Query psy8828
Match_columns 81
No_of_seqs 175 out of 1020
Neff 9.8
Searched_HMMs 46136
Date Fri Aug 16 20:13:33 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8828.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8828hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00504 Ubox Modified RING 99.7 1.3E-16 2.8E-21 78.8 4.3 63 19-81 1-63 (63)
2 PF15227 zf-C3HC4_4: zinc fing 99.7 1.1E-16 2.3E-21 73.4 3.1 38 22-59 1-42 (42)
3 TIGR00599 rad18 DNA repair pro 99.6 3.3E-16 7.1E-21 100.0 4.0 71 11-81 18-88 (397)
4 PLN03208 E3 ubiquitin-protein 99.6 2.4E-15 5.1E-20 87.9 5.5 52 16-67 15-82 (193)
5 PF13923 zf-C3HC4_2: Zinc fing 99.6 2.2E-15 4.7E-20 68.0 2.7 38 22-59 1-39 (39)
6 PF13639 zf-RING_2: Ring finge 99.5 1.8E-15 3.9E-20 70.0 1.3 40 21-60 2-44 (44)
7 PF13920 zf-C3HC4_3: Zinc fing 99.5 1.1E-14 2.3E-19 69.0 3.2 46 19-64 2-48 (50)
8 KOG0287|consensus 99.5 1.3E-15 2.8E-20 95.0 -0.2 67 15-81 19-85 (442)
9 PF04564 U-box: U-box domain; 99.5 6.3E-15 1.4E-19 74.9 1.9 65 17-81 2-67 (73)
10 PHA02929 N1R/p28-like protein; 99.5 3.9E-14 8.4E-19 85.5 4.3 49 17-65 172-228 (238)
11 KOG0823|consensus 99.5 3E-14 6.5E-19 84.8 3.3 52 17-68 45-99 (230)
12 KOG0317|consensus 99.5 7.6E-14 1.7E-18 85.3 4.0 54 15-68 235-288 (293)
13 KOG0320|consensus 99.4 1E-13 2.3E-18 79.7 3.2 50 18-67 130-181 (187)
14 PF14835 zf-RING_6: zf-RING of 99.4 5.8E-15 1.2E-19 72.2 -1.7 61 16-78 4-65 (65)
15 PF00097 zf-C3HC4: Zinc finger 99.4 1.3E-13 2.9E-18 62.7 2.9 38 22-59 1-41 (41)
16 cd00162 RING RING-finger (Real 99.4 9.6E-13 2.1E-17 60.3 3.6 43 21-63 1-45 (45)
17 COG5432 RAD18 RING-finger-cont 99.3 3.4E-13 7.4E-18 83.0 1.6 64 16-79 22-85 (391)
18 PF14634 zf-RING_5: zinc-RING 99.3 1.9E-12 4.1E-17 59.8 3.2 41 21-61 1-44 (44)
19 PF13445 zf-RING_UBOX: RING-ty 99.3 1.5E-12 3.2E-17 59.7 2.4 30 22-52 1-34 (43)
20 PF12678 zf-rbx1: RING-H2 zinc 99.3 3E-12 6.6E-17 65.0 3.5 42 19-60 19-73 (73)
21 smart00184 RING Ring finger. E 99.3 7.6E-12 1.6E-16 55.4 3.7 38 22-59 1-39 (39)
22 KOG0802|consensus 99.3 2.4E-12 5.2E-17 85.6 2.3 54 15-68 287-345 (543)
23 COG5243 HRD1 HRD ubiquitin lig 99.3 6.2E-12 1.3E-16 79.6 3.9 51 14-64 282-345 (491)
24 PHA02926 zinc finger-like prot 99.2 8.3E-12 1.8E-16 74.3 3.4 49 17-65 168-231 (242)
25 KOG4628|consensus 99.2 1.4E-11 3E-16 77.7 3.1 47 20-66 230-280 (348)
26 KOG2177|consensus 99.2 1.2E-11 2.7E-16 75.5 1.8 49 13-61 7-55 (386)
27 COG5574 PEX10 RING-finger-cont 99.1 4.6E-11 9.9E-16 72.6 2.7 52 17-68 213-266 (271)
28 KOG2164|consensus 99.0 1.7E-10 3.6E-15 75.3 3.2 49 19-67 186-239 (513)
29 TIGR00570 cdk7 CDK-activating 99.0 1.2E-09 2.5E-14 68.2 4.6 49 19-67 3-57 (309)
