555 675
Done!