Query psy6056
Match_columns 153
No_of_seqs 181 out of 1420
Neff 7.5
Searched_HMMs 46136
Date Sat Aug 17 01:23:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6056hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03208 E3 ubiquitin-protein 99.5 3.7E-14 7.9E-19 108.0 7.4 62 35-97 8-80 (193)
2 KOG0317|consensus 99.5 1.4E-14 3E-19 115.4 3.9 58 34-97 228-285 (293)
3 KOG0823|consensus 99.5 6.4E-14 1.4E-18 108.6 6.9 77 42-121 44-126 (230)
4 PF13639 zf-RING_2: Ring finge 99.4 3E-13 6.5E-18 80.0 1.9 41 47-92 2-44 (44)
5 PF13923 zf-C3HC4_2: Zinc fing 99.3 5.6E-13 1.2E-17 76.9 2.2 39 48-91 1-39 (39)
6 PHA02929 N1R/p28-like protein; 99.3 7.8E-13 1.7E-17 104.2 3.7 53 43-100 172-231 (238)
7 PF15227 zf-C3HC4_4: zinc fing 99.3 8.5E-13 1.8E-17 77.5 2.3 42 48-91 1-42 (42)
8 PHA02926 zinc finger-like prot 99.3 2.8E-12 6.2E-17 99.2 3.8 58 41-98 166-232 (242)
9 PF13920 zf-C3HC4_3: Zinc fing 99.2 3E-12 6.6E-17 77.7 2.3 47 45-97 2-49 (50)
10 cd00162 RING RING-finger (Real 99.1 2.9E-11 6.2E-16 70.2 2.9 44 47-94 1-44 (45)
11 PF00097 zf-C3HC4: Zinc finger 99.1 2.5E-11 5.4E-16 70.4 2.4 41 48-91 1-41 (41)
12 PF12678 zf-rbx1: RING-H2 zinc 99.1 2.5E-11 5.3E-16 79.4 2.4 42 46-92 20-73 (73)
13 KOG0320|consensus 99.1 5.4E-11 1.2E-15 89.1 3.3 47 46-97 132-179 (187)
14 smart00504 Ubox Modified RING 99.1 9.9E-11 2.1E-15 73.7 3.6 45 46-96 2-46 (63)
15 KOG2164|consensus 99.0 1.3E-10 2.8E-15 98.9 3.1 52 45-97 186-237 (513)
16 KOG4628|consensus 99.0 3E-10 6.5E-15 93.6 4.1 48 46-97 230-279 (348)
17 TIGR00599 rad18 DNA repair pro 99.0 2.7E-10 5.8E-15 95.7 3.4 51 40-96 21-71 (397)
18 PF14634 zf-RING_5: zinc-RING 98.9 4.9E-10 1.1E-14 66.2 2.0 42 47-93 1-44 (44)
19 COG5574 PEX10 RING-finger-cont 98.8 2E-09 4.4E-14 85.1 3.4 50 43-97 213-263 (271)
20 smart00184 RING Ring finger. E 98.8 2.3E-09 5E-14 59.9 2.6 39 48-91 1-39 (39)
21 PF13445 zf-RING_UBOX: RING-ty 98.8 3.3E-09 7.1E-14 62.5 2.1 39 48-89 1-43 (43)
22 PF12861 zf-Apc11: Anaphase-pr 98.8 7.4E-09 1.6E-13 69.2 3.4 50 45-96 21-82 (85)
23 KOG0287|consensus 98.7 3.7E-09 8.1E-14 86.4 0.8 49 43-97 21-69 (442)
24 COG5243 HRD1 HRD ubiquitin lig 98.7 1E-08 2.2E-13 84.8 3.1 49 42-96 284-345 (491)
25 COG5432 RAD18 RING-finger-cont 98.7 6.4E-09 1.4E-13 83.5 1.3 50 42-97 22-71 (391)
26 COG5540 RING-finger-containing 98.7 6.8E-09 1.5E-13 83.7 1.4 51 41-96 319-372 (374)
27 PF04564 U-box: U-box domain; 98.6 1.2E-08 2.5E-13 66.6 1.9 49 43-97 2-51 (73)
28 KOG0311|consensus 98.6 3E-09 6.4E-14 87.2 -2.4 66 40-113 38-103 (381)
29 KOG0802|consensus 98.6 3.6E-08 7.7E-13 86.3 3.2 49 41-95 287-340 (543)
30 KOG2177|consensus 98.5 2.4E-08 5.3E-13 78.1 1.3 46 42-93 10-55 (386)
31 PF14835 zf-RING_6: zf-RING of 98.5 2.3E-08 5E-13 63.3 0.4 44 45-95 7-50 (65)
32 TIGR00570 cdk7 CDK-activating 98.4 1.3E-07 2.9E-12 77.0 3.1 49 45-97 3-55 (309)
33 KOG4172|consensus 98.4 4.3E-08 9.3E-13 60.0 -0.0 49 46-100 8-58 (62)
34 KOG1039|consensus 98.3 3.4E-07 7.5E-12 75.8 2.8 62 40-101 156-226 (344)
35 COG5194 APC11 Component of SCF 98.3 3.9E-07 8.5E-12 59.9 1.6 31 62-97 52-82 (88)
36 KOG0804|consensus 98.2 5.5E-07 1.2E-11 76.0 2.0 49 41-96 171-222 (493)
37 KOG1493|consensus 98.2 3.3E-07 7.1E-12 59.8 0.2 48 47-96 22-81 (84)
38 KOG2660|consensus 98.2 3.9E-07 8.5E-12 74.3 0.6 51 42-97 12-62 (331)
39 KOG0978|consensus 98.2 6E-07 1.3E-11 79.8 1.1 50 43-97 641-690 (698)
40 KOG0824|consensus 98.1 1.3E-06 2.9E-11 70.5 2.4 49 45-98 7-55 (324)
41 KOG0297|consensus 98.1 1.6E-06 3.5E-11 73.2 2.6 52 41-97 17-68 (391)
42 KOG4159|consensus 98.1 1.6E-06 3.4E-11 73.2 2.3 50 42-97 81-130 (398)
43 KOG4265|consensus 98.1 3.2E-06 7E-11 69.6 3.4 51 43-99 288-339 (349)
44 KOG2879|consensus 98.0 1.8E-05 3.8E-10 63.3 6.0 52 42-96 236-287 (298)
45 PF11793 FANCL_C: FANCL C-term 97.9 2.6E-06 5.6E-11 55.2 0.7 53 45-97 2-67 (70)
46 PF11789 zf-Nse: Zinc-finger o 97.9 5.2E-06 1.1E-10 51.7 1.5 45 43-90 9-53 (57)
47 COG5152 Uncharacterized conser 97.8 6.6E-06 1.4E-10 63.1 1.5 47 45-97 196-242 (259)
48 COG5219 Uncharacterized conser 97.8 7.2E-06 1.6E-10 74.8 1.6 52 43-97 1467-1524(1525)
49 KOG0825|consensus 97.7 6E-06 1.3E-10 74.0 -0.0 48 46-98 124-173 (1134)
50 KOG0828|consensus 97.7 1.3E-05 2.8E-10 68.7 1.8 50 43-96 569-634 (636)
51 KOG4692|consensus 97.7 2.7E-05 5.8E-10 64.5 3.0 56 36-97 413-468 (489)
52 smart00744 RINGv The RING-vari 97.7 3.6E-05 7.9E-10 46.4 2.5 42 47-92 1-49 (49)
53 KOG1813|consensus 97.6 2.3E-05 4.9E-10 63.3 1.8 49 45-99 241-289 (313)
54 KOG2930|consensus 97.6 3.1E-05 6.8E-10 53.4 1.6 44 46-94 47-106 (114)
55 KOG0827|consensus 97.6 3.8E-05 8.3E-10 64.1 2.1 46 46-93 5-53 (465)
56 KOG1785|consensus 97.6 2.8E-05 6.1E-10 65.2 1.3 48 46-97 370-417 (563)
57 KOG1734|consensus 97.5 2.5E-05 5.5E-10 62.4 0.2 52 43-97 222-282 (328)
58 COG5222 Uncharacterized conser 97.4 0.00019 4.1E-09 58.4 4.1 72 3-93 245-318 (427)
59 KOG1571|consensus 97.4 0.00013 2.9E-09 60.3 3.4 50 40-98 300-349 (355)
60 KOG0826|consensus 97.3 0.00014 3.1E-09 59.5 2.7 45 43-92 298-342 (357)
61 KOG1002|consensus 97.2 0.00014 3E-09 63.1 1.4 52 44-96 535-586 (791)
62 KOG1645|consensus 97.1 0.00024 5.2E-09 59.8 2.2 48 44-94 3-54 (463)
63 PF07800 DUF1644: Protein of u 97.1 0.00043 9.4E-09 51.4 3.3 55 44-98 1-93 (162)
64 KOG4739|consensus 97.0 0.00027 5.8E-09 55.6 1.5 45 46-97 4-49 (233)
65 PF14570 zf-RING_4: RING/Ubox 97.0 0.00064 1.4E-08 40.8 2.3 44 48-95 1-47 (48)
66 KOG4275|consensus 96.9 0.00017 3.8E-09 58.3 -0.9 44 45-98 300-344 (350)
67 PHA03096 p28-like protein; Pro 96.8 0.0006 1.3E-08 55.4 1.5 46 46-93 179-231 (284)
68 KOG3039|consensus 96.7 0.00074 1.6E-08 53.6 1.8 49 43-96 219-270 (303)
69 KOG1941|consensus 96.3 0.0014 3.1E-08 55.0 0.8 50 45-97 365-417 (518)
70 COG5236 Uncharacterized conser 96.1 0.0074 1.6E-07 50.2 4.1 63 42-110 58-122 (493)
71 PHA02825 LAP/PHD finger-like p 96.0 0.011 2.4E-07 44.0 4.1 50 43-97 6-60 (162)
72 KOG1001|consensus 95.8 0.003 6.5E-08 56.9 0.7 47 46-97 455-501 (674)
73 KOG4445|consensus 95.8 0.0027 5.9E-08 51.7 0.1 69 44-113 114-202 (368)
74 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.01 2.3E-07 47.5 3.5 50 42-97 110-162 (260)
75 KOG2114|consensus 95.7 0.0022 4.8E-08 58.3 -0.8 44 46-97 841-884 (933)
76 COG5175 MOT2 Transcriptional r 95.4 0.011 2.3E-07 49.1 2.4 50 43-96 12-64 (480)
77 PF02891 zf-MIZ: MIZ/SP-RING z 95.3 0.0062 1.4E-07 36.7 0.5 48 46-94 3-50 (50)
78 PHA02862 5L protein; Provision 95.1 0.019 4.1E-07 42.1 2.7 46 46-96 3-53 (156)
79 KOG0298|consensus 95.0 0.0052 1.1E-07 58.2 -0.6 49 42-95 1150-1198(1394)
80 PF10367 Vps39_2: Vacuolar sor 94.9 0.0078 1.7E-07 41.0 0.3 34 41-74 74-108 (109)
81 PF10272 Tmpp129: Putative tra 94.9 0.03 6.5E-07 46.9 3.6 31 67-97 314-352 (358)
82 KOG3970|consensus 94.9 0.025 5.5E-07 44.5 2.9 54 43-97 48-106 (299)
83 KOG1814|consensus 94.8 0.012 2.7E-07 49.7 1.2 50 43-92 182-236 (445)
84 KOG4185|consensus 94.6 0.023 4.9E-07 45.9 2.1 45 46-95 4-54 (296)
85 PF12906 RINGv: RING-variant d 94.6 0.025 5.4E-07 33.6 1.8 41 48-91 1-47 (47)
86 KOG2932|consensus 94.2 0.015 3.2E-07 47.7 0.3 42 48-96 93-134 (389)
87 PF14447 Prok-RING_4: Prokaryo 94.1 0.024 5.2E-07 34.8 1.0 45 45-97 7-51 (55)
88 KOG1812|consensus 94.0 0.043 9.3E-07 46.5 2.8 47 44-90 145-195 (384)
89 PF05290 Baculo_IE-1: Baculovi 94.0 0.042 9.1E-07 39.8 2.3 51 45-97 80-133 (140)
90 KOG1428|consensus 94.0 0.037 8.1E-07 53.6 2.6 57 41-97 3482-3545(3738)
91 KOG3002|consensus 93.9 0.038 8.2E-07 45.3 2.0 47 43-97 46-92 (299)
92 PF05883 Baculo_RING: Baculovi 93.8 0.017 3.7E-07 41.8 -0.1 35 46-80 27-69 (134)
93 KOG1952|consensus 93.7 0.053 1.2E-06 49.7 2.9 52 45-96 191-247 (950)
94 KOG4367|consensus 93.2 0.05 1.1E-06 46.7 1.8 35 43-78 2-36 (699)
95 KOG3579|consensus 93.0 0.095 2E-06 42.6 3.0 47 42-89 265-315 (352)
96 PF08746 zf-RING-like: RING-li 93.0 0.088 1.9E-06 30.7 2.1 41 48-91 1-43 (43)
97 KOG1940|consensus 92.4 0.085 1.9E-06 42.7 2.0 42 46-93 159-204 (276)
98 KOG1100|consensus 92.2 0.21 4.6E-06 38.8 3.9 40 48-97 161-201 (207)
99 KOG3053|consensus 92.0 0.12 2.6E-06 41.4 2.3 57 41-97 16-83 (293)
100 KOG3039|consensus 91.9 0.11 2.4E-06 41.5 2.1 34 44-78 42-75 (303)
101 KOG2034|consensus 91.9 0.067 1.5E-06 49.2 1.0 36 42-77 814-850 (911)
102 KOG3268|consensus 91.5 0.14 3E-06 39.1 2.2 51 47-97 167-229 (234)
103 KOG3800|consensus 90.9 0.17 3.7E-06 41.1 2.3 46 47-96 2-51 (300)
104 KOG4362|consensus 89.4 0.088 1.9E-06 47.4 -0.6 48 46-96 22-69 (684)
105 KOG3161|consensus 89.1 0.16 3.5E-06 45.5 0.8 40 44-92 10-53 (861)
106 KOG1815|consensus 88.3 0.34 7.4E-06 41.7 2.3 54 43-96 68-126 (444)
107 KOG0825|consensus 87.9 0.52 1.1E-05 43.4 3.2 59 43-101 94-159 (1134)
108 KOG0824|consensus 87.5 0.51 1.1E-05 38.7 2.7 57 41-102 101-157 (324)
109 COG5220 TFB3 Cdk activating ki 86.4 0.22 4.7E-06 39.7 0.0 49 44-96 9-64 (314)
110 PF03854 zf-P11: P-11 zinc fin 86.2 0.32 7E-06 29.0 0.7 36 56-97 11-47 (50)
111 PF07191 zinc-ribbons_6: zinc- 84.4 0.082 1.8E-06 34.1 -2.6 41 46-97 2-42 (70)
112 KOG3899|consensus 84.4 0.55 1.2E-05 38.5 1.5 34 64-97 325-366 (381)
113 KOG2817|consensus 84.2 0.77 1.7E-05 38.9 2.3 51 42-94 331-383 (394)
114 KOG1812|consensus 82.2 0.54 1.2E-05 39.9 0.6 40 46-91 307-351 (384)
115 PF10571 UPF0547: Uncharacteri 77.3 1.6 3.5E-05 22.6 1.2 22 47-68 2-24 (26)
116 PF07975 C1_4: TFIIH C1-like d 76.8 1.4 3E-05 26.7 1.1 26 62-92 25-50 (51)
117 KOG0827|consensus 76.5 0.39 8.5E-06 40.7 -1.9 49 44-97 195-246 (465)
118 smart00064 FYVE Protein presen 75.7 0.99 2.2E-05 28.2 0.2 34 45-78 10-46 (68)
119 KOG2068|consensus 75.6 1.8 3.9E-05 35.9 1.8 47 45-96 249-298 (327)
120 PF14569 zf-UDP: Zinc-binding 73.2 6.5 0.00014 25.9 3.6 51 44-98 8-64 (80)
121 TIGR00622 ssl1 transcription f 72.8 3.8 8.3E-05 28.9 2.6 42 46-92 56-110 (112)
122 PF06844 DUF1244: Protein of u 72.5 2.3 5E-05 27.1 1.3 13 67-79 11-23 (68)
123 KOG4718|consensus 72.2 2.1 4.5E-05 33.5 1.3 43 46-93 182-224 (235)
124 PF04216 FdhE: Protein involve 72.0 0.5 1.1E-05 38.3 -2.3 44 45-93 172-219 (290)
125 PF01363 FYVE: FYVE zinc finge 71.9 1.1 2.5E-05 28.0 -0.2 32 44-75 8-42 (69)
126 smart00647 IBR In Between Ring 71.8 0.74 1.6E-05 28.1 -1.1 15 63-77 45-59 (64)
127 KOG0309|consensus 71.3 2.6 5.7E-05 38.8 1.9 39 47-90 1030-1069(1081)
128 COG5183 SSM4 Protein involved 70.7 7.1 0.00015 36.4 4.4 49 45-97 12-67 (1175)
129 KOG1609|consensus 70.5 3.7 8.1E-05 32.9 2.5 50 45-97 78-135 (323)
130 cd00065 FYVE FYVE domain; Zinc 66.2 4.5 9.8E-05 24.1 1.7 31 46-76 3-36 (57)
131 PF10497 zf-4CXXC_R1: Zinc-fin 65.0 9.3 0.0002 26.4 3.3 31 65-95 37-71 (105)
132 PLN02638 cellulose synthase A 64.2 9.9 0.00022 36.4 4.2 51 43-97 15-71 (1079)
133 PLN02189 cellulose synthase 61.5 10 0.00022 36.2 3.7 51 43-97 32-88 (1040)
134 KOG2979|consensus 61.0 4.7 0.0001 32.4 1.3 46 43-91 174-219 (262)
135 PLN02436 cellulose synthase A 60.2 13 0.00029 35.6 4.2 53 41-97 32-90 (1094)
136 KOG0269|consensus 59.4 19 0.0004 33.4 4.9 39 47-90 781-820 (839)
137 PF09297 zf-NADH-PPase: NADH p 58.7 1.2 2.6E-05 23.9 -1.7 29 65-94 2-30 (32)
138 KOG0801|consensus 58.5 3.6 7.7E-05 31.0 0.2 28 43-70 175-204 (205)
139 PRK03564 formate dehydrogenase 58.3 4 8.8E-05 33.7 0.5 45 44-93 186-234 (309)
140 TIGR01562 FdhE formate dehydro 56.4 4 8.7E-05 33.6 0.2 44 45-93 184-232 (305)
141 PF02318 FYVE_2: FYVE-type zin 55.4 5.8 0.00013 27.8 0.9 45 45-93 54-102 (118)
142 PF14446 Prok-RING_1: Prokaryo 53.7 9.8 0.00021 23.3 1.6 29 45-73 5-36 (54)
143 PF06906 DUF1272: Protein of u 52.3 10 0.00022 23.4 1.5 42 47-95 7-51 (57)
144 PF10146 zf-C4H2: Zinc finger- 51.8 8 0.00017 30.6 1.2 23 68-95 196-218 (230)
145 COG5109 Uncharacterized conser 51.7 9.9 0.00021 31.7 1.8 50 42-93 333-384 (396)
146 PF01485 IBR: IBR domain; Int 51.7 1.6 3.4E-05 26.5 -2.3 30 47-76 20-58 (64)
147 PLN02195 cellulose synthase A 51.5 15 0.00032 35.0 3.0 50 43-96 4-59 (977)
148 PF04423 Rad50_zn_hook: Rad50 51.1 6.2 0.00013 23.7 0.4 12 86-97 21-32 (54)
149 KOG0802|consensus 50.4 11 0.00025 33.2 2.1 45 43-97 477-521 (543)
150 PLN02400 cellulose synthase 49.9 16 0.00035 35.1 3.1 53 41-97 32-90 (1085)
151 KOG4185|consensus 49.4 3.3 7.2E-05 33.3 -1.3 48 43-94 205-265 (296)
152 smart00249 PHD PHD zinc finger 49.3 6.7 0.00014 21.6 0.3 28 47-74 1-30 (47)
153 KOG2066|consensus 49.2 4.7 0.0001 37.2 -0.5 40 41-80 780-825 (846)
154 COG0068 HypF Hydrogenase matur 48.8 14 0.0003 34.0 2.3 55 41-95 97-183 (750)
155 KOG1729|consensus 47.4 7.9 0.00017 31.7 0.6 56 40-95 163-224 (288)
156 PLN02915 cellulose synthase A 46.9 31 0.00066 33.2 4.3 51 43-97 13-69 (1044)
157 KOG1815|consensus 46.7 6.1 0.00013 34.0 -0.2 34 47-80 228-268 (444)
158 PF05605 zf-Di19: Drought indu 45.8 5.4 0.00012 23.9 -0.5 40 45-95 2-41 (54)
159 KOG2169|consensus 45.5 29 0.00063 31.5 3.9 55 41-96 302-356 (636)
160 COG5627 MMS21 DNA repair prote 44.9 9.4 0.0002 30.5 0.7 46 42-90 186-231 (275)
161 KOG4218|consensus 43.7 5.4 0.00012 33.6 -0.9 15 42-56 12-26 (475)
162 COG3492 Uncharacterized protei 43.1 13 0.00027 25.3 1.0 14 67-80 42-55 (104)
163 KOG2231|consensus 43.1 16 0.00036 33.2 2.0 50 47-97 2-53 (669)
164 PF12660 zf-TFIIIC: Putative z 42.5 1.9 4.1E-05 29.5 -3.2 49 46-97 15-67 (99)
165 COG3813 Uncharacterized protei 42.0 16 0.00034 23.8 1.2 25 65-96 28-52 (84)
166 COG4306 Uncharacterized protei 41.5 15 0.00032 26.6 1.2 39 67-113 29-67 (160)
167 PF10083 DUF2321: Uncharacteri 40.7 15 0.00032 27.4 1.1 28 65-100 27-54 (158)
168 KOG3799|consensus 40.0 14 0.0003 27.1 0.8 49 42-95 62-117 (169)
169 PF11809 DUF3330: Domain of un 39.9 17 0.00038 23.2 1.2 37 44-80 10-51 (70)
170 smart00132 LIM Zinc-binding do 39.2 20 0.00043 18.9 1.2 25 48-72 2-27 (39)
171 PF13240 zinc_ribbon_2: zinc-r 38.9 3.6 7.8E-05 20.6 -1.7 7 86-92 14-20 (23)
172 KOG4451|consensus 38.2 16 0.00035 29.0 1.0 23 68-95 251-273 (286)
173 KOG1814|consensus 37.3 15 0.00032 31.6 0.7 34 43-76 366-404 (445)
174 KOG2807|consensus 35.4 24 0.00051 29.6 1.6 11 86-96 346-356 (378)
175 KOG1356|consensus 35.2 8.2 0.00018 35.9 -1.2 50 44-93 228-279 (889)
176 KOG3005|consensus 33.1 42 0.00091 27.3 2.6 50 46-95 183-242 (276)
177 COG2816 NPY1 NTP pyrophosphohy 30.0 12 0.00025 30.6 -1.0 33 64-97 109-141 (279)
178 KOG1829|consensus 29.9 16 0.00035 32.8 -0.2 21 63-91 536-556 (580)
179 PF00628 PHD: PHD-finger; Int 29.7 21 0.00045 20.6 0.3 46 47-92 1-49 (51)
180 PF11238 DUF3039: Protein of u 29.7 10 0.00022 23.5 -1.0 22 75-96 34-55 (58)
181 PF13901 DUF4206: Domain of un 29.1 37 0.0008 26.1 1.7 39 44-92 151-196 (202)
182 COG3809 Uncharacterized protei 27.4 30 0.00066 22.9 0.8 9 86-94 22-30 (88)
183 KOG4430|consensus 27.0 41 0.00088 30.1 1.7 58 42-104 257-317 (553)
184 KOG0314|consensus 25.7 20 0.00042 31.2 -0.4 39 41-79 215-255 (448)
185 smart00154 ZnF_AN1 AN1-like Zi 25.7 43 0.00093 18.8 1.1 7 63-69 17-23 (39)
186 TIGR00143 hypF [NiFe] hydrogen 25.4 38 0.00082 31.2 1.3 53 43-95 66-150 (711)
187 COG4647 AcxC Acetone carboxyla 25.3 27 0.00059 25.4 0.3 22 49-71 61-82 (165)
188 PRK11088 rrmA 23S rRNA methylt 25.0 39 0.00085 26.7 1.2 23 46-68 3-27 (272)
189 PF14369 zf-RING_3: zinc-finge 24.9 13 0.00028 20.5 -1.1 29 67-95 3-31 (35)
190 PF09237 GAGA: GAGA factor; I 24.9 27 0.00059 21.2 0.2 16 82-97 21-36 (54)
191 PF10235 Cript: Microtubule-as 24.6 36 0.00078 23.0 0.8 36 45-95 44-79 (90)
192 PF00412 LIM: LIM domain; Int 23.9 39 0.00085 19.7 0.8 37 48-97 1-38 (58)
193 KOG3113|consensus 23.8 51 0.0011 26.7 1.6 48 43-97 109-159 (293)
194 PF14169 YdjO: Cold-inducible 23.6 41 0.0009 20.9 0.9 14 84-97 38-51 (59)
195 PF13832 zf-HC5HC2H_2: PHD-zin 21.5 83 0.0018 21.2 2.2 32 44-75 54-87 (110)
196 PF01428 zf-AN1: AN1-like Zinc 21.0 42 0.0009 19.0 0.5 22 51-72 6-27 (43)
197 smart00734 ZnF_Rad18 Rad18-lik 21.0 45 0.00097 17.0 0.5 9 47-55 3-11 (26)
198 PF12773 DZR: Double zinc ribb 20.9 70 0.0015 18.3 1.5 26 67-94 13-38 (50)
199 KOG3842|consensus 20.7 1E+02 0.0023 25.8 2.9 51 44-96 340-414 (429)
200 COG3058 FdhE Uncharacterized p 20.4 68 0.0015 26.3 1.7 42 46-92 186-232 (308)
201 PRK11595 DNA utilization prote 20.3 61 0.0013 25.1 1.4 7 48-54 8-14 (227)
202 PF10186 Atg14: UV radiation r 20.3 69 0.0015 25.2 1.8 19 48-75 2-20 (302)
203 PF06676 DUF1178: Protein of u 20.3 25 0.00054 26.0 -0.7 24 64-92 10-39 (148)
No 1
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.52 E-value=3.7e-14 Score=107.98 Aligned_cols=62 Identities=26% Similarity=0.553 Sum_probs=48.4
Q ss_pred CCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcC-----------CCCCCcccCccccccc
Q psy6056 35 DSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISS-----------ESSPALCKMSKQRLLL 97 (153)
Q Consensus 35 ~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~-----------~~~~~~CP~Cr~~~~~ 97 (153)
++........+..|+||++.+.+|++ ++|||.||+.||..|+.... ......||+||..+..
T Consensus 8 ~~~~~~~~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 8 DDTTLVDSGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred ccceeccCCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 34445556677899999999999988 68999999999999976321 1234689999998864
No 2
>KOG0317|consensus
Probab=99.50 E-value=1.4e-14 Score=115.40 Aligned_cols=58 Identities=28% Similarity=0.623 Sum_probs=47.5
Q ss_pred CCCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 34 DDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 34 ~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+.............|.+||+...+|.. ++|||.||+.||..|...+ ..||+||..+..
T Consensus 228 ~s~~~~~i~~a~~kC~LCLe~~~~pSa-TpCGHiFCWsCI~~w~~ek-----~eCPlCR~~~~p 285 (293)
T KOG0317|consen 228 DSNSLSSIPEATRKCSLCLENRSNPSA-TPCGHIFCWSCILEWCSEK-----AECPLCREKFQP 285 (293)
T ss_pred hccCCccCCCCCCceEEEecCCCCCCc-CcCcchHHHHHHHHHHccc-----cCCCcccccCCC
Confidence 333333344555789999999999988 7999999999999999988 789999988764
No 3
>KOG0823|consensus
Probab=99.49 E-value=6.4e-14 Score=108.61 Aligned_cols=77 Identities=18% Similarity=0.326 Sum_probs=57.4
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc-----cccccccccccceEe-ccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL-----FASATECLQYINVYD-IMI 115 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~-----~~~~~~~~~~~~~~~-~~~ 115 (153)
......|.|||+...+|++ +.|||.||+.||.+|++. ......||+||..++. ++-.-......+..+ +|.
T Consensus 44 ~~~~FdCNICLd~akdPVv-TlCGHLFCWpClyqWl~~--~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~~~vP~ 120 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVV-TLCGHLFCWPCLYQWLQT--RPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRKKDVPP 120 (230)
T ss_pred CCCceeeeeeccccCCCEE-eecccceehHHHHHHHhh--cCCCeeCCccccccccceEEeeeccCCCCCCCcccccCCC
Confidence 4666789999999999999 689999999999999994 4667899999988864 222222233333444 777
Q ss_pred ccCCCC
Q psy6056 116 LQVNTS 121 (153)
Q Consensus 116 ~p~~~~ 121 (153)
+|....
T Consensus 121 RP~~~R 126 (230)
T KOG0823|consen 121 RPAGQR 126 (230)
T ss_pred CCCCcc
Confidence 776654
No 4
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.35 E-value=3e-13 Score=79.98 Aligned_cols=41 Identities=32% Similarity=0.747 Sum_probs=34.8
Q ss_pred cccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 47 RCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 47 ~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
.|+||++.+. +.++..+|||.||..||.+|++.+ .+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-----~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-----NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-----SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-----CcCCccC
Confidence 5999999995 444445799999999999999988 8999997
No 5
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.33 E-value=5.6e-13 Score=76.94 Aligned_cols=39 Identities=33% Similarity=0.799 Sum_probs=34.2
Q ss_pred cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
|+||++.+.++++.++|||.||..||.+|++.. ..||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~-----~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN-----PKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT-----SB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc-----CCCcCC
Confidence 899999999997668999999999999999976 899988
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.33 E-value=7.8e-13 Score=104.19 Aligned_cols=53 Identities=23% Similarity=0.654 Sum_probs=43.8
Q ss_pred CCCcccccccccccCc-------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccc
Q psy6056 43 SPTSRCPICLLVLNNR-------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFAS 100 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~-------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 100 (153)
+.+..|+||++.+.++ .++++|+|.||..||.+|+..+ .+||+||..+.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-----~tCPlCR~~~~~v~~ 231 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-----NTCPVCRTPFISVIK 231 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-----CCCCCCCCEeeEEee
Confidence 4457899999987753 2456899999999999999987 899999998887543
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.31 E-value=8.5e-13 Score=77.51 Aligned_cols=42 Identities=29% Similarity=0.642 Sum_probs=31.4
Q ss_pred cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
||||++.|.+|+.+ +|||+||..||..|++.. ......||.|
T Consensus 1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~-~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEP-SGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCS-SSST---SSS
T ss_pred CCccchhhCCcccc-CCcCHHHHHHHHHHHHcc-CCcCCCCcCC
Confidence 89999999999995 799999999999988753 2222689987
No 8
>PHA02926 zinc finger-like protein; Provisional
Probab=99.27 E-value=2.8e-12 Score=99.17 Aligned_cols=58 Identities=26% Similarity=0.647 Sum_probs=45.0
Q ss_pred CCCCCcccccccccccCc--------cccCccCCcccHhhHHHHHHhcC-CCCCCcccCcccccccc
Q psy6056 41 PTSPTSRCPICLLVLNNR--------SYTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLLF 98 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~--------~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~~ 98 (153)
..+.+..|+|||+...++ .++.+|+|.||..||..|...+. .+....||+||..+..+
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 356678899999986432 46679999999999999998531 33457899999987764
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.25 E-value=3e-12 Score=77.66 Aligned_cols=47 Identities=23% Similarity=0.503 Sum_probs=40.0
Q ss_pred CcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..|.||++...+.++ .+|||. ||..|+.+|.+.. ..||+||+++..
T Consensus 2 ~~~C~iC~~~~~~~~~-~pCgH~~~C~~C~~~~~~~~-----~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDVVL-LPCGHLCFCEECAERLLKRK-----KKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSEEE-ETTCEEEEEHHHHHHHHHTT-----SBBTTTTBB-SE
T ss_pred cCCCccCCccCCceEE-eCCCChHHHHHHhHHhcccC-----CCCCcCChhhcC
Confidence 4679999999888777 589999 9999999999977 999999998764
No 10
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.15 E-value=2.9e-11 Score=70.24 Aligned_cols=44 Identities=30% Similarity=0.733 Sum_probs=37.7
Q ss_pred ccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 47 RCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 47 ~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
.|+||++.+.++..+.+|||.||..|+..|.... ...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~----~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG----KNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC----cCCCCCCCCc
Confidence 4999999997777767799999999999999872 2789999875
No 11
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.14 E-value=2.5e-11 Score=70.43 Aligned_cols=41 Identities=32% Similarity=0.814 Sum_probs=35.5
Q ss_pred cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
|+||++.+.++..+.+|||.||..||.+|+... ....||+|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~---~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS---GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT---SSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhc---CCccCCcC
Confidence 899999999999567999999999999998831 24789998
No 12
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.13 E-value=2.5e-11 Score=79.45 Aligned_cols=42 Identities=31% Similarity=0.701 Sum_probs=34.1
Q ss_pred cccccccccccC------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 46 SRCPICLLVLNN------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 46 ~~C~ICl~~~~~------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
..|+||++.+.+ ++.+..|||.||..||.+|++.. .+||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN-----NTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS-----SB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC-----CcCCCCC
Confidence 349999999942 23445799999999999999988 8999997
No 13
>KOG0320|consensus
Probab=99.10 E-value=5.4e-11 Score=89.11 Aligned_cols=47 Identities=28% Similarity=0.668 Sum_probs=40.7
Q ss_pred cccccccccccCcc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLNNRS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~~~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|||||+.+...+ +.+.|||.||..||...++.. ..||+|++.++.
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~-----~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT-----NKCPTCRKKITH 179 (187)
T ss_pred cCCCceecchhhccccccccchhHHHHHHHHHHHhC-----CCCCCcccccch
Confidence 57999999999665 447999999999999999888 899999987654
No 14
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.08 E-value=9.9e-11 Score=73.69 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=40.8
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
..|+||++.+.+|++ .+|||+||..||.+|++.. ..||.|+..+.
T Consensus 2 ~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~-----~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSH-----GTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHC-----CCCCCCcCCCC
Confidence 579999999999988 5899999999999999876 89999998774
No 15
>KOG2164|consensus
Probab=99.03 E-value=1.3e-10 Score=98.93 Aligned_cols=52 Identities=31% Similarity=0.605 Sum_probs=44.7
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..|||||+...-|.. +.|||.||+.||.+++...+......||+|+..|..
T Consensus 186 ~~~CPICL~~~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 7889999999988888 569999999999997776556667899999988875
No 16
>KOG4628|consensus
Probab=99.00 E-value=3e-10 Score=93.58 Aligned_cols=48 Identities=25% Similarity=0.613 Sum_probs=40.1
Q ss_pred ccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|.||+|.|. +.....||+|.||..||..|+... ...||+||+.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~----r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT----RTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc----CccCCCCCCcCCC
Confidence 68999999998 555556999999999999999876 1459999986654
No 17
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.99 E-value=2.7e-10 Score=95.69 Aligned_cols=51 Identities=25% Similarity=0.583 Sum_probs=44.6
Q ss_pred CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
..+.....|+||++.+.+|++ ++|||.||..||..|+... ..||+|+..+.
T Consensus 21 ~~Le~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~~-----~~CP~Cr~~~~ 71 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSNQ-----PKCPLCRAEDQ 71 (397)
T ss_pred cccccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhCC-----CCCCCCCCccc
Confidence 445677899999999999987 6899999999999999876 68999998775
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.92 E-value=4.9e-10 Score=66.24 Aligned_cols=42 Identities=29% Similarity=0.675 Sum_probs=34.5
Q ss_pred ccccccccc--cCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 47 RCPICLLVL--NNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 47 ~C~ICl~~~--~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
.|+||++.+ ..+..+++|||+||..|+..+.... ..||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~-----~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKS-----VKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCC-----CCCcCCCC
Confidence 399999999 3455668999999999999877334 89999984
No 19
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=2e-09 Score=85.11 Aligned_cols=50 Identities=22% Similarity=0.595 Sum_probs=42.2
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHH-HHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQ-WSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~-~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..+..|+||++....|.. ++|||.||+.||.. |-..+ ...||+||+....
T Consensus 213 ~~d~kC~lC~e~~~~ps~-t~CgHlFC~~Cl~~~~t~~k----~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVPSC-TPCGHLFCLSCLLISWTKKK----YEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCccc-ccccchhhHHHHHHHHHhhc----cccCchhhhhccc
Confidence 447789999999999988 68999999999999 88776 2459999986553
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.83 E-value=2.3e-09 Score=59.95 Aligned_cols=39 Identities=36% Similarity=0.881 Sum_probs=32.4
Q ss_pred cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
|+||++....++. .+|||.||..|+..|.... ...||.|
T Consensus 1 C~iC~~~~~~~~~-~~C~H~~c~~C~~~~~~~~----~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVV-LPCGHTFCRSCIRKWLKSG----NNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEE-ecCCChHHHHHHHHHHHhC----cCCCCCC
Confidence 8999998767666 5899999999999998832 2679987
No 21
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.78 E-value=3.3e-09 Score=62.49 Aligned_cols=39 Identities=31% Similarity=0.686 Sum_probs=22.4
Q ss_pred cccccccccC----ccccCccCCcccHhhHHHHHHhcCCCCCCccc
Q psy6056 48 CPICLLVLNN----RSYTDTCLHEFCFLCIKQWSQISSESSPALCK 89 (153)
Q Consensus 48 C~ICl~~~~~----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP 89 (153)
||||.+ +.+ |+++ +|||+||..||.++++.. .....+||
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~-~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKS-DRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH--S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcC-CCCeeeCc
Confidence 899999 887 7775 699999999999998853 12345676
No 22
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.75 E-value=7.4e-09 Score=69.22 Aligned_cols=50 Identities=28% Similarity=0.600 Sum_probs=36.3
Q ss_pred Cccccccccccc-----------C-ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 45 TSRCPICLLVLN-----------N-RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 45 ~~~C~ICl~~~~-----------~-~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
+..|+||...|. + |.+.-.|+|.||..||.+|+... .....||+||+.+.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~--~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQ--SSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccc--cCCCCCCCcCCeee
Confidence 444666655554 2 44445899999999999999853 33579999998764
No 23
>KOG0287|consensus
Probab=98.70 E-value=3.7e-09 Score=86.36 Aligned_cols=49 Identities=27% Similarity=0.564 Sum_probs=43.6
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+.-+.|.||.+.|..|++ ++|+|.||.-||..++..+ ..||.|+..+..
T Consensus 21 D~lLRC~IC~eyf~ip~i-tpCsHtfCSlCIR~~L~~~-----p~CP~C~~~~~E 69 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPMI-TPCSHTFCSLCIRKFLSYK-----PQCPTCCVTVTE 69 (442)
T ss_pred HHHHHHhHHHHHhcCcee-ccccchHHHHHHHHHhccC-----CCCCceecccch
Confidence 445679999999999988 6899999999999999988 899999987764
No 24
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=1e-08 Score=84.75 Aligned_cols=49 Identities=20% Similarity=0.553 Sum_probs=40.7
Q ss_pred CCCCccccccccccc-Cc------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 42 TSPTSRCPICLLVLN-NR------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~-~~------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
...+..|.|||+.+- .+ .. .+|||.||..|+..|..+. .+||+||.++-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKr-LpCGHilHl~CLknW~ERq-----QTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKR-LPCGHILHLHCLKNWLERQ-----QTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccc-ccccceeeHHHHHHHHHhc-----cCCCcccCccc
Confidence 466778999999944 22 44 4899999999999999998 99999998854
No 25
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.67 E-value=6.4e-09 Score=83.54 Aligned_cols=50 Identities=26% Similarity=0.538 Sum_probs=43.8
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..-+.|.||-+.+..|.. ++|||.||.-||..++... ..||+||.....
T Consensus 22 LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~q-----p~CP~Cr~~~~e 71 (391)
T COG5432 22 LDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGTQ-----PFCPVCREDPCE 71 (391)
T ss_pred chhHHHhhhhhheeeccee-cccccchhHHHHHHHhcCC-----CCCccccccHHh
Confidence 3445679999999999988 6899999999999999988 999999988764
No 26
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=6.8e-09 Score=83.73 Aligned_cols=51 Identities=22% Similarity=0.518 Sum_probs=42.1
Q ss_pred CCCCCccccccccccc--CccccCccCCcccHhhHHHHHH-hcCCCCCCcccCcccccc
Q psy6056 41 PTSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQ-ISSESSPALCKMSKQRLL 96 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~~ 96 (153)
+......|.|||+.+. +..+.+||.|.||..|+.+|+. .+ ..||.||.++.
T Consensus 319 ea~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~-----~~CPvCrt~iP 372 (374)
T COG5540 319 EADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS-----NKCPVCRTAIP 372 (374)
T ss_pred hcCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc-----ccCCccCCCCC
Confidence 3445578999999987 5556679999999999999998 45 89999998764
No 27
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.65 E-value=1.2e-08 Score=66.64 Aligned_cols=49 Identities=16% Similarity=0.228 Sum_probs=39.2
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHh-cCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQI-SSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~-~~~~~~~~CP~Cr~~~~~ 97 (153)
++...|||+.+.+.+|+++ ++||+|+..+|..|+.. . ..||+|+..+..
T Consensus 2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~-----~~~P~t~~~l~~ 51 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNG-----GTDPFTRQPLSE 51 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTS-----SB-TTT-SB-SG
T ss_pred CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCC-----CCCCCCCCcCCc
Confidence 4568899999999999994 79999999999999998 5 899999988765
No 28
>KOG0311|consensus
Probab=98.60 E-value=3e-09 Score=87.19 Aligned_cols=66 Identities=29% Similarity=0.548 Sum_probs=50.0
Q ss_pred CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccccccccccccceEec
Q psy6056 40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDI 113 (153)
Q Consensus 40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 113 (153)
.....+..|+|||+.+...+....|+|.||+.||..-+... ...||-||+.+.+ .+++++.+.|+.
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g----n~ecptcRk~l~S----krsLr~Dp~fda 103 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG----NNECPTCRKKLVS----KRSLRIDPNFDA 103 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc----CCCCchHHhhccc----cccCCCCccHHH
Confidence 34567789999999999888777999999999998866553 3899999988765 334444444443
No 29
>KOG0802|consensus
Probab=98.57 E-value=3.6e-08 Score=86.26 Aligned_cols=49 Identities=24% Similarity=0.471 Sum_probs=41.9
Q ss_pred CCCCCcccccccccccC-----ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 41 PTSPTSRCPICLLVLNN-----RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~-----~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
....+..|+||+|.+.. +.. .+|+|.||..|+..|++.. .+||.||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~r-L~C~Hifh~~CL~~W~er~-----qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKR-LPCGHIFHDSCLRSWFERQ-----QTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccce-eecccchHHHHHHHHHHHh-----CcCCcchhhh
Confidence 34557789999999997 555 4899999999999999998 9999999833
No 30
>KOG2177|consensus
Probab=98.54 E-value=2.4e-08 Score=78.10 Aligned_cols=46 Identities=24% Similarity=0.543 Sum_probs=39.1
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
..+...|+||++.|..|.+ .+|||+||..||..++... ..||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p~~-l~C~H~~c~~C~~~~~~~~-----~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVL-LPCGHNFCRACLTRSWEGP-----LSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcCcc-ccccchHhHHHHHHhcCCC-----cCCcccCC
Confidence 3566789999999999955 6899999999999977633 89999993
No 31
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.51 E-value=2.3e-08 Score=63.29 Aligned_cols=44 Identities=27% Similarity=0.615 Sum_probs=23.0
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
...|++|.+.+..|+.+..|.|.||..||..-+. ..||+|+.+-
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~-------~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG-------SECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT-------TB-SSS--B-
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC-------CCCCCcCChH
Confidence 3579999999999998889999999999955222 4699998764
No 32
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.44 E-value=1.3e-07 Score=76.96 Aligned_cols=49 Identities=22% Similarity=0.447 Sum_probs=35.2
Q ss_pred Cccccccccc-ccCcc---ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLV-LNNRS---YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~-~~~~~---~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..||||... +.+|. .+.+|||.||..|+...+... ...||.|+..+..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~----~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG----SGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC----CCCCCCCCCccch
Confidence 4579999885 33432 334799999999999954332 2689999877654
No 33
>KOG4172|consensus
Probab=98.42 E-value=4.3e-08 Score=60.01 Aligned_cols=49 Identities=18% Similarity=0.461 Sum_probs=40.0
Q ss_pred cccccccccccCccccCccCCc-ccHhhHHHHHH-hcCCCCCCcccCcccccccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQ-ISSESSPALCKMSKQRLLLFAS 100 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~-~~~~~~~~~CP~Cr~~~~~~~~ 100 (153)
..|.||++...+.++ -.|||. .|+.|-.+.++ .+ ..||+||+++..+++
T Consensus 8 dECTICye~pvdsVl-YtCGHMCmCy~Cg~rl~~~~~-----g~CPiCRapi~dvIk 58 (62)
T KOG4172|consen 8 DECTICYEHPVDSVL-YTCGHMCMCYACGLRLKKALH-----GCCPICRAPIKDVIK 58 (62)
T ss_pred cceeeeccCcchHHH-HHcchHHhHHHHHHHHHHccC-----CcCcchhhHHHHHHH
Confidence 459999999888876 579996 89999777444 45 899999999987654
No 34
>KOG1039|consensus
Probab=98.31 E-value=3.4e-07 Score=75.77 Aligned_cols=62 Identities=23% Similarity=0.626 Sum_probs=46.3
Q ss_pred CCCCCCcccccccccccCcc-------ccCccCCcccHhhHHHHHHhcC--CCCCCcccCccccccccccc
Q psy6056 40 RPTSPTSRCPICLLVLNNRS-------YTDTCLHEFCFLCIKQWSQISS--ESSPALCKMSKQRLLLFASA 101 (153)
Q Consensus 40 ~~~~~~~~C~ICl~~~~~~~-------~~~~CgH~FC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~~~~~~ 101 (153)
.....+..|.|||+...++. ++.+|.|.||..||..|.+..+ ..-...||.||.....++.+
T Consensus 156 ~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS 226 (344)
T KOG1039|consen 156 LQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS 226 (344)
T ss_pred cCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence 34466788999999988655 3468999999999999985431 11147999999887765443
No 35
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.26 E-value=3.9e-07 Score=59.93 Aligned_cols=31 Identities=29% Similarity=0.732 Sum_probs=27.7
Q ss_pred CccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 62 DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 62 ~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
-.|.|.|+..||.+|+..+ ..||++|+.+..
T Consensus 52 G~CnHaFH~HCI~rWL~Tk-----~~CPld~q~w~~ 82 (88)
T COG5194 52 GVCNHAFHDHCIYRWLDTK-----GVCPLDRQTWVL 82 (88)
T ss_pred EecchHHHHHHHHHHHhhC-----CCCCCCCceeEE
Confidence 4699999999999999998 999999987653
No 36
>KOG0804|consensus
Probab=98.21 E-value=5.5e-07 Score=76.01 Aligned_cols=49 Identities=22% Similarity=0.578 Sum_probs=39.7
Q ss_pred CCCCCcccccccccccCcc---ccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 41 PTSPTSRCPICLLVLNNRS---YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~---~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
...+-.+|||||+.+...+ +.+.|.|+|+-.|+..|.. .+||+||--..
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~-------~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD-------SSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc-------CcChhhhhhcC
Confidence 3456678999999998554 5568999999999999988 68999985443
No 37
>KOG1493|consensus
Probab=98.19 E-value=3.3e-07 Score=59.80 Aligned_cols=48 Identities=29% Similarity=0.621 Sum_probs=35.6
Q ss_pred ccccccccccC------------ccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 47 RCPICLLVLNN------------RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 47 ~C~ICl~~~~~------------~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
+|.||.-.|.. |.++--|.|.|+..||.+|+.. ......||+||+.+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~--~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNT--PTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcC--ccccccCCcchheeE
Confidence 56666665541 3444579999999999999984 344589999998765
No 38
>KOG2660|consensus
Probab=98.19 E-value=3.9e-07 Score=74.26 Aligned_cols=51 Identities=25% Similarity=0.524 Sum_probs=45.5
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.....+|.+|-..|.++..++.|.|+||.+||.+++... ..||.|...+..
T Consensus 12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~-----~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES-----KYCPTCDIVIHK 62 (331)
T ss_pred cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh-----ccCCccceeccC
Confidence 455678999999999999889999999999999999987 999999877754
No 39
>KOG0978|consensus
Probab=98.16 E-value=6e-07 Score=79.83 Aligned_cols=50 Identities=16% Similarity=0.393 Sum_probs=41.7
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..-..||+|-..+.+.++ +.|||.||..|+.+..... ...||.|...|..
T Consensus 641 K~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~etR----qRKCP~Cn~aFga 690 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYETR----QRKCPKCNAAFGA 690 (698)
T ss_pred HhceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHHh----cCCCCCCCCCCCc
Confidence 344679999998989888 6899999999999966654 3899999988765
No 40
>KOG0824|consensus
Probab=98.13 E-value=1.3e-06 Score=70.47 Aligned_cols=49 Identities=24% Similarity=0.502 Sum_probs=40.0
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF 98 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~ 98 (153)
...|+||+....-|+. ..|+|.||+-||..-.+.. +..|++||.+|.+.
T Consensus 7 ~~eC~IC~nt~n~Pv~-l~C~HkFCyiCiKGsy~nd----k~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVN-LYCFHKFCYICIKGSYKND----KKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCcc-ccccchhhhhhhcchhhcC----CCCCceecCCCCcc
Confidence 4459999999999977 5799999999998744433 36899999999873
No 41
>KOG0297|consensus
Probab=98.10 E-value=1.6e-06 Score=73.18 Aligned_cols=52 Identities=33% Similarity=0.624 Sum_probs=45.9
Q ss_pred CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
....+..|+||+.++.+|...+.|||.||..|+..|...+ ..||.|+..+..
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~-----~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNH-----QKCPVCRQELTQ 68 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhccC-----cCCcccccccch
Confidence 3677889999999999999855899999999999999887 899999877654
No 42
>KOG4159|consensus
Probab=98.09 E-value=1.6e-06 Score=73.19 Aligned_cols=50 Identities=20% Similarity=0.497 Sum_probs=43.2
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
...+..|.||+..+..|+. ++|||+||..||.+-+... ..||+||..+..
T Consensus 81 ~~sef~c~vc~~~l~~pv~-tpcghs~c~~Cl~r~ld~~-----~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVV-TPCGHSFCLECLDRSLDQE-----TECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCCcc-ccccccccHHHHHHHhccC-----CCCccccccccc
Confidence 3677889999999999999 5999999999999866655 899999987763
No 43
>KOG4265|consensus
Probab=98.05 E-value=3.2e-06 Score=69.62 Aligned_cols=51 Identities=22% Similarity=0.424 Sum_probs=42.4
Q ss_pred CCCcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLFA 99 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~ 99 (153)
.....|.|||....+-+++ ||.|. .|..|.....-+. +.||+||+++...+
T Consensus 288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~-----n~CPICRqpi~~ll 339 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQT-----NNCPICRQPIEELL 339 (349)
T ss_pred cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhh-----cCCCccccchHhhh
Confidence 4456699999999998885 89997 8999988776555 89999999998744
No 44
>KOG2879|consensus
Probab=97.97 E-value=1.8e-05 Score=63.34 Aligned_cols=52 Identities=17% Similarity=0.466 Sum_probs=40.7
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
...+.+|++|-+....|.+..+|||.||+.||..-... ..+..||.|-....
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~---~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLW---DASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcc---hhhcccCccCCCCc
Confidence 45667899999999999987889999999999873221 12379999976544
No 45
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.94 E-value=2.6e-06 Score=55.19 Aligned_cols=53 Identities=19% Similarity=0.418 Sum_probs=25.2
Q ss_pred Cccccccccccc-C---ccc-c--CccCCcccHhhHHHHHHhcCCCC------CCcccCccccccc
Q psy6056 45 TSRCPICLLVLN-N---RSY-T--DTCLHEFCFLCIKQWSQISSESS------PALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~-~---~~~-~--~~CgH~FC~~Ci~~~~~~~~~~~------~~~CP~Cr~~~~~ 97 (153)
+..|+||+..+. + |.+ - ..|+..||..||.+|+....... ...||.|++++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 346999998755 2 211 1 27999999999999987532111 2469999988753
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.90 E-value=5.2e-06 Score=51.71 Aligned_cols=45 Identities=24% Similarity=0.428 Sum_probs=31.6
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~ 90 (153)
.....|||.+..+.+|+....|||.|-...|.+|++.. ....||.
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~---~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN---GSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT---S-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc---CCCCCCC
Confidence 44578999999999999978999999999999999332 3478998
No 47
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.84 E-value=6.6e-06 Score=63.14 Aligned_cols=47 Identities=23% Similarity=0.383 Sum_probs=38.3
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
...|.||.+.+..|++ +.|||+||..|..+-.+.. ..|-+|-+....
T Consensus 196 PF~C~iCKkdy~spvv-t~CGH~FC~~Cai~~y~kg-----~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYESPVV-TECGHSFCSLCAIRKYQKG-----DECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccchhh-hhcchhHHHHHHHHHhccC-----Ccceecchhhcc
Confidence 4579999999999999 6899999999976644444 799999765543
No 48
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.82 E-value=7.2e-06 Score=74.79 Aligned_cols=52 Identities=29% Similarity=0.654 Sum_probs=39.2
Q ss_pred CCCccccccccccc--Ccc----ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLN--NRS----YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~--~~~----~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+....|+||+..+. +.. ...+|.|.||..|+.+|.+.+ +..+||+||..++.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss---~~s~CPlCRseitf 1524 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS---ARSNCPLCRSEITF 1524 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc---CCCCCCcccccccc
Confidence 34456999998876 221 223799999999999999864 45799999987653
No 49
>KOG0825|consensus
Probab=97.75 E-value=6e-06 Score=73.96 Aligned_cols=48 Identities=25% Similarity=0.597 Sum_probs=39.4
Q ss_pred cccccccccccCccc--cCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056 46 SRCPICLLVLNNRSY--TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF 98 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~--~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~ 98 (153)
..|++|+..+.+.-+ -.+|+|.||..||..|.... .+||+||..|..+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a-----qTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA-----QTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc-----ccCchhhhhhhee
Confidence 358899887774332 23799999999999999988 9999999998864
No 50
>KOG0828|consensus
Probab=97.74 E-value=1.3e-05 Score=68.66 Aligned_cols=50 Identities=24% Similarity=0.533 Sum_probs=38.3
Q ss_pred CCCcccccccccccC-----c-----------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 43 SPTSRCPICLLVLNN-----R-----------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~-----~-----------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
.....|+|||..+.- + -+++||.|.|+..|+.+|...- ...||.||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y----kl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY----KLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh----cccCCccCCCCC
Confidence 344569999988651 1 2346999999999999999954 169999998764
No 51
>KOG4692|consensus
Probab=97.70 E-value=2.7e-05 Score=64.49 Aligned_cols=56 Identities=29% Similarity=0.529 Sum_probs=47.0
Q ss_pred CCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 36 SDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 36 ~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
...+.+.+++..||||+....+.+. .||+|.-|+.||.+.+... +.|=.|+..+..
T Consensus 413 ~~~~lp~sEd~lCpICyA~pi~Avf-~PC~H~SC~~CI~qHlmN~-----k~CFfCktTv~~ 468 (489)
T KOG4692|consen 413 FNKDLPDSEDNLCPICYAGPINAVF-APCSHRSCYGCITQHLMNC-----KRCFFCKTTVID 468 (489)
T ss_pred hcCCCCCcccccCcceecccchhhc-cCCCCchHHHHHHHHHhcC-----CeeeEecceeee
Confidence 3444556788899999998888888 7999999999999988877 899999987664
No 52
>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=97.67 E-value=3.6e-05 Score=46.40 Aligned_cols=42 Identities=21% Similarity=0.467 Sum_probs=30.8
Q ss_pred cccccccc--ccCccccCccC-----CcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 47 RCPICLLV--LNNRSYTDTCL-----HEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 47 ~C~ICl~~--~~~~~~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
.|.||++. -.++.+ .||. |.+|..|+.+|+..+ ...+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~-~PC~C~G~~~~vH~~Cl~~W~~~~---~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLV-SPCRCKGSLKYVHQECLERWINES---GNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeE-eccccCCchhHHHHHHHHHHHHHc---CCCcCCCCC
Confidence 48999972 224444 5784 889999999999765 125999994
No 53
>KOG1813|consensus
Probab=97.64 E-value=2.3e-05 Score=63.30 Aligned_cols=49 Identities=22% Similarity=0.324 Sum_probs=41.3
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFA 99 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~ 99 (153)
...|-||...|.+|++ +.|+|.||..|...-.+.. ..|++|.+.+..++
T Consensus 241 Pf~c~icr~~f~~pVv-t~c~h~fc~~ca~~~~qk~-----~~c~vC~~~t~g~~ 289 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVV-TKCGHYFCEVCALKPYQKG-----EKCYVCSQQTHGSF 289 (313)
T ss_pred Cccccccccccccchh-hcCCceeehhhhccccccC-----Ccceeccccccccc
Confidence 3459999999999999 6899999999987766665 79999988776643
No 54
>KOG2930|consensus
Probab=97.59 E-value=3.1e-05 Score=53.38 Aligned_cols=44 Identities=25% Similarity=0.671 Sum_probs=34.0
Q ss_pred cccccccccccCc----------------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 46 SRCPICLLVLNNR----------------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 46 ~~C~ICl~~~~~~----------------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
..|+||.-.+-+. +.--.|.|.|++.||.+|++++ ..||+|.+.
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr-----~vCPLdn~e 106 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTR-----NVCPLDNKE 106 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhc-----CcCCCcCcc
Confidence 4699997654421 1122699999999999999999 999999764
No 55
>KOG0827|consensus
Probab=97.56 E-value=3.8e-05 Score=64.13 Aligned_cols=46 Identities=26% Similarity=0.482 Sum_probs=33.9
Q ss_pred ccccccccccc---CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 46 SRCPICLLVLN---NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 46 ~~C~ICl~~~~---~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
..|.||-+-+. +...+..|||+|+..|+.+|.... ...+.||+|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~--Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGD--PSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccC--CccCCCCceee
Confidence 35999966544 223334699999999999999964 33379999983
No 56
>KOG1785|consensus
Probab=97.56 E-value=2.8e-05 Score=65.24 Aligned_cols=48 Identities=19% Similarity=0.496 Sum_probs=39.6
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|.||-+.-.+..+ .+|||..|..|+..|.... ....||.||-.|..
T Consensus 370 eLCKICaendKdvkI-EPCGHLlCt~CLa~WQ~sd---~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKDVKI-EPCGHLLCTSCLAAWQDSD---EGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCCccc-ccccchHHHHHHHhhcccC---CCCCCCceeeEecc
Confidence 459999998777666 7999999999999997643 25899999988764
No 57
>KOG1734|consensus
Probab=97.49 E-value=2.5e-05 Score=62.42 Aligned_cols=52 Identities=25% Similarity=0.607 Sum_probs=38.3
Q ss_pred CCCcccccccccccCc---------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNR---------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~---------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.++..|.||-..+... ....+|+|.||..||..|--.. ...+||.|+..+..
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG---KkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG---KKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec---CCCCCchHHHHhhH
Confidence 4567799998876632 2334899999999999995431 13899999877654
No 58
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.40 E-value=0.00019 Score=58.39 Aligned_cols=72 Identities=28% Similarity=0.478 Sum_probs=50.3
Q ss_pred hHHHHHHHHHHhhchHH-HHhhhccCCCCCCCCCCCCCCCCCCCcccccccccccCccccCccCCcccHhhHHHHH-Hhc
Q psy6056 3 ESLFRQTQKRRLELPEI-QQASKKQKNDNPSEDDSDGDRPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWS-QIS 80 (153)
Q Consensus 3 ~~~~r~~~~~r~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~-~~~ 80 (153)
++-|+..+.++.++..+ .+.-+ .....-.+.|+.|-..+.+|+.+..|+|.||..||...+ ...
T Consensus 245 vqsWe~Yq~r~~a~~~~~Dqv~k--------------~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD 310 (427)
T COG5222 245 VQSWEKYQQRTKAVAEIPDQVYK--------------MQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD 310 (427)
T ss_pred hHHHHHHHHHHHhhhhCchhhhc--------------cCCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc
Confidence 34588888888776433 11110 011122267999999999999877899999999998754 445
Q ss_pred CCCCCCcccCccc
Q psy6056 81 SESSPALCKMSKQ 93 (153)
Q Consensus 81 ~~~~~~~CP~Cr~ 93 (153)
..||.|..
T Consensus 311 -----f~CpnC~r 318 (427)
T COG5222 311 -----FKCPNCSR 318 (427)
T ss_pred -----ccCCCccc
Confidence 89999954
No 59
>KOG1571|consensus
Probab=97.40 E-value=0.00013 Score=60.27 Aligned_cols=50 Identities=24% Similarity=0.515 Sum_probs=38.1
Q ss_pred CCCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056 40 RPTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF 98 (153)
Q Consensus 40 ~~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~ 98 (153)
...+....|.||++...+.+.+ +|||.-| |..-..+ . ..||+||+.+...
T Consensus 300 ~~~~~p~lcVVcl~e~~~~~fv-pcGh~cc--ct~cs~~-l-----~~CPvCR~rI~~~ 349 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKSAVFV-PCGHVCC--CTLCSKH-L-----PQCPVCRQRIRLV 349 (355)
T ss_pred cccCCCCceEEecCCccceeee-cCCcEEE--chHHHhh-C-----CCCchhHHHHHHH
Confidence 3456667899999999998774 8999876 7654333 3 5799999988764
No 60
>KOG0826|consensus
Probab=97.33 E-value=0.00014 Score=59.54 Aligned_cols=45 Identities=22% Similarity=0.508 Sum_probs=39.4
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
.....||||+....+|.++..-|..||+.||-.+.... +.||+=-
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~-----~~CPVT~ 342 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNY-----GHCPVTG 342 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhc-----CCCCccC
Confidence 34457999999999999988899999999999999987 8999743
No 61
>KOG1002|consensus
Probab=97.20 E-value=0.00014 Score=63.11 Aligned_cols=52 Identities=25% Similarity=0.530 Sum_probs=41.8
Q ss_pred CCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
....|.+|-++-.+++. +.|-|.||..||.+|...-..+...+||.|...++
T Consensus 535 ~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred CceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34569999999999888 68999999999999877533444589999976654
No 62
>KOG1645|consensus
Probab=97.15 E-value=0.00024 Score=59.79 Aligned_cols=48 Identities=25% Similarity=0.543 Sum_probs=36.9
Q ss_pred CCcccccccccccCc----cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 44 PTSRCPICLLVLNNR----SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~----~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
...+||||++.+.-+ ++...|||.|-..||++|+.+. ....||.|...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~---~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK---TKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhh---hhhhCcccCCh
Confidence 346799999998844 3335899999999999998532 34789999643
No 63
>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=97.15 E-value=0.00043 Score=51.35 Aligned_cols=55 Identities=16% Similarity=0.399 Sum_probs=36.7
Q ss_pred CCcccccccccccCccccCc-----------cCCcc-cHhhHHHHHHhcCC--------------------------CCC
Q psy6056 44 PTSRCPICLLVLNNRSYTDT-----------CLHEF-CFLCIKQWSQISSE--------------------------SSP 85 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~~~-----------CgH~F-C~~Ci~~~~~~~~~--------------------------~~~ 85 (153)
++.+|||||+...++++|.- |+-.| +..||.++.+.... ...
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 35689999999999988651 22222 45799887653210 013
Q ss_pred CcccCcccccccc
Q psy6056 86 ALCKMSKQRLLLF 98 (153)
Q Consensus 86 ~~CP~Cr~~~~~~ 98 (153)
..||+||..+..+
T Consensus 81 L~CPLCRG~V~GW 93 (162)
T PF07800_consen 81 LACPLCRGEVKGW 93 (162)
T ss_pred ccCccccCceece
Confidence 5799999988763
No 64
>KOG4739|consensus
Probab=97.04 E-value=0.00027 Score=55.64 Aligned_cols=45 Identities=29% Similarity=0.736 Sum_probs=32.6
Q ss_pred ccccccccccc-CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLN-NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~-~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|..|..... ++-.++.|+|.||..|.. ......||+|++.+..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k-------~~~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLK-------ASSPDVCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcc-------cCCccccccccceeee
Confidence 34777765443 677889999999999962 2233599999988544
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.96 E-value=0.00064 Score=40.76 Aligned_cols=44 Identities=18% Similarity=0.532 Sum_probs=20.9
Q ss_pred cccccccccC--cccc-CccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 48 CPICLLVLNN--RSYT-DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 48 C~ICl~~~~~--~~~~-~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
||+|.+.+.. .... =+||+..|..|........ ...||-||.++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~----~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE----GGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-----SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc----CCCCCCCCCCC
Confidence 7899998842 2221 2689999999987766521 38999999875
No 66
>KOG4275|consensus
Probab=96.87 E-value=0.00017 Score=58.28 Aligned_cols=44 Identities=23% Similarity=0.502 Sum_probs=35.7
Q ss_pred CcccccccccccCccccCccCCc-ccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHE-FCFLCIKQWSQISSESSPALCKMSKQRLLLF 98 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~-FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~ 98 (153)
...|.|||+...+-+.| +|||. -|..|-.+ +..||+||+.+..+
T Consensus 300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkr---------m~eCPICRqyi~rv 344 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKR---------MNECPICRQYIVRV 344 (350)
T ss_pred HHHHHHHhcCCcceEEe-ecCcEEeehhhccc---------cccCchHHHHHHHH
Confidence 67899999999999885 79995 68888532 36999999877654
No 67
>PHA03096 p28-like protein; Provisional
Probab=96.78 E-value=0.0006 Score=55.37 Aligned_cols=46 Identities=26% Similarity=0.466 Sum_probs=32.9
Q ss_pred cccccccccccCc-------cccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 46 SRCPICLLVLNNR-------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 46 ~~C~ICl~~~~~~-------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
..|.|||+..... ..+..|.|.||..||..|..... ....||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~--~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL--YKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh--hcccCccccc
Confidence 5699999987632 35568999999999999987532 2344555543
No 68
>KOG3039|consensus
Probab=96.75 E-value=0.00074 Score=53.56 Aligned_cols=49 Identities=16% Similarity=0.210 Sum_probs=42.1
Q ss_pred CCCcccccccccccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 43 SPTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
+....||||.+.+.+. +++.+|||.||..|..+.+... ..||+|-.++.
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-----~v~pv~d~plk 270 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-----MVDPVTDKPLK 270 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-----ccccCCCCcCc
Confidence 4667899999999965 4667999999999999999988 99999976654
No 69
>KOG1941|consensus
Probab=96.28 E-value=0.0014 Score=55.04 Aligned_cols=50 Identities=16% Similarity=0.292 Sum_probs=37.6
Q ss_pred CcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..|..|-+.+.. .-...+|.|+||..|+.+++..+ ...+||.||+...+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n---~~rsCP~CrklrSs 417 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN---GTRSCPNCRKLRSS 417 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC---CCCCCccHHHHHhh
Confidence 4569999888762 22224899999999999988654 35899999965554
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.11 E-value=0.0074 Score=50.22 Aligned_cols=63 Identities=14% Similarity=0.267 Sum_probs=45.6
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHH--HHhcCCCCCCcccCccccccccccccccccccce
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQW--SQISSESSPALCKMSKQRLLLFASATECLQYINV 110 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~--~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 110 (153)
..+...|-||-+.+.-..+ .||+|..|--|..+. +-.. ..||+||..-..++.......+|..
T Consensus 58 DEen~~C~ICA~~~TYs~~-~PC~H~~CH~Ca~RlRALY~~-----K~C~~CrTE~e~V~fT~~~~~DI~D 122 (493)
T COG5236 58 DEENMNCQICAGSTTYSAR-YPCGHQICHACAVRLRALYMQ-----KGCPLCRTETEAVVFTASSPADITD 122 (493)
T ss_pred ccccceeEEecCCceEEEe-ccCCchHHHHHHHHHHHHHhc-----cCCCccccccceEEEecCCCCcchh
Confidence 3455679999998887666 589999999998764 3334 7999999887765544445555443
No 71
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.97 E-value=0.011 Score=43.97 Aligned_cols=50 Identities=18% Similarity=0.329 Sum_probs=35.6
Q ss_pred CCCcccccccccccCccccCccC--C---cccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCL--H---EFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..+..|-||.+.... .. .||. . .-|.+|+.+|...+ +...|++|+.++..
T Consensus 6 ~~~~~CRIC~~~~~~-~~-~PC~CkGs~k~VH~sCL~rWi~~s---~~~~CeiC~~~Y~i 60 (162)
T PHA02825 6 LMDKCCWICKDEYDV-VT-NYCNCKNENKIVHKECLEEWINTS---KNKSCKICNGPYNI 60 (162)
T ss_pred CCCCeeEecCCCCCC-cc-CCcccCCCchHHHHHHHHHHHhcC---CCCcccccCCeEEE
Confidence 345679999988542 22 4564 3 23899999999854 45799999887753
No 72
>KOG1001|consensus
Probab=95.84 E-value=0.003 Score=56.94 Aligned_cols=47 Identities=32% Similarity=0.575 Sum_probs=35.8
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|.||++ ...++. +.|+|.||..|+...+... ....||+||..+..
T Consensus 455 ~~c~ic~~-~~~~~i-t~c~h~~c~~c~~~~i~~~---~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFI-TRCGHDFCVECLKKSIQQS---ENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-ccccee-ecccchHHHHHHHhccccc---cCCCCcHHHHHHHH
Confidence 78999999 444444 7899999999998865543 12389999977753
No 73
>KOG4445|consensus
Probab=95.76 E-value=0.0027 Score=51.71 Aligned_cols=69 Identities=20% Similarity=0.486 Sum_probs=43.7
Q ss_pred CCcccccccccccCc--cccCccCCcccHhhHHHHHH------------------hcCCCCCCcccCccccccccccccc
Q psy6056 44 PTSRCPICLLVLNNR--SYTDTCLHEFCFLCIKQWSQ------------------ISSESSPALCKMSKQRLLLFASATE 103 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~--~~~~~CgH~FC~~Ci~~~~~------------------~~~~~~~~~CP~Cr~~~~~~~~~~~ 103 (153)
....|.|||.-|.+. ...+.|-|.|++.|+.+++. ..+..-...||+||..|..-..+++
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~slk 193 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSLK 193 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccccee
Confidence 345699999988842 45579999999999987642 1111123579999988875333332
Q ss_pred cccccceEec
Q psy6056 104 CLQYINVYDI 113 (153)
Q Consensus 104 ~~~~~~~~~~ 113 (153)
. ..+++|.+
T Consensus 194 ~-a~~Pt~~l 202 (368)
T KOG4445|consen 194 I-AEFPTYPM 202 (368)
T ss_pred c-cCCCcccc
Confidence 2 23344444
No 74
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.75 E-value=0.01 Score=47.46 Aligned_cols=50 Identities=18% Similarity=0.245 Sum_probs=39.7
Q ss_pred CCCCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 42 TSPTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
......|||....|.. -+.+.+|||.|+..+|.... .. ..||+|-.+|..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~-----~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KS-----KKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-cc-----ccccccCCcccc
Confidence 4566789999999863 35667999999999998863 23 689999888764
No 75
>KOG2114|consensus
Probab=95.67 E-value=0.0022 Score=58.34 Aligned_cols=44 Identities=20% Similarity=0.323 Sum_probs=36.8
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|.+|--.+.-|++--.|||+||..|+. ... ..||.|+.....
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~-----~~CP~C~~e~~~ 884 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKE-----DKCPKCLPELRG 884 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc---cCc-----ccCCccchhhhh
Confidence 57999999999999878999999999986 233 799999875543
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.41 E-value=0.011 Score=49.14 Aligned_cols=50 Identities=16% Similarity=0.536 Sum_probs=34.5
Q ss_pred CCCccccccccccc--Cccc-cCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 43 SPTSRCPICLLVLN--NRSY-TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 43 ~~~~~C~ICl~~~~--~~~~-~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
++++.||.|++.+. +.-. .-+||...|.-|-....+.- ...||-||..+.
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l----ngrcpacrr~y~ 64 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL----NGRCPACRRKYD 64 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc----cCCChHhhhhcc
Confidence 34456999999977 3322 23789988888865544332 279999998775
No 77
>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=95.29 E-value=0.0062 Score=36.73 Aligned_cols=48 Identities=17% Similarity=0.399 Sum_probs=25.2
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
+.|||....+..|+....|.|.-|++- ..|+........-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 579999999999999889999988765 344433211223679999753
No 78
>PHA02862 5L protein; Provisional
Probab=95.12 E-value=0.019 Score=42.13 Aligned_cols=46 Identities=24% Similarity=0.478 Sum_probs=34.2
Q ss_pred cccccccccccCccccCccCC-----cccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLH-----EFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH-----~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
..|-||.+.-.+. . .||.- .-|..|+.+|+..+ +...|++|+.++.
T Consensus 3 diCWIC~~~~~e~-~-~PC~C~GS~K~VHq~CL~~WIn~S---~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER-N-NFCGCNEEYKVVHIKCMQLWINYS---KKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC-c-ccccccCcchhHHHHHHHHHHhcC---CCcCccCCCCeEE
Confidence 5699999986544 2 46643 35899999999753 4589999998775
No 79
>KOG0298|consensus
Probab=95.00 E-value=0.0052 Score=58.19 Aligned_cols=49 Identities=33% Similarity=0.542 Sum_probs=41.3
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
......|.||++.+.+-.....|||.+|..|+..|...+ ..||.|+...
T Consensus 1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~-----s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYAS-----SRCPICKSIK 1198 (1394)
T ss_pred hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHh-----ccCcchhhhh
Confidence 455568999999999555557899999999999999998 8999997444
No 80
>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=94.94 E-value=0.0078 Score=41.02 Aligned_cols=34 Identities=26% Similarity=0.529 Sum_probs=26.7
Q ss_pred CCCCCcccccccccccCc-cccCccCCcccHhhHH
Q psy6056 41 PTSPTSRCPICLLVLNNR-SYTDTCLHEFCFLCIK 74 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~-~~~~~CgH~FC~~Ci~ 74 (153)
...++..|++|-..+.+. ....||||.||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 345667799999998854 4445999999999974
No 81
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.89 E-value=0.03 Score=46.93 Aligned_cols=31 Identities=16% Similarity=0.564 Sum_probs=22.9
Q ss_pred cccHhhHHHHHHhcC--------CCCCCcccCccccccc
Q psy6056 67 EFCFLCIKQWSQISS--------ESSPALCKMSKQRLLL 97 (153)
Q Consensus 67 ~FC~~Ci~~~~~~~~--------~~~~~~CP~Cr~~~~~ 97 (153)
..|.+|+-+|...++ -.+...||.||+.|.-
T Consensus 314 mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 314 MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 447899999977543 2335789999998864
No 82
>KOG3970|consensus
Probab=94.87 E-value=0.025 Score=44.52 Aligned_cols=54 Identities=17% Similarity=0.397 Sum_probs=40.4
Q ss_pred CCCccccccccccc--CccccCccCCcccHhhHHHHHHhcC---CCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISS---ESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~Cr~~~~~ 97 (153)
+....|..|-..+. +.+. ..|-|.|++.|+.+|...-+ ......||-|.++|..
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 34456999988877 3344 47999999999999976422 5556899999887753
No 83
>KOG1814|consensus
Probab=94.83 E-value=0.012 Score=49.71 Aligned_cols=50 Identities=26% Similarity=0.389 Sum_probs=34.9
Q ss_pred CCCcccccccccccC--ccccCccCCcccHhhHHHHHHhcC---CCCCCcccCcc
Q psy6056 43 SPTSRCPICLLVLNN--RSYTDTCLHEFCFLCIKQWSQISS---ESSPALCKMSK 92 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~--~~~~~~CgH~FC~~Ci~~~~~~~~---~~~~~~CP~Cr 92 (153)
.....|.||++.... -.+..+|+|.||..|+..|..... ..+...||-+.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 334569999998663 345569999999999999855322 33346787664
No 84
>KOG4185|consensus
Probab=94.57 E-value=0.023 Score=45.94 Aligned_cols=45 Identities=22% Similarity=0.437 Sum_probs=35.4
Q ss_pred ccccccccccc------CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 46 SRCPICLLVLN------NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 46 ~~C~ICl~~~~------~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
..|-||-+.|. .|..+ .|||.||..|+.+..... ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~----~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNS----RILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCc----eeeccCCCCcc
Confidence 45999988887 35554 599999999998866554 37899999884
No 85
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.56 E-value=0.025 Score=33.62 Aligned_cols=41 Identities=22% Similarity=0.522 Sum_probs=25.5
Q ss_pred cccccccccCcc-ccCccC--C---cccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRS-YTDTCL--H---EFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~-~~~~Cg--H---~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
|-||++.-.+.. +..||+ - ..|..||.+|+..+ ....|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~---~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRES---GNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHH---T-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhc---CCCcCCCC
Confidence 678888766332 335664 2 46899999998853 23678887
No 86
>KOG2932|consensus
Probab=94.21 E-value=0.015 Score=47.74 Aligned_cols=42 Identities=21% Similarity=0.597 Sum_probs=28.6
Q ss_pred cccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
|--|--.+..-..+.+|.|.||.+|... ... +.||+|-..+.
T Consensus 93 Cd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~d-----K~Cp~C~d~Vq 134 (389)
T KOG2932|consen 93 CDRCDFPIAIYGRMIPCKHVFCLECARS--DSD-----KICPLCDDRVQ 134 (389)
T ss_pred ecccCCcceeeecccccchhhhhhhhhc--Ccc-----ccCcCcccHHH
Confidence 6666555554444569999999999642 223 79999965554
No 87
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.08 E-value=0.024 Score=34.85 Aligned_cols=45 Identities=18% Similarity=0.301 Sum_probs=31.3
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
...|-.|...-...++ .+|||..|..|..-+ ....||.|-.++..
T Consensus 7 ~~~~~~~~~~~~~~~~-~pCgH~I~~~~f~~~-------rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTV-LPCGHLICDNCFPGE-------RYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEcccccccccc-ccccceeeccccChh-------hccCCCCCCCcccC
Confidence 3457777665445555 589999999996432 23799999887653
No 88
>KOG1812|consensus
Probab=94.05 E-value=0.043 Score=46.45 Aligned_cols=47 Identities=26% Similarity=0.530 Sum_probs=30.6
Q ss_pred CCcccccccccccCc---cccCccCCcccHhhHHHHHHhcC-CCCCCcccC
Q psy6056 44 PTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISS-ESSPALCKM 90 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~ 90 (153)
....|.||+...... .....|+|.||..|..++...+. .+....||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 356799999333321 12347999999999999877432 333466753
No 89
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.04 E-value=0.042 Score=39.79 Aligned_cols=51 Identities=16% Similarity=0.361 Sum_probs=38.4
Q ss_pred CcccccccccccCccccC---ccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNRSYTD---TCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~---~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
-..|.||.|.-.+...+. -||...|..|-...++.. .-...||.|+..+.+
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~--~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFC--NLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHc--ccCCCCCcccccccc
Confidence 356999999877765544 599999999987755531 234899999988765
No 90
>KOG1428|consensus
Probab=94.02 E-value=0.037 Score=53.63 Aligned_cols=57 Identities=16% Similarity=0.272 Sum_probs=39.7
Q ss_pred CCCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcC-----CCCCCcccCccccccc
Q psy6056 41 PTSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISS-----ESSPALCKMSKQRLLL 97 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~-----~~~~~~CP~Cr~~~~~ 97 (153)
..+.+.+|-||+..-- .|.+...|+|.|+..|....+...= .-....||+|+..+..
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 4567788999976543 4555458999999999876544321 1123689999988764
No 91
>KOG3002|consensus
Probab=93.85 E-value=0.038 Score=45.30 Aligned_cols=47 Identities=19% Similarity=0.345 Sum_probs=36.4
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..-..||||.+.+..|+.--.=||.-|..|-. +.. ..||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~-----~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVS-----NKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcccceecCCCcEehhhhhh---hhc-----ccCCcccccccc
Confidence 34457999999999988732338999999963 344 799999998874
No 92
>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=93.75 E-value=0.017 Score=41.84 Aligned_cols=35 Identities=29% Similarity=0.513 Sum_probs=26.5
Q ss_pred cccccccccccC--ccccCccC------CcccHhhHHHHHHhc
Q psy6056 46 SRCPICLLVLNN--RSYTDTCL------HEFCFLCIKQWSQIS 80 (153)
Q Consensus 46 ~~C~ICl~~~~~--~~~~~~Cg------H~FC~~Ci~~~~~~~ 80 (153)
..|.||++.+.+ .++..+|| |.||..|+.+|....
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 459999999887 44434675 679999999995433
No 93
>KOG1952|consensus
Probab=93.70 E-value=0.053 Score=49.69 Aligned_cols=52 Identities=23% Similarity=0.481 Sum_probs=36.9
Q ss_pred CcccccccccccC--cc-ccCccCCcccHhhHHHHHHhcC--CCCCCcccCcccccc
Q psy6056 45 TSRCPICLLVLNN--RS-YTDTCLHEFCFLCIKQWSQISS--ESSPALCKMSKQRLL 96 (153)
Q Consensus 45 ~~~C~ICl~~~~~--~~-~~~~CgH~FC~~Ci~~~~~~~~--~~~~~~CP~Cr~~~~ 96 (153)
...|.||++.+.. ++ .-.+|-|.|+..||.+|..... ....-.||.|+....
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 3469999998873 32 1126789999999999987532 234568999984443
No 94
>KOG4367|consensus
Probab=93.21 E-value=0.05 Score=46.70 Aligned_cols=35 Identities=20% Similarity=0.561 Sum_probs=29.5
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHH
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ 78 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~ 78 (153)
.+++.|+||...|.+|+++ +|+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIIL-PCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEe-ecccHHHHHHHHhhcc
Confidence 3567899999999999995 7999999999876544
No 95
>KOG3579|consensus
Probab=92.98 E-value=0.095 Score=42.62 Aligned_cols=47 Identities=26% Similarity=0.649 Sum_probs=33.8
Q ss_pred CCCCcccccccccccCccccCcc----CCcccHhhHHHHHHhcCCCCCCccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTC----LHEFCFLCIKQWSQISSESSPALCK 89 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~C----gH~FC~~Ci~~~~~~~~~~~~~~CP 89 (153)
....+.|.+|.|.+.|.-.+ .| .|.||+.|-.+-++..-......||
T Consensus 265 ~~apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Qg~sgevYCP 315 (352)
T KOG3579|consen 265 PSAPLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQGASGEVYCP 315 (352)
T ss_pred CCCceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhhcCCCceeCC
Confidence 44557899999999986553 35 7999999998877754333345555
No 96
>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=92.96 E-value=0.088 Score=30.67 Aligned_cols=41 Identities=17% Similarity=0.369 Sum_probs=21.7
Q ss_pred cccccccccCccccC--ccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 48 CPICLLVLNNRSYTD--TCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 48 C~ICl~~~~~~~~~~--~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
|.+|.+.......-. .|+=.+|..|+..++.... ...||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~---~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS---NPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S---S-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC---CCCCcCC
Confidence 667877666444322 5888999999999887651 1379987
No 97
>KOG1940|consensus
Probab=92.36 E-value=0.085 Score=42.72 Aligned_cols=42 Identities=21% Similarity=0.392 Sum_probs=34.5
Q ss_pred ccccccccccc----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 46 SRCPICLLVLN----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 46 ~~C~ICl~~~~----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
..||||.+.+. .+.. .+|||.-+..|+....... ..||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~-~~CgH~~h~~cf~e~~~~~-----y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGV-LKCGHYMHSRCFEEMICEG-----YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCc-cCcccchHHHHHHHHhccC-----CCCCcccc
Confidence 34999998766 3444 4899999999999887776 99999988
No 98
>KOG1100|consensus
Probab=92.19 E-value=0.21 Score=38.84 Aligned_cols=40 Identities=18% Similarity=0.371 Sum_probs=29.4
Q ss_pred cccccccccCccccCccCC-cccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 48 CPICLLVLNNRSYTDTCLH-EFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH-~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
|-.|-+.-.. +++.||.| .+|..|-.. ...||+|+.+..+
T Consensus 161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~---------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREAT-VLLLPCRHLCLCGICDES---------LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCce-EEeecccceEeccccccc---------CccCCCCcChhhc
Confidence 9999886555 45569998 489999421 2689999876654
No 99
>KOG3053|consensus
Probab=91.97 E-value=0.12 Score=41.43 Aligned_cols=57 Identities=12% Similarity=0.338 Sum_probs=40.5
Q ss_pred CCCCCcccccccccccCccc---cCccC-----CcccHhhHHHHHHhcCC---CCCCcccCccccccc
Q psy6056 41 PTSPTSRCPICLLVLNNRSY---TDTCL-----HEFCFLCIKQWSQISSE---SSPALCKMSKQRLLL 97 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~~---~~~Cg-----H~FC~~Ci~~~~~~~~~---~~~~~CP~Cr~~~~~ 97 (153)
....+..|-||+..-.|... ..||. |--|..||..|...+.. .+...||.|+..+.-
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 34556789999987664322 23552 56789999999876543 556799999987764
No 100
>KOG3039|consensus
Probab=91.93 E-value=0.11 Score=41.45 Aligned_cols=34 Identities=15% Similarity=0.071 Sum_probs=29.6
Q ss_pred CCcccccccccccCccccCccCCcccHhhHHHHHH
Q psy6056 44 PTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQ 78 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~ 78 (153)
+-..|+.||.++.+|++ ++=||.||..||.+++.
T Consensus 42 ~FdcCsLtLqPc~dPvi-t~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVI-TPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCCcc-CCCCeeeeHHHHHHHHH
Confidence 34579999999999999 68999999999998754
No 101
>KOG2034|consensus
Probab=91.87 E-value=0.067 Score=49.21 Aligned_cols=36 Identities=25% Similarity=0.376 Sum_probs=29.3
Q ss_pred CCCCccccccccccc-CccccCccCCcccHhhHHHHH
Q psy6056 42 TSPTSRCPICLLVLN-NRSYTDTCLHEFCFLCIKQWS 77 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~-~~~~~~~CgH~FC~~Ci~~~~ 77 (153)
..+...|.+|...+- .|.++-+|||.||+.||.+..
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence 455677999988876 666777999999999998753
No 102
>KOG3268|consensus
Probab=91.53 E-value=0.14 Score=39.05 Aligned_cols=51 Identities=18% Similarity=0.391 Sum_probs=34.1
Q ss_pred ccccccccccCccc------cCccCCcccHhhHHHHHHhcC------CCCCCcccCccccccc
Q psy6056 47 RCPICLLVLNNRSY------TDTCLHEFCFLCIKQWSQISS------ESSPALCKMSKQRLLL 97 (153)
Q Consensus 47 ~C~ICl~~~~~~~~------~~~CgH~FC~~Ci~~~~~~~~------~~~~~~CP~Cr~~~~~ 97 (153)
.|.||+..--+.+. -..||..||.-|+..|+..-- +.-...||.|..++..
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 58888765333221 127999999999999987421 1113679999877653
No 103
>KOG3800|consensus
Probab=90.88 E-value=0.17 Score=41.10 Aligned_cols=46 Identities=26% Similarity=0.515 Sum_probs=32.8
Q ss_pred cccccccc-ccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 47 RCPICLLV-LNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 47 ~C~ICl~~-~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
.||+|... +.+| .+..+|+|..|.+|........ ...||.|-..+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g----~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG----PAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcC----CCCCCcccchhh
Confidence 48899544 3344 2335999999999998866654 389999965543
No 104
>KOG4362|consensus
Probab=89.37 E-value=0.088 Score=47.40 Aligned_cols=48 Identities=27% Similarity=0.586 Sum_probs=35.9
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
..|+||+..+..|+. ..|-|.||..|+..-+... .....||+|+..+.
T Consensus 22 lEc~ic~~~~~~p~~-~kc~~~~l~~~~n~~f~~~--~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKEPSL-LKCDHIFLKFCLNKLFESK--KGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeeccch-hhhhHHHHhhhhhceeecc--Cccccchhhhhhhh
Confidence 459999999999966 5799999999987733321 11378999985443
No 105
>KOG3161|consensus
Probab=89.05 E-value=0.16 Score=45.54 Aligned_cols=40 Identities=28% Similarity=0.531 Sum_probs=30.4
Q ss_pred CCccccccccccc----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 44 PTSRCPICLLVLN----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 44 ~~~~C~ICl~~~~----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
+-..|+||+..|. .|+.+ -|||..|..|+...-. .+|| |+
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn-------~scp-~~ 53 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYN-------ASCP-TK 53 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhh-------ccCC-CC
Confidence 3457999987776 56774 6999999999977444 5788 54
No 106
>KOG1815|consensus
Probab=88.31 E-value=0.34 Score=41.67 Aligned_cols=54 Identities=17% Similarity=0.309 Sum_probs=37.2
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCC-C--Ccc--cCcccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESS-P--ALC--KMSKQRLL 96 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~-~--~~C--P~Cr~~~~ 96 (153)
.....|.||.+.+........|||.||..|...++..+-... . .+| +-|++.+.
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~ 126 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVG 126 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCC
Confidence 455789999999876444458999999999999877543111 1 345 45665554
No 107
>KOG0825|consensus
Probab=87.91 E-value=0.52 Score=43.35 Aligned_cols=59 Identities=10% Similarity=0.181 Sum_probs=37.9
Q ss_pred CCCcccccccccccCcc------ccCccCCcccHhhHHHHHHhcC-CCCCCcccCccccccccccc
Q psy6056 43 SPTSRCPICLLVLNNRS------YTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSKQRLLLFASA 101 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~------~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~~~~~ 101 (153)
....+|.||...+.+++ .+..|+|.||..||..|..+-. ......|++|..-|..+-+.
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~ 159 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC 159 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh
Confidence 44456677666555421 1135999999999999987521 22346789998777665433
No 108
>KOG0824|consensus
Probab=87.50 E-value=0.51 Score=38.71 Aligned_cols=57 Identities=19% Similarity=0.413 Sum_probs=46.9
Q ss_pred CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccccc
Q psy6056 41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASAT 102 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~ 102 (153)
.......|-||...+.-|.....|+|.||..|...|.... ..||-|+......+-..
T Consensus 101 ~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~-----~~~~d~~~~~~pv~aG~ 157 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMG-----NDCPDCRGKISPVLAGM 157 (324)
T ss_pred ccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhh-----hccchhhcCcCceeccC
Confidence 3456678999999998887766899999999999999988 89999998877654443
No 109
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.36 E-value=0.22 Score=39.73 Aligned_cols=49 Identities=27% Similarity=0.569 Sum_probs=33.9
Q ss_pred CCccccccccc-ccCcc---ccCc-cCCcccHhhHHHHHHhcCCCCCCccc--Ccccccc
Q psy6056 44 PTSRCPICLLV-LNNRS---YTDT-CLHEFCFLCIKQWSQISSESSPALCK--MSKQRLL 96 (153)
Q Consensus 44 ~~~~C~ICl~~-~~~~~---~~~~-CgH~FC~~Ci~~~~~~~~~~~~~~CP--~Cr~~~~ 96 (153)
.+..||||... +-+|- .+.| |-|..|-+|..+.+... ...|| -|-+.+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G----pAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG----PAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC----CCCCCCccHHHHHH
Confidence 44579999765 33442 2234 99999999999976654 27898 7865544
No 110
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=86.24 E-value=0.32 Score=29.04 Aligned_cols=36 Identities=22% Similarity=0.481 Sum_probs=22.7
Q ss_pred cCccccCccC-CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 56 NNRSYTDTCL-HEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 56 ~~~~~~~~Cg-H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.+...+ .|. |..|..|+...+..+ ..||+|..++..
T Consensus 11 ~~k~Li-~C~dHYLCl~CLt~ml~~s-----~~C~iC~~~LPt 47 (50)
T PF03854_consen 11 ANKGLI-KCSDHYLCLNCLTLMLSRS-----DRCPICGKPLPT 47 (50)
T ss_dssp --SSEE-E-SS-EEEHHHHHHT-SSS-----SEETTTTEE---
T ss_pred cCCCee-eecchhHHHHHHHHHhccc-----cCCCcccCcCcc
Confidence 344443 575 889999999888777 899999877643
No 111
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=84.43 E-value=0.082 Score=34.14 Aligned_cols=41 Identities=29% Similarity=0.532 Sum_probs=23.5
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..||.|...+.-.. +|.+|..|-..+... ..||-|.+++..