30 PF12861 zf-Apc11: Anaphase-pr 98.9 1.5E-09 3.4E-14 56.1 3.5 47 18-64 20-82 (85)
31 KOG2660|consensus 98.9 3.4E-10 7.3E-15 70.6 1.2 54 14-67 10-64 (331)
32 KOG0311|consensus 98.9 1.1E-10 2.3E-15 73.5 -1.4 65 14-78 38-105 (381)
33 KOG4159|consensus 98.9 8.1E-10 1.7E-14 71.1 2.5 52 14-65 79-130 (398)
34 COG5540 RING-finger-containing 98.9 1.2E-09 2.7E-14 67.8 3.0 47 19-65 323-373 (374)
35 KOG0978|consensus 98.8 1.2E-09 2.5E-14 74.0 1.7 55 15-69 639-694 (698)
36 COG5152 Uncharacterized conser 98.7 7E-09 1.5E-13 61.2 1.9 58 19-77 196-253 (259)
37 KOG1734|consensus 98.6 8.1E-09 1.8E-13 63.3 0.7 52 15-66 220-283 (328)
38 KOG0824|consensus 98.6 1.7E-08 3.8E-13 62.6 2.0 48 19-66 7-55 (324)
39 KOG0297|consensus 98.6 5.8E-08 1.3E-12 62.8 3.3 52 16-67 18-70 (391)
40 KOG4265|consensus 98.5 6.8E-08 1.5E-12 61.1 3.0 49 17-65 288-337 (349)
41 KOG1813|consensus 98.5 4.7E-08 1E-12 60.5 1.1 47 19-65 241-287 (313)
42 PF11789 zf-Nse: Zinc-finger o 98.4 1.5E-07 3.3E-12 45.5 1.9 42 17-58 9-53 (57)
43 KOG2879|consensus 98.4 6.9E-07 1.5E-11 55.0 4.5 51 15-65 235-288 (298)
44 KOG4172|consensus 98.4 9.7E-08 2.1E-12 45.3 0.4 47 19-65 7-55 (62)
45 PF11793 FANCL_C: FANCL C-term 98.4 7.7E-08 1.7E-12 48.4 -0.1 46 19-64 2-66 (70)
46 COG5194 APC11 Component of SCF 98.3 4.8E-07 1E-11 46.1 2.5 46 20-65 21-82 (88)
47 smart00744 RINGv The RING-vari 98.3 7.8E-07 1.7E-11 41.8 3.0 40 21-60 1-49 (49)
48 KOG0828|consensus 98.3 4.1E-07 9E-12 59.9 2.5 49 17-65 569-635 (636)
49 KOG1039|consensus 98.2 8.1E-07 1.8E-11 56.6 2.4 47 18-64 160-221 (344)
50 KOG0804|consensus 98.2 9.1E-07 2E-11 57.6 2.4 48 15-64 171-222 (493)
51 KOG3039|consensus 98.2 1.8E-06 3.8E-11 52.7 3.2 53 18-70 220-276 (303)
52 COG5219 Uncharacterized conser 98.1 7.6E-07 1.7E-11 62.6 0.9 49 16-64 1466-1523(1525)
53 COG5222 Uncharacterized conser 98.1 2.1E-06 4.5E-11 53.8 2.2 42 20-61 275-318 (427)
54 KOG0827|consensus 98.1 2.7E-06 5.8E-11 54.7 2.2 49 20-68 5-60 (465)
55 KOG1785|consensus 98.0 1.8E-06 4E-11 55.8 1.4 45 21-65 371-417 (563)
56 KOG1002|consensus 98.0 3.5E-06 7.5E-11 56.3 2.3 50 17-66 534-588 (791)
57 KOG4692|consensus 98.0 3.7E-06 8.1E-11 53.7 2.1 49 17-65 420-468 (489)
58 KOG2930|consensus 98.0 5.2E-06 1.1E-10 44.3 2.0 28 36-63 80-107 (114)
59 KOG1493|consensus 97.9 3.6E-06 7.7E-11 42.6 0.4 45 20-64 21-81 (84)
60 KOG1645|consensus 97.9 4.8E-06 1E-10 53.9 0.9 48 19-66 4-58 (463)
61 KOG0825|consensus 97.8 2.9E-06 6.3E-11 58.7 -0.9 47 20-66 124-173 (1134)
62 KOG4367|consensus 97.7 1.8E-05 4E-10 51.9 2.1 36 17-52 2-37 (699)
63 KOG4185|consensus 97.7 2.7E-05 5.9E-10 48.6 2.7 45 19-63 3-54 (296)
64 PF04641 Rtf2: Rtf2 RING-finge 97.7 6.8E-05 1.5E-09 46.3 4.4 53 16-69 110-166 (260)
65 KOG4275|consensus