T Consensus 2 ~~CP~C~~~L~~~~-----~~~~C~~C~~~~~~~------a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-----GHYHCEACQKDYKKE------AFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-----TEEEETTT--EEEEE------EE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-----CEEECccccccceec------ccCCCcccHHHH
Confidence 46999988754321 788899997665443 599999887764
No 112
>KOG3899|consensus
Probab=84.36 E-value=0.55 Score=38.45 Aligned_cols=34 Identities=18% Similarity=0.401 Sum_probs=24.1
Q ss_pred cCCcccHhhHHHHHHhcC--------CCCCCcccCccccccc
Q psy6056 64 CLHEFCFLCIKQWSQISS--------ESSPALCKMSKQRLLL 97 (153)
Q Consensus 64 CgH~FC~~Ci~~~~~~~~--------~~~~~~CP~Cr~~~~~ 97 (153)
|....|.+|+-+|..... -.++..||+||+.+.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 455678899999865432 2335789999998764
No 113
>KOG2817|consensus
Probab=84.22 E-value=0.77 Score=38.89 Aligned_cols=51 Identities=16% Similarity=0.154 Sum_probs=36.9
Q ss_pred CCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 42 TSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
-..-..|||=.+.-. +|.+...|||..+..=|.+.++.. ...-.||.|-..
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng--~~sfKCPYCP~e 383 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNG--SQSFKCPYCPVE 383 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCC--CeeeeCCCCCcc
Confidence 344568999876544 454445899999999999988754 224789999643
No 114
>KOG1812|consensus
Probab=82.18 E-value=0.54 Score=39.87 Aligned_cols=40 Identities=28% Similarity=0.845 Sum_probs=28.8
Q ss_pred ccccccccccc-----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 46 SRCPICLLVLN-----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 46 ~~C~ICl~~~~-----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
..||+|.-.+. +.+.-+ |||-||+.|...|.... ..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~-----~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHN-----GECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCC-----ccccCc
Confidence 45888866544 445544 99999999999987766 566555
No 115
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=77.27 E-value=1.6 Score=22.62 Aligned_cols=22 Identities=23% Similarity=0.608 Sum_probs=10.5
Q ss_pred ccccccccccCc-cccCccCCcc
Q psy6056 47 RCPICLLVLNNR-SYTDTCLHEF 68 (153)
Q Consensus 47 ~C~ICl~~~~~~-~~~~~CgH~F 68 (153)
.||-|...+... ..-..|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 366665554422 2222466655
No 116
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=76.78 E-value=1.4 Score=26.69 Aligned_cols=26 Identities=19% Similarity=0.469 Sum_probs=13.4
Q ss_pred CccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 62 DTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 62 ~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
..|++.||.+|= -++... .-.||-|-
T Consensus 25 ~~C~~~FC~dCD-~fiHE~----LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCD-VFIHET----LHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHH-HTTTTT----S-SSSTT-
T ss_pred CCCCCccccCcC-hhhhcc----ccCCcCCC
Confidence 479999999993 222222 36888873
No 117
>KOG0827|consensus
Probab=76.49 E-value=0.39 Score=40.71 Aligned_cols=49 Identities=14% Similarity=0.224 Sum_probs=38.6
Q ss_pred CCcccccccccccC---ccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 44 PTSRCPICLLVLNN---RSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 44 ~~~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
....|+||.+.+.. .....-|||.++..||.+|+... ..||.|+..+..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~-----~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATK-----RKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHH-----HHhHHHHhhhhh
Confidence 34469999888772 22224699999999999999988 899999887753
No 118
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2068|consensus
Probab=75.59 E-value=1.8 Score=35.89 Aligned_cols=47 Identities=23% Similarity=0.510 Sum_probs=35.0
Q ss_pred Cccccccccccc---CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 45 TSRCPICLLVLN---NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 45 ~~~C~ICl~~~~---~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
...|+||.+... ...+..+|++..|..|+..-.... ..||.||+++.
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~-----~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD-----GRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccC-----CCCCccCCccc
Confidence 367999999764 233434799999999987766665 89999995543
No 120
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=73.22 E-value=6.5 Score=25.92 Aligned_cols=51 Identities=18% Similarity=0.277 Sum_probs=19.3
Q ss_pred CCccccccccccc-----Ccc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccc
Q psy6056 44 PTSRCPICLLVLN-----NRS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLF 98 (153)
Q Consensus 44 ~~~~C~ICl~~~~-----~~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~ 98 (153)
....|-||-+.+. ++. .-..|+--.|..|..-=.+.. ...||.|+..+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg----~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG----NQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-----SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC----cccccccCCCcccc
Confidence 4567999988765 221 112677778999975433322 38999999877653
No 121
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.78 E-value=3.8 Score=28.85 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=29.7
Q ss_pred cccccccccccCcc-------------ccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 46 SRCPICLLVLNNRS-------------YTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 46 ~~C~ICl~~~~~~~-------------~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
..|--|+..|..+. .-..|++.||.+|=.-+-..- ..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~L-----h~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESL-----HCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhc-----cCCcCCC
Confidence 45999988876542 134799999999955544444 6899885
No 122
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=72.50 E-value=2.3 Score=27.10 Aligned_cols=13 Identities=31% Similarity=0.986 Sum_probs=9.3
Q ss_pred cccHhhHHHHHHh
Q psy6056 67 EFCFLCIKQWSQI 79 (153)
Q Consensus 67 ~FC~~Ci~~~~~~ 79 (153)
-||..||.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999764
No 123
>KOG4718|consensus
Probab=72.16 E-value=2.1 Score=33.52 Aligned_cols=43 Identities=16% Similarity=0.429 Sum_probs=34.4
Q ss_pred cccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 46 SRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
..|.+|.......+.-.+|+-.++..|+.++.+.. ..||.|-.
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~-----~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRR-----DICPHCGD 224 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhccc-----CcCCchhc
Confidence 36999988766555445788889999999999987 89999954
No 124
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=72.02 E-value=0.5 Score=38.28 Aligned_cols=44 Identities=18% Similarity=0.358 Sum_probs=22.6
Q ss_pred CcccccccccccCccccCc----cCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 45 TSRCPICLLVLNNRSYTDT----CLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~----CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
...||||-....-.++... =.|.+|..|-..|.... ..||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-----~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-----IKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-----TS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-----CCCcCCCC
Confidence 3579999887654333222 24678999999998877 89999943
No 125
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=71.87 E-value=1.1 Score=28.04 Aligned_cols=32 Identities=25% Similarity=0.397 Sum_probs=15.7
Q ss_pred CCcccccccccccCc---cccCccCCcccHhhHHH
Q psy6056 44 PTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQ 75 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~ 75 (153)
+...|.+|...|.-- ---..||+.||..|...
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 446799999998521 12237999999999743
No 126
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=71.78 E-value=0.74 Score=28.05 Aligned_cols=15 Identities=40% Similarity=1.156 Sum_probs=12.9
Q ss_pred ccCCcccHhhHHHHH
Q psy6056 63 TCLHEFCFLCIKQWS 77 (153)
Q Consensus 63 ~CgH~FC~~Ci~~~~ 77 (153)
.|+|.||+.|...|-
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999987774
No 127
>KOG0309|consensus
Probab=71.27 E-value=2.6 Score=38.81 Aligned_cols=39 Identities=26% Similarity=0.686 Sum_probs=27.8
Q ss_pred cccccccccc-CccccCccCCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056 47 RCPICLLVLN-NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90 (153)
Q Consensus 47 ~C~ICl~~~~-~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~ 90 (153)
.|.||--.+. ...+.-.|+|..|.+|...|+... ..||-
T Consensus 1030 ~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~g-----d~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTG-----DVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchhhccccccccHHHHHHHHhcC-----CcCCC
Confidence 4666644433 223334799999999999999987 78874
No 128
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=70.67 E-value=7.1 Score=36.44 Aligned_cols=49 Identities=16% Similarity=0.426 Sum_probs=35.0
Q ss_pred Cccccccccccc--CccccCccCCc-----ccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLN--NRSYTDTCLHE-----FCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~--~~~~~~~CgH~-----FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..|.||...-. +|-. -||.-+ .|.+|+.+|...+ ....|-+|..++..
T Consensus 12 ~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s---~~~kCdiChy~~~F 67 (1175)
T COG5183 12 KRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECS---GTKKCDICHYEYKF 67 (1175)
T ss_pred chhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcC---CCcceeeecceeee
Confidence 367999976533 4544 467543 5899999998853 34799999887764
No 129
>KOG1609|consensus
Probab=70.49 E-value=3.7 Score=32.91 Aligned_cols=50 Identities=18% Similarity=0.392 Sum_probs=34.0
Q ss_pred CcccccccccccCc---cccCccC-----CcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 45 TSRCPICLLVLNNR---SYTDTCL-----HEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 45 ~~~C~ICl~~~~~~---~~~~~Cg-----H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
+..|-||.+..... ....+|. +..|..|+..|...+ +...|..|...+..
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~---~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK---GNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccc---cCeeeeccccccee
Confidence 46899999865422 1334553 346899999998843 33899999765543
No 130
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=66.21 E-value=4.5 Score=24.11 Aligned_cols=31 Identities=26% Similarity=0.418 Sum_probs=21.6
Q ss_pred cccccccccccC---ccccCccCCcccHhhHHHH
Q psy6056 46 SRCPICLLVLNN---RSYTDTCLHEFCFLCIKQW 76 (153)
Q Consensus 46 ~~C~ICl~~~~~---~~~~~~CgH~FC~~Ci~~~ 76 (153)
..|.+|-..|.. ...-..||+.||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 458889777663 2222479999999997654
No 131
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=65.01 E-value=9.3 Score=26.43 Aligned_cols=31 Identities=16% Similarity=0.240 Sum_probs=20.6
Q ss_pred CCcccHhhHHHHHHhcC----CCCCCcccCccccc
Q psy6056 65 LHEFCFLCIKQWSQISS----ESSPALCKMSKQRL 95 (153)
Q Consensus 65 gH~FC~~Ci~~~~~~~~----~~~~~~CP~Cr~~~ 95 (153)
.=.||..||..+..... ....-.||.||..-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 66799999987643211 22346799998743
No 132
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=64.19 E-value=9.9 Score=36.41 Aligned_cols=51 Identities=18% Similarity=0.359 Sum_probs=34.4
Q ss_pred CCCcccccccccccC-----cc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNN-----RS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~-----~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.....|-||-+.+.. +- ....|+---|..|. ++-.. .....||.|++.+..
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~---eG~q~CPqCktrYkr 71 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERK---DGNQSCPQCKTKYKR 71 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhh---cCCccCCccCCchhh
Confidence 445589999998652 21 22367888999997 33221 234899999988874
No 133
>PLN02189 cellulose synthase
Probab=61.48 E-value=10 Score=36.22 Aligned_cols=51 Identities=18% Similarity=0.219 Sum_probs=34.5
Q ss_pred CCCcccccccccccC-----cc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNN-----RS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~-----~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.....|.||-+.+.. +- ....|+---|..|.+-=.+. ....||.|++.+..
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e----g~q~CpqCkt~Y~r 88 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE----GTQNCPQCKTRYKR 88 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc----CCccCcccCCchhh
Confidence 445589999998661 21 22258888899998432222 34899999988874
No 134
>KOG2979|consensus
Probab=60.99 E-value=4.7 Score=32.39 Aligned_cols=46 Identities=20% Similarity=0.117 Sum_probs=36.2
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
--...|||=...+.+|++...|||.|=++=|..++... -...||+=
T Consensus 174 ~fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~---~~i~CPv~ 219 (262)
T KOG2979|consen 174 VFSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDE---ITIRCPVL 219 (262)
T ss_pred hhcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccC---ceeecccc
Confidence 34457999999999999988999999999998877652 12677763
No 135
>PLN02436 cellulose synthase A
Probab=60.19 E-value=13 Score=35.61 Aligned_cols=53 Identities=17% Similarity=0.296 Sum_probs=35.3
Q ss_pred CCCCCccccccccccc-----Cccc-cCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 41 PTSPTSRCPICLLVLN-----NRSY-TDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~-----~~~~-~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.......|.||-+.+. ++-+ ...|+--.|..|.+-=.+. ....||.|++.+..
T Consensus 32 ~~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~e----g~~~Cpqckt~Y~r 90 (1094)
T PLN02436 32 QELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERRE----GNQACPQCKTRYKR 90 (1094)
T ss_pred cccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc----CCccCcccCCchhh
Confidence 3345568999999865 2221 1258888999998432222 34899999988874
No 136
>KOG0269|consensus
Probab=59.39 E-value=19 Score=33.36 Aligned_cols=39 Identities=23% Similarity=0.494 Sum_probs=29.6
Q ss_pred ccccccccccCc-cccCccCCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056 47 RCPICLLVLNNR-SYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90 (153)
Q Consensus 47 ~C~ICl~~~~~~-~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~ 90 (153)
.|.+|-..+... +...-|||.-|.+|+..|.... ..||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~-----s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKA-----SPCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcC-----CCCcc
Confidence 688887766632 2224699999999999999987 66765
No 137
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=58.73 E-value=1.2 Score=23.91 Aligned_cols=29 Identities=17% Similarity=0.241 Sum_probs=14.6
Q ss_pred CCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 65 LHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 65 gH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
.|.||..|-...... ..+....||.|...
T Consensus 2 ~~rfC~~CG~~t~~~-~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 2 NHRFCGRCGAPTKPA-PGGWARRCPSCGHE 30 (32)
T ss_dssp TTSB-TTT--BEEE--SSSS-EEESSSS-E
T ss_pred CCcccCcCCccccCC-CCcCEeECCCCcCE
Confidence 377888887553221 24456788888643
No 138
>KOG0801|consensus
Probab=58.52 E-value=3.6 Score=31.04 Aligned_cols=28 Identities=25% Similarity=0.418 Sum_probs=18.4
Q ss_pred CCCccccccccccc--CccccCccCCcccH
Q psy6056 43 SPTSRCPICLLVLN--NRSYTDTCLHEFCF 70 (153)
Q Consensus 43 ~~~~~C~ICl~~~~--~~~~~~~CgH~FC~ 70 (153)
...-.|.||||.+. +.+...+|.-+|++
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 44557999999987 33333478766653
No 139
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=58.35 E-value=4 Score=33.68 Aligned_cols=45 Identities=22% Similarity=0.445 Sum_probs=32.0
Q ss_pred CCcccccccccccCcccc--CccC--CcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 44 PTSRCPICLLVLNNRSYT--DTCL--HEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~--~~Cg--H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
....||||-....-.++. ..=| |.+|..|-..|.... ..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R-----~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR-----VKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC-----ccCCCCCC
Confidence 456799998875433221 1223 567999999998888 89999964
No 140
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=56.45 E-value=4 Score=33.63 Aligned_cols=44 Identities=18% Similarity=0.400 Sum_probs=31.6
Q ss_pred CcccccccccccCccccC---ccC--CcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 45 TSRCPICLLVLNNRSYTD---TCL--HEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~---~Cg--H~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
...||||-....-.++.. .=| |.+|..|-..|.... ..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R-----~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVR-----VKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccC-----ccCCCCCC
Confidence 347999988765333211 233 567999999998888 89999964
No 141
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=55.41 E-value=5.8 Score=27.79 Aligned_cols=45 Identities=22% Similarity=0.422 Sum_probs=27.1
Q ss_pred Cccccccccccc----CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 45 TSRCPICLLVLN----NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 45 ~~~C~ICl~~~~----~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
+..|.+|...|. ....-..|+|.+|..|-.. ......-.|-+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~----~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY----SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE----TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc----CCCCCCEEChhhHH
Confidence 457999988765 2334447999999999533 11222347888864
No 142
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=53.66 E-value=9.8 Score=23.27 Aligned_cols=29 Identities=17% Similarity=0.443 Sum_probs=23.3
Q ss_pred Cccccccccccc---CccccCccCCcccHhhH
Q psy6056 45 TSRCPICLLVLN---NRSYTDTCLHEFCFLCI 73 (153)
Q Consensus 45 ~~~C~ICl~~~~---~~~~~~~CgH~FC~~Ci 73 (153)
...|++|-+.|. +.++-..||-.+|+.|-
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 456999999994 55666789999999994
No 143
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=52.29 E-value=10 Score=23.42 Aligned_cols=42 Identities=24% Similarity=0.442 Sum_probs=26.6
Q ss_pred ccccccccccCcc-ccCccCC--cccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 47 RCPICLLVLNNRS-YTDTCLH--EFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 47 ~C~ICl~~~~~~~-~~~~CgH--~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
.|-.|-..+.... ...-|.+ +||..|....+. ..||-|-..+
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~-------~~CPNCgGel 51 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN-------GVCPNCGGEL 51 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc-------CcCcCCCCcc
Confidence 4666766555211 1112653 799999887654 7999997654
No 144
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=51.77 E-value=8 Score=30.57 Aligned_cols=23 Identities=22% Similarity=0.528 Sum_probs=16.9
Q ss_pred ccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 68 FCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 68 FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
-|.+|-...-... ..||+|+...
T Consensus 196 ~C~sC~qqIHRNA-----PiCPlCK~Ks 218 (230)
T PF10146_consen 196 TCQSCHQQIHRNA-----PICPLCKAKS 218 (230)
T ss_pred hhHhHHHHHhcCC-----CCCccccccc
Confidence 3889977655545 8999998643
No 145
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=51.71 E-value=9.9 Score=31.67 Aligned_cols=50 Identities=16% Similarity=0.137 Sum_probs=35.0
Q ss_pred CCCCccccccccccc--CccccCccCCcccHhhHHHHHHhcCCCCCCcccCccc
Q psy6056 42 TSPTSRCPICLLVLN--NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQ 93 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~--~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~ 93 (153)
-..-..||+=.+.-. +|.+...|||..=..=+...++.. .....||.|-.
T Consensus 333 fHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG--~~~FKCPYCP~ 384 (396)
T COG5109 333 FHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNG--VLSFKCPYCPE 384 (396)
T ss_pred ccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcC--cEEeeCCCCCc
Confidence 344567998766544 555546899999888888877632 33579999953
No 146
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=51.69 E-value=1.6 Score=26.50 Aligned_cols=30 Identities=37% Similarity=0.968 Sum_probs=16.6
Q ss_pred cccc--cccccc-----Cc--cccCccCCcccHhhHHHH
Q psy6056 47 RCPI--CLLVLN-----NR--SYTDTCLHEFCFLCIKQW 76 (153)
Q Consensus 47 ~C~I--Cl~~~~-----~~--~~~~~CgH~FC~~Ci~~~ 76 (153)
.||- |-..+. .. +.-..|++.||+.|...|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 4766 766554 11 233349999999998766
No 147
>PLN02195 cellulose synthase A
Probab=51.47 E-value=15 Score=34.97 Aligned_cols=50 Identities=14% Similarity=0.307 Sum_probs=33.9
Q ss_pred CCCccccccccccc-----Cc-cccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 43 SPTSRCPICLLVLN-----NR-SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 43 ~~~~~C~ICl~~~~-----~~-~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
+....|.||-+.+. ++ +....|+.--|..|. ++-.. .+...||.|+..+.
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~---eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIK---EGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhh---cCCccCCccCCccc
Confidence 34557999998655 22 122368888999997 43222 23489999998887
No 148
>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=51.10 E-value=6.2 Score=23.65 Aligned_cols=12 Identities=17% Similarity=0.265 Sum_probs=6.6
Q ss_pred CcccCccccccc
Q psy6056 86 ALCKMSKQRLLL 97 (153)
Q Consensus 86 ~~CP~Cr~~~~~ 97 (153)
..||+|.++|..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 499999988875
No 149
>KOG0802|consensus
Probab=50.39 E-value=11 Score=33.23 Aligned_cols=45 Identities=20% Similarity=0.646 Sum_probs=34.1
Q ss_pred CCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.....|.||++.. .... ++|. +..|+.+|...+ ..||+|+..+..
T Consensus 477 ~~~~~~~~~~~~~-~~~~-~~~~---~~~~l~~~~~~~-----~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-SARI-TPCS---HALCLRKWLYVQ-----EVCPLCHTYMKE 521 (543)
T ss_pred cccCcchHHHHHH-Hhcc-cccc---chhHHHhhhhhc-----cccCCCchhhhc
Confidence 4456799999988 3333 5777 578899999888 899999876554
No 150
>PLN02400 cellulose synthase
Probab=49.87 E-value=16 Score=35.06 Aligned_cols=53 Identities=17% Similarity=0.327 Sum_probs=35.1
Q ss_pred CCCCCcccccccccccC-----cc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 41 PTSPTSRCPICLLVLNN-----RS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~-----~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.......|-||-+.+.. +- ....|+---|..|. ++-. ......||.|+..+..
T Consensus 32 ~~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYER---keGnq~CPQCkTrYkR 90 (1085)
T PLN02400 32 KNLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYER---KDGTQCCPQCKTRYRR 90 (1085)
T ss_pred cccCCceeeecccccCcCCCCCEEEEEccCCCccccchh-heec---ccCCccCcccCCcccc
Confidence 33455689999998652 21 22367777899997 3221 2234899999988874
No 151
>KOG4185|consensus
Probab=49.41 E-value=3.3 Score=33.30 Aligned_cols=48 Identities=19% Similarity=0.261 Sum_probs=35.3
Q ss_pred CCCccccccccccc-C-----ccccCc-------cCCcccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 43 SPTSRCPICLLVLN-N-----RSYTDT-------CLHEFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 43 ~~~~~C~ICl~~~~-~-----~~~~~~-------CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
.....|.||...+. + |.++.. |||..|..|+...+... ...||.|+..
T Consensus 205 ~~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~----~~~cp~~~~~ 265 (296)
T KOG4185|consen 205 IIEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQA----GIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHh----hhcCCcccce
Confidence 34467999988877 2 333323 99999999999976654 1799999864
No 152
>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 KOG2066|consensus
Probab=49.22 E-value=4.7 Score=37.20 Aligned_cols=40 Identities=20% Similarity=0.223 Sum_probs=28.7
Q ss_pred CCCCCccccccccccc------CccccCccCCcccHhhHHHHHHhc
Q psy6056 41 PTSPTSRCPICLLVLN------NRSYTDTCLHEFCFLCIKQWSQIS 80 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~------~~~~~~~CgH~FC~~Ci~~~~~~~ 80 (153)
..+.+..|..|.++.. +.+....|||.|+..|+.-....+
T Consensus 780 ~v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 780 LVSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred eEeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 3344457999998866 333335899999999998766654
No 154
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=48.75 E-value=14 Score=33.98 Aligned_cols=55 Identities=20% Similarity=0.452 Sum_probs=35.7
Q ss_pred CCCCCcccccccccccCcc---------ccCccCCcc--------------------cHhhHHHHHHhcC---CCCCCcc
Q psy6056 41 PTSPTSRCPICLLVLNNRS---------YTDTCLHEF--------------------CFLCIKQWSQISS---ESSPALC 88 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~---------~~~~CgH~F--------------------C~~Ci~~~~~~~~---~~~~~~C 88 (153)
-.++-.+|+-|++.+-+|. ..+.||-+| |..|..+|..-.. -.+...|
T Consensus 97 I~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aC 176 (750)
T COG0068 97 IPPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIAC 176 (750)
T ss_pred cCCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccC
Confidence 3456678999999988762 234678777 8888877643110 2234788
Q ss_pred cCccccc
Q psy6056 89 KMSKQRL 95 (153)
Q Consensus 89 P~Cr~~~ 95 (153)
|.|--.+
T Consensus 177 p~CGP~~ 183 (750)
T COG0068 177 PKCGPHL 183 (750)
T ss_pred cccCCCe
Confidence 9995433
No 155
>KOG1729|consensus
Probab=47.36 E-value=7.9 Score=31.66 Aligned_cols=56 Identities=20% Similarity=0.399 Sum_probs=34.0
Q ss_pred CCCCCCcccccccc-cccC---ccccCccCCcccHhhHHH-HH-HhcCCCCCCcccCccccc
Q psy6056 40 RPTSPTSRCPICLL-VLNN---RSYTDTCLHEFCFLCIKQ-WS-QISSESSPALCKMSKQRL 95 (153)
Q Consensus 40 ~~~~~~~~C~ICl~-~~~~---~~~~~~CgH~FC~~Ci~~-~~-~~~~~~~~~~CP~Cr~~~ 95 (153)
.+..+...|.+|.. .|.. .---..||++||..|-.. +. ..........|+.|=..+
T Consensus 163 ~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 163 LPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred cCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 34556678999988 5541 111247999999999654 21 111133345888885444
No 156
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=46.86 E-value=31 Score=33.16 Aligned_cols=51 Identities=14% Similarity=0.315 Sum_probs=34.5
Q ss_pred CCCcccccccccccC-----cc-ccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNN-----RS-YTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~-----~~-~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
-....|-||-+.+.. +- ....|+--.|..|. ++-.. .....||.|++.+..
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~---~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERS---EGNQCCPQCNTRYKR 69 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhh---cCCccCCccCCchhh
Confidence 455679999998652 21 22367888999998 33221 234899999988874
No 157
>KOG1815|consensus
Probab=46.70 E-value=6.1 Score=34.01 Aligned_cols=34 Identities=29% Similarity=0.851 Sum_probs=24.4
Q ss_pred ccccccccccCc-----cccC--ccCCcccHhhHHHHHHhc
Q psy6056 47 RCPICLLVLNNR-----SYTD--TCLHEFCFLCIKQWSQIS 80 (153)
Q Consensus 47 ~C~ICl~~~~~~-----~~~~--~CgH~FC~~Ci~~~~~~~ 80 (153)
.||.|...+..- +... +|.|.||+.|+..|....
T Consensus 228 ~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 228 ECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred cCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 399999887621 2212 499999999988787653
No 158
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=45.76 E-value=5.4 Score=23.89 Aligned_cols=40 Identities=25% Similarity=0.542 Sum_probs=21.6
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
...||.|.+.+....+ +.| |...... ......||+|...+
T Consensus 2 ~f~CP~C~~~~~~~~L---~~H-----~~~~H~~---~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSL---VEH-----CEDEHRS---ESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHHHH---HHH-----HHhHCcC---CCCCccCCCchhhh
Confidence 4579999885443222 222 3332211 22347899997643
No 159
>KOG2169|consensus
Probab=45.46 E-value=29 Score=31.48 Aligned_cols=55 Identities=16% Similarity=0.381 Sum_probs=38.1
Q ss_pred CCCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 41 PTSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 41 ~~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
...-.+.|+|+...+.-|+....|+|.=|++=.. +++.......-.||+|.+...
T Consensus 302 ~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~-~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 302 SLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALS-YLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred cceeEecCCcccceeecCCcccccccceecchhh-hHHhccCCCeeeCccCCcccc
Confidence 3445567999999888887767899977776542 333333455678999976654
No 160
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=44.91 E-value=9.4 Score=30.46 Aligned_cols=46 Identities=22% Similarity=0.274 Sum_probs=36.2
Q ss_pred CCCCcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccC
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKM 90 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~ 90 (153)
.--+..|||=+.+..-|...+.|.|.|=.+=|...++.. ....||.
T Consensus 186 ~~~~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~---~trvcp~ 231 (275)
T COG5627 186 ELLSNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVE---CTRVCPR 231 (275)
T ss_pred hhhcccCCcccCcchhHHHHhhhcccccHHHHHHHhcCC---ceeecch
Confidence 345568999999999998888999999999999888742 1256663
No 161
>KOG4218|consensus
Probab=43.69 E-value=5.4 Score=33.59 Aligned_cols=15 Identities=20% Similarity=0.474 Sum_probs=11.1
Q ss_pred CCCCccccccccccc
Q psy6056 42 TSPTSRCPICLLVLN 56 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~ 56 (153)
...+..||+|-+...
T Consensus 12 edl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 12 EDLGELCPVCGDKVS 26 (475)
T ss_pred cccccccccccCccc
Confidence 345667999988765
No 162
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.11 E-value=13 Score=25.34 Aligned_cols=14 Identities=29% Similarity=0.923 Sum_probs=11.7
Q ss_pred cccHhhHHHHHHhc
Q psy6056 67 EFCFLCIKQWSQIS 80 (153)
Q Consensus 67 ~FC~~Ci~~~~~~~ 80 (153)
-||..|+..|....
T Consensus 42 gFCRNCLs~Wy~ea 55 (104)
T COG3492 42 GFCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHHH
Confidence 49999999998753
No 163
>KOG2231|consensus
Probab=43.08 E-value=16 Score=33.24 Aligned_cols=50 Identities=18% Similarity=0.444 Sum_probs=35.2
Q ss_pred ccccccccccCccccCccCC-cccHhhHHHHHHhcC-CCCCCcccCccccccc
Q psy6056 47 RCPICLLVLNNRSYTDTCLH-EFCFLCIKQWSQISS-ESSPALCKMSKQRLLL 97 (153)
Q Consensus 47 ~C~ICl~~~~~~~~~~~CgH-~FC~~Ci~~~~~~~~-~~~~~~CP~Cr~~~~~ 97 (153)
.|+||-..+.-... ..||| .-|..|..+...... .-....||+||..+..
T Consensus 2 ~c~ic~~s~~~~~~-~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGR-GSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCcccccc-ccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 49999888776666 58999 899999887533210 1223678999986543
No 164
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=42.47 E-value=1.9 Score=29.53 Aligned_cols=49 Identities=22% Similarity=0.475 Sum_probs=14.1
Q ss_pred ccccccccccc--CccccCcc--CCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 46 SRCPICLLVLN--NRSYTDTC--LHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 46 ~~C~ICl~~~~--~~~~~~~C--gH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
..|+||.+.+. +... ..| ||.|= .|....+.-. ....+.|++|...+..
T Consensus 15 E~C~~C~~~i~~~~~~~-~~C~~GH~w~-RC~lT~l~i~-~~~~r~C~~C~~~~l~ 67 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDE-AQCENGHVWP-RCALTFLPIQ-TPGVRVCPVCGRRALD 67 (99)
T ss_dssp --------------SSE-EE-TTS-EEE-B-SSS-SBS--SS-EEE-TTT--EEE-
T ss_pred ccccccccccccCCcCE-eECCCCCEEe-eeeeeeeeec-cCCeeEcCCCCCEEec
Confidence 56999988765 4333 345 78873 4443332221 2334799999765543
No 165
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.99 E-value=16 Score=23.83 Aligned_cols=25 Identities=24% Similarity=0.474 Sum_probs=18.6
Q ss_pred CCcccHhhHHHHHHhcCCCCCCcccCcccccc
Q psy6056 65 LHEFCFLCIKQWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 65 gH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
.|+||..|...-+. ..||-|-..+.
T Consensus 28 EcTFCadCae~~l~-------g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENRLH-------GLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHhhc-------CcCCCCCchhh
Confidence 47999999875443 79999965543
No 166
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.54 E-value=15 Score=26.61 Aligned_cols=39 Identities=15% Similarity=0.191 Sum_probs=25.6
Q ss_pred cccHhhHHHHHHhcCCCCCCcccCccccccccccccccccccceEec
Q psy6056 67 EFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATECLQYINVYDI 113 (153)
Q Consensus 67 ~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 113 (153)
.||..|-.. .- ..||.|..++...++.-..++.-..|+.
T Consensus 29 afcskcgea---ti-----~qcp~csasirgd~~vegvlglg~dye~ 67 (160)
T COG4306 29 AFCSKCGEA---TI-----TQCPICSASIRGDYYVEGVLGLGGDYEP 67 (160)
T ss_pred HHHhhhchH---HH-----hcCCccCCcccccceeeeeeccCCCCCC
Confidence 588888654 22 5899999988765554444444455555
No 167
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=40.74 E-value=15 Score=27.41 Aligned_cols=28 Identities=14% Similarity=0.140 Sum_probs=20.8
Q ss_pred CCcccHhhHHHHHHhcCCCCCCcccCcccccccccc
Q psy6056 65 LHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFAS 100 (153)
Q Consensus 65 gH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 100 (153)
.+.||..|-.+-. ..||.|..+|...++
T Consensus 27 ~~~fC~kCG~~tI--------~~Cp~C~~~IrG~y~ 54 (158)
T PF10083_consen 27 REKFCSKCGAKTI--------TSCPNCSTPIRGDYH 54 (158)
T ss_pred HHHHHHHhhHHHH--------HHCcCCCCCCCCcee
Confidence 4679999986532 589999988876433
No 168
>KOG3799|consensus
Probab=39.96 E-value=14 Score=27.06 Aligned_cols=49 Identities=24% Similarity=0.528 Sum_probs=25.2
Q ss_pred CCCCcccccccccccCccccCccCCc-------ccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 42 TSPTSRCPICLLVLNNRSYTDTCLHE-------FCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~~~~~~~~CgH~-------FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
...+.+|.||+..- ...-|||. ||..|--+-... +..-.-.|-+|+...
T Consensus 62 v~ddatC~IC~KTK----FADG~GH~C~YCq~r~CARCGGrv~lr-sNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTK----FADGCGHNCSYCQTRFCARCGGRVSLR-SNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhcc----cccccCcccchhhhhHHHhcCCeeeec-cCceEEeccCCcHHH
Confidence 45567899998752 11346663 444553321111 011234688887544
No 169
>PF11809 DUF3330: Domain of unknown function (DUF3330); InterPro: IPR021767 This family of proteins are functionally uncharacterised. This family is only found in bacteria.
Probab=39.89 E-value=17 Score=23.22 Aligned_cols=37 Identities=19% Similarity=0.515 Sum_probs=24.4
Q ss_pred CCcccccccccccCccccCccC----Cccc-HhhHHHHHHhc
Q psy6056 44 PTSRCPICLLVLNNRSYTDTCL----HEFC-FLCIKQWSQIS 80 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~~~Cg----H~FC-~~Ci~~~~~~~ 80 (153)
.-..|-+|+..+......++=+ +.|| ..|..+|....
T Consensus 10 ~~~sC~vC~KEIPl~~a~t~E~~eYV~hFCGLeCY~~w~a~~ 51 (70)
T PF11809_consen 10 KTTSCCVCCKEIPLDAAFTPEAAEYVEHFCGLECYQRWQARA 51 (70)
T ss_pred ccchHHHHhhhCChhhccCcchHHHHHHHhhHHHHHHHHHHH
Confidence 3467999988876332224443 4577 58999998754
No 170
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=39.25 E-value=20 Score=18.88 Aligned_cols=25 Identities=12% Similarity=0.119 Sum_probs=13.5
Q ss_pred cccccccccCc-cccCccCCcccHhh
Q psy6056 48 CPICLLVLNNR-SYTDTCLHEFCFLC 72 (153)
Q Consensus 48 C~ICl~~~~~~-~~~~~CgH~FC~~C 72 (153)
|..|-+.+... ..+..=+..||..|
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C 27 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC 27 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC
Confidence 67777766643 22223345566555
No 171
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=38.89 E-value=3.6 Score=20.56 Aligned_cols=7 Identities=14% Similarity=0.444 Sum_probs=3.5
Q ss_pred CcccCcc
Q psy6056 86 ALCKMSK 92 (153)
Q Consensus 86 ~~CP~Cr 92 (153)
..||.|-
T Consensus 14 ~fC~~CG 20 (23)
T PF13240_consen 14 KFCPNCG 20 (23)
T ss_pred cchhhhC
Confidence 4555553
No 172
>KOG4451|consensus
Probab=38.17 E-value=16 Score=29.03 Aligned_cols=23 Identities=22% Similarity=0.628 Sum_probs=16.7
Q ss_pred ccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 68 FCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 68 FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
-|..|..+.-... ..||+|+...
T Consensus 251 ~ClsChqqIHRNA-----PiCPlCKaKs 273 (286)
T KOG4451|consen 251 VCLSCHQQIHRNA-----PICPLCKAKS 273 (286)
T ss_pred HHHHHHHHHhcCC-----CCCcchhhcc
Confidence 4788877655555 8999998643
No 173
>KOG1814|consensus
Probab=37.29 E-value=15 Score=31.63 Aligned_cols=34 Identities=32% Similarity=0.823 Sum_probs=24.8
Q ss_pred CCCccccccccccc-----CccccCccCCcccHhhHHHH
Q psy6056 43 SPTSRCPICLLVLN-----NRSYTDTCLHEFCFLCIKQW 76 (153)
Q Consensus 43 ~~~~~C~ICl~~~~-----~~~~~~~CgH~FC~~Ci~~~ 76 (153)
+....||-|.-++. +.+.-+.|||.||+.|-...
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l 404 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELL 404 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhc
Confidence 34456999987766 45666789999999996543
No 174
>KOG2807|consensus
Probab=35.39 E-value=24 Score=29.58 Aligned_cols=11 Identities=18% Similarity=0.286 Sum_probs=5.1
Q ss_pred CcccCcccccc
Q psy6056 86 ALCKMSKQRLL 96 (153)
Q Consensus 86 ~~CP~Cr~~~~ 96 (153)
..|+.|+..|.
T Consensus 346 y~C~~Ck~~FC 356 (378)
T KOG2807|consen 346 YRCESCKNVFC 356 (378)
T ss_pred EEchhccceee
Confidence 44455544443
No 175
>KOG1356|consensus
Probab=35.21 E-value=8.2 Score=35.92 Aligned_cols=50 Identities=24% Similarity=0.484 Sum_probs=31.5
Q ss_pred CCcccccccccccC-ccccCccCCcccHhhHHHHH-HhcCCCCCCcccCccc
Q psy6056 44 PTSRCPICLLVLNN-RSYTDTCLHEFCFLCIKQWS-QISSESSPALCKMSKQ 93 (153)
Q Consensus 44 ~~~~C~ICl~~~~~-~~~~~~CgH~FC~~Ci~~~~-~~~~~~~~~~CP~Cr~ 93 (153)
...+|..|...+.+ --+-..|++.+|..|+..|. ......-...|+.|+.
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 34568899776654 33445899999999999993 1001112256666653
No 176
>KOG3005|consensus
Probab=33.13 E-value=42 Score=27.25 Aligned_cols=50 Identities=14% Similarity=0.250 Sum_probs=31.6
Q ss_pred ccccccccccc--Ccccc----CccCCcccHhhHHHHHHhcCCC----CCCcccCccccc
Q psy6056 46 SRCPICLLVLN--NRSYT----DTCLHEFCFLCIKQWSQISSES----SPALCKMSKQRL 95 (153)
Q Consensus 46 ~~C~ICl~~~~--~~~~~----~~CgH~FC~~Ci~~~~~~~~~~----~~~~CP~Cr~~~ 95 (153)
..|.+|.+.+. +...+ ..|+-.+|..|+...+.....+ -...||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 57999998883 22221 2477778899998743322112 247899998743
No 177
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=30.04 E-value=12 Score=30.59 Aligned_cols=33 Identities=15% Similarity=0.201 Sum_probs=22.5
Q ss_pred cCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 64 CLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 64 CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
=.|.||..|..+.... ..+-...||.|+..+..
T Consensus 109 ~~~RFCg~CG~~~~~~-~~g~~~~C~~cg~~~fP 141 (279)
T COG2816 109 RSHRFCGRCGTKTYPR-EGGWARVCPKCGHEHFP 141 (279)
T ss_pred hhCcCCCCCCCcCccc-cCceeeeCCCCCCccCC
Confidence 4789999998764332 13445789999876543
No 178
>KOG1829|consensus
Probab=29.87 E-value=16 Score=32.78 Aligned_cols=21 Identities=33% Similarity=0.671 Sum_probs=16.1
Q ss_pred ccCCcccHhhHHHHHHhcCCCCCCcccCc
Q psy6056 63 TCLHEFCFLCIKQWSQISSESSPALCKMS 91 (153)
Q Consensus 63 ~CgH~FC~~Ci~~~~~~~~~~~~~~CP~C 91 (153)
.|++.||..|+.+ .. ..||.|
T Consensus 536 ~C~avfH~~C~~r---~s-----~~CPrC 556 (580)
T KOG1829|consen 536 TCLAVFHKKCLRR---KS-----PCCPRC 556 (580)
T ss_pred HHHHHHHHHHHhc---cC-----CCCCch
Confidence 6999999999643 23 459999
No 179
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=29.75 E-value=21 Score=20.61 Aligned_cols=46 Identities=17% Similarity=0.354 Sum_probs=25.3
Q ss_pred ccccccccccCc--cccCccCCcccHhhHHHHHHhcC-CCCCCcccCcc
Q psy6056 47 RCPICLLVLNNR--SYTDTCLHEFCFLCIKQWSQISS-ESSPALCKMSK 92 (153)
Q Consensus 47 ~C~ICl~~~~~~--~~~~~CgH~FC~~Ci~~~~~~~~-~~~~~~CP~Cr 92 (153)
.|.||.....+. +.-..|+..||..|+..-..... ....-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378887733322 22236888899999754221100 11146788775
No 180
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=29.66 E-value=10 Score=23.50 Aligned_cols=22 Identities=14% Similarity=0.277 Sum_probs=12.9
Q ss_pred HHHHhcCCCCCCcccCcccccc
Q psy6056 75 QWSQISSESSPALCKMSKQRLL 96 (153)
Q Consensus 75 ~~~~~~~~~~~~~CP~Cr~~~~ 96 (153)
-|.-.........||.|+..+.
T Consensus 34 ~wvp~rdp~~~PVCP~Ck~iye 55 (58)
T PF11238_consen 34 VWVPTRDPKPFPVCPECKEIYE 55 (58)
T ss_pred eeCCCCCCCCCCCCcCHHHHHH
Confidence 3443333334689999976543
No 181
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=29.14 E-value=37 Score=26.06 Aligned_cols=39 Identities=18% Similarity=0.286 Sum_probs=25.1
Q ss_pred CCccccccccc-ccCc------cccCccCCcccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 44 PTSRCPICLLV-LNNR------SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 44 ~~~~C~ICl~~-~~~~------~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
.+..|.||-.. +--| +.-..|+-.||..|.. + ..||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~-----~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----K-----KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----C-----CCCCCcH
Confidence 34568888753 1111 2223789999999964 2 5799994
No 182
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.39 E-value=30 Score=22.89 Aligned_cols=9 Identities=11% Similarity=0.324 Sum_probs=6.6
Q ss_pred CcccCcccc
Q psy6056 86 ALCKMSKQR 94 (153)
Q Consensus 86 ~~CP~Cr~~ 94 (153)
..||.||..
T Consensus 22 D~CPrCrGV 30 (88)
T COG3809 22 DYCPRCRGV 30 (88)
T ss_pred eeCCccccE
Confidence 678888753
No 183
>KOG4430|consensus
Probab=27.00 E-value=41 Score=30.06 Aligned_cols=58 Identities=7% Similarity=0.226 Sum_probs=44.2
Q ss_pred CCCCccccccccccc---CccccCccCCcccHhhHHHHHHhcCCCCCCcccCcccccccccccccc
Q psy6056 42 TSPTSRCPICLLVLN---NRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLLFASATEC 104 (153)
Q Consensus 42 ~~~~~~C~ICl~~~~---~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 104 (153)
......|.+|+.... ....+..|.|-+|..|+..|.... ..|+.|++.+..++.....
T Consensus 257 q~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~-----~v~~~~~tk~~~~~~e~r~ 317 (553)
T KOG4430|consen 257 QENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVE-----SVCPLRVTKVRTISKEARQ 317 (553)
T ss_pred hhcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhh-----hhhhccccccccccccccc
Confidence 344557999988655 334445788999999999999987 8999999888876655544
No 184
>KOG0314|consensus
Probab=25.74 E-value=20 Score=31.22 Aligned_cols=39 Identities=26% Similarity=0.577 Sum_probs=29.8
Q ss_pred CCCCCcccccc-cccccCccccC-ccCCcccHhhHHHHHHh
Q psy6056 41 PTSPTSRCPIC-LLVLNNRSYTD-TCLHEFCFLCIKQWSQI 79 (153)
Q Consensus 41 ~~~~~~~C~IC-l~~~~~~~~~~-~CgH~FC~~Ci~~~~~~ 79 (153)
...++..|++| .+.+.+..++. .|.-+||..||.+-+..
T Consensus 215 ~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~ 255 (448)
T KOG0314|consen 215 ELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALIS 255 (448)
T ss_pred cCCccccCceecchhhHHHHHhhhhhcccCCcccccccccc
Confidence 35778889999 77777776653 57789999999875543
No 185
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=25.69 E-value=43 Score=18.77 Aligned_cols=7 Identities=43% Similarity=1.127 Sum_probs=3.9
Q ss_pred ccCCccc
Q psy6056 63 TCLHEFC 69 (153)
Q Consensus 63 ~CgH~FC 69 (153)
.|+..||
T Consensus 17 ~C~~~FC 23 (39)
T smart00154 17 HCGNLFC 23 (39)
T ss_pred ccCCccc
Confidence 3555555
No 186
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=25.43 E-value=38 Score=31.20 Aligned_cols=53 Identities=21% Similarity=0.468 Sum_probs=33.4
Q ss_pred CCCcccccccccccCcc---------ccCccCCcc--------------------cHhhHHHHHHhc---CCCCCCcccC
Q psy6056 43 SPTSRCPICLLVLNNRS---------YTDTCLHEF--------------------CFLCIKQWSQIS---SESSPALCKM 90 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~~---------~~~~CgH~F--------------------C~~Ci~~~~~~~---~~~~~~~CP~ 90 (153)
.+-..|.-|+..+.+|. .-+.||-.| |..|..++.... --.+...||.
T Consensus 66 pD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~ 145 (711)
T TIGR00143 66 ADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPR 145 (711)
T ss_pred CchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCC
Confidence 34458999999988762 223677666 778888764311 1223567888
Q ss_pred ccccc
Q psy6056 91 SKQRL 95 (153)
Q Consensus 91 Cr~~~ 95 (153)
|--.+
T Consensus 146 Cgp~l 150 (711)
T TIGR00143 146 CGPQL 150 (711)
T ss_pred CCcEE
Confidence 85444
No 187
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.30 E-value=27 Score=25.37 Aligned_cols=22 Identities=23% Similarity=0.247 Sum_probs=13.9
Q ss_pred ccccccccCccccCccCCcccHh
Q psy6056 49 PICLLVLNNRSYTDTCLHEFCFL 71 (153)
Q Consensus 49 ~ICl~~~~~~~~~~~CgH~FC~~ 71 (153)
=||...-.. +..-.|||+||..
T Consensus 61 fi~qs~~~r-v~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSAQKR-VIRCECGHSFGDY 82 (165)
T ss_pred EEEeccccc-EEEEeccccccCh
Confidence 467664333 3334799999953
No 188
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=24.98 E-value=39 Score=26.68 Aligned_cols=23 Identities=30% Similarity=0.657 Sum_probs=15.5
Q ss_pred ccccccccccc--CccccCccCCcc
Q psy6056 46 SRCPICLLVLN--NRSYTDTCLHEF 68 (153)
Q Consensus 46 ~~C~ICl~~~~--~~~~~~~CgH~F 68 (153)
..||+|...+. +....-..+|+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 57999999986 332322457887
No 189
>PF14369 zf-RING_3: zinc-finger
Probab=24.88 E-value=13 Score=20.51 Aligned_cols=29 Identities=17% Similarity=0.311 Sum_probs=13.7
Q ss_pred cccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 67 EFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 67 ~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
.||..|-..............||.|...|
T Consensus 3 ywCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred EeCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 46667743322111111223599997654
No 190
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=24.86 E-value=27 Score=21.24 Aligned_cols=16 Identities=19% Similarity=0.387 Sum_probs=7.6
Q ss_pred CCCCCcccCccccccc
Q psy6056 82 ESSPALCKMSKQRLLL 97 (153)
Q Consensus 82 ~~~~~~CP~Cr~~~~~ 97 (153)
..+..+||+|...+..
T Consensus 21 S~~PatCP~C~a~~~~ 36 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQ 36 (54)
T ss_dssp TS--EE-TTT--EESS
T ss_pred cCCCCCCCcchhhccc
Confidence 4445799999876653
No 191
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=24.62 E-value=36 Score=23.01 Aligned_cols=36 Identities=22% Similarity=0.633 Sum_probs=25.4
Q ss_pred CcccccccccccCccccCccCCcccHhhHHHHHHhcCCCCCCcccCccccc
Q psy6056 45 TSRCPICLLVLNNRSYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRL 95 (153)
Q Consensus 45 ~~~C~ICl~~~~~~~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~ 95 (153)
...|-||-..+.. =||.||..|-. .. ..|.+|-..+
T Consensus 44 ~~~C~~CK~~v~q------~g~~YCq~CAY----kk-----GiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQ------PGAKYCQTCAY----KK-----GICAMCGKKI 79 (90)
T ss_pred Ccccccccccccc------CCCccChhhhc----cc-----CcccccCCee
Confidence 3469999775332 37889999952 23 7999997655
No 192
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=23.92 E-value=39 Score=19.71 Aligned_cols=37 Identities=14% Similarity=0.144 Sum_probs=22.1
Q ss_pred cccccccccCcccc-CccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 48 CPICLLVLNNRSYT-DTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 48 C~ICl~~~~~~~~~-~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
|..|.+.+...... ..-+..||..| -.|-.|+..+..
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~C-------------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPEC-------------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTT-------------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccc-------------cccCCCCCccCC
Confidence 55666666633222 24566777777 477777766654
No 193
>KOG3113|consensus
Probab=23.76 E-value=51 Score=26.69 Aligned_cols=48 Identities=17% Similarity=0.297 Sum_probs=33.7
Q ss_pred CCCcccccccccccCc---cccCccCCcccHhhHHHHHHhcCCCCCCcccCccccccc
Q psy6056 43 SPTSRCPICLLVLNNR---SYTDTCLHEFCFLCIKQWSQISSESSPALCKMSKQRLLL 97 (153)
Q Consensus 43 ~~~~~C~ICl~~~~~~---~~~~~CgH~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~~~~ 97 (153)
.....|||---.+... ..+-.|||.|=..=+.+.- . ..|++|.+.+..
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--a-----s~C~~C~a~y~~ 159 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--A-----SVCHVCGAAYQE 159 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhh--h-----ccccccCCcccc
Confidence 4446799987666633 3445899999877765532 2 699999888763
No 194
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=23.61 E-value=41 Score=20.91 Aligned_cols=14 Identities=14% Similarity=0.491 Sum_probs=10.3
Q ss_pred CCCcccCccccccc
Q psy6056 84 SPALCKMSKQRLLL 97 (153)
Q Consensus 84 ~~~~CP~Cr~~~~~ 97 (153)
....||+|..+...
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 34899999876543
No 195
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=21.46 E-value=83 Score=21.18 Aligned_cols=32 Identities=19% Similarity=0.300 Sum_probs=21.2
Q ss_pred CCcccccccccccCcccc--CccCCcccHhhHHH
Q psy6056 44 PTSRCPICLLVLNNRSYT--DTCLHEFCFLCIKQ 75 (153)
Q Consensus 44 ~~~~C~ICl~~~~~~~~~--~~CgH~FC~~Ci~~ 75 (153)
....|.||.......+.- ..|...||-.|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 467899998873322221 24777899999754
No 196
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=21.02 E-value=42 Score=19.04 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=8.3
Q ss_pred ccccccCccccCccCCcccHhh
Q psy6056 51 CLLVLNNRSYTDTCLHEFCFLC 72 (153)
Q Consensus 51 Cl~~~~~~~~~~~CgH~FC~~C 72 (153)
|......+..-..|+..||..=
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTT
T ss_pred CcCccCCCeECCCCCcccCccc
Confidence 4444334444334667776543
No 197
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=20.96 E-value=45 Score=16.96 Aligned_cols=9 Identities=33% Similarity=1.290 Sum_probs=4.8
Q ss_pred ccccccccc
Q psy6056 47 RCPICLLVL 55 (153)
Q Consensus 47 ~C~ICl~~~ 55 (153)
.||||...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 366665543
No 198
>PF12773 DZR: Double zinc ribbon
Probab=20.87 E-value=70 Score=18.33 Aligned_cols=26 Identities=19% Similarity=0.457 Sum_probs=12.4
Q ss_pred cccHhhHHHHHHhcCCCCCCcccCcccc
Q psy6056 67 EFCFLCIKQWSQISSESSPALCKMSKQR 94 (153)
Q Consensus 67 ~FC~~Ci~~~~~~~~~~~~~~CP~Cr~~ 94 (153)
.||..|-..... .......||.|...
T Consensus 13 ~fC~~CG~~l~~--~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 13 KFCPHCGTPLPP--PDQSKKICPNCGAE 38 (50)
T ss_pred cCChhhcCChhh--ccCCCCCCcCCcCC
Confidence 455555444331 11223567777654
No 199
>KOG3842|consensus
Probab=20.65 E-value=1e+02 Score=25.83 Aligned_cols=51 Identities=27% Similarity=0.564 Sum_probs=28.5
Q ss_pred CCccccccccccc--------------Cc-----cccCccCCcccHhhHHHHHHhcCCCC-----CCcccCcccccc
Q psy6056 44 PTSRCPICLLVLN--------------NR-----SYTDTCLHEFCFLCIKQWSQISSESS-----PALCKMSKQRLL 96 (153)
Q Consensus 44 ~~~~C~ICl~~~~--------------~~-----~~~~~CgH~FC~~Ci~~~~~~~~~~~-----~~~CP~Cr~~~~ 96 (153)
.+..||+|+..-. ++ .. .||||.-=..=..-|.+.. -.+ ...||.|-..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF-~PCGHv~sekt~~YWs~ip-lPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAF-NPCGHVCSEKTVKYWSQIP-LPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCccccc-CCcccccchhhhhHhhcCc-CCCccccccccCcchhhhhc
Confidence 3567999987521 11 22 4899943333333365531 111 368999976654
No 200
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=20.38 E-value=68 Score=26.34 Aligned_cols=42 Identities=19% Similarity=0.434 Sum_probs=27.9
Q ss_pred cccccccccccCccccC---ccCCc--ccHhhHHHHHHhcCCCCCCcccCcc
Q psy6056 46 SRCPICLLVLNNRSYTD---TCLHE--FCFLCIKQWSQISSESSPALCKMSK 92 (153)
Q Consensus 46 ~~C~ICl~~~~~~~~~~---~CgH~--FC~~Ci~~~~~~~~~~~~~~CP~Cr 92 (153)
..||+|-......++.. .=|-+ -|.-|...|.... .+|--|-
T Consensus 186 ~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR-----~KC~nC~ 232 (308)
T COG3058 186 QYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVR-----VKCSNCE 232 (308)
T ss_pred ccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHH-----HHhcccc
Confidence 46999988766444322 12322 3899999998776 6777774
No 201
>PRK11595 DNA utilization protein GntX; Provisional
Probab=20.31 E-value=61 Score=25.12 Aligned_cols=7 Identities=29% Similarity=0.932 Sum_probs=3.4
Q ss_pred ccccccc
Q psy6056 48 CPICLLV 54 (153)
Q Consensus 48 C~ICl~~ 54 (153)
|.+|-..
T Consensus 8 C~~C~~~ 14 (227)
T PRK11595 8 CWLCRMP 14 (227)
T ss_pred CccCCCc
Confidence 5555443
No 202
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=20.29 E-value=69 Score=25.21 Aligned_cols=19 Identities=32% Similarity=0.983 Sum_probs=11.4
Q ss_pred cccccccccCccccCccCCcccHhhHHH
Q psy6056 48 CPICLLVLNNRSYTDTCLHEFCFLCIKQ 75 (153)
Q Consensus 48 C~ICl~~~~~~~~~~~CgH~FC~~Ci~~ 75 (153)
|+||. ..-.+.+|..|+..
T Consensus 2 C~iC~---------~~~~~~~C~~C~~~ 20 (302)
T PF10186_consen 2 CPICH---------NSRRRFYCANCVNN 20 (302)
T ss_pred CCCCC---------CCCCCeECHHHHHH
Confidence 77776 12445567777654
No 203
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=20.26 E-value=25 Score=25.95 Aligned_cols=24 Identities=25% Similarity=0.451 Sum_probs=15.7
Q ss_pred cCCcccHhhHHHHHHhcC------CCCCCcccCcc
Q psy6056 64 CLHEFCFLCIKQWSQISS------ESSPALCKMSK 92 (153)
Q Consensus 64 CgH~FC~~Ci~~~~~~~~------~~~~~~CP~Cr 92 (153)
+||.| ..|+.... .....+||+|-
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cg 39 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCG 39 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCC
Confidence 67877 56754321 34568999994
Done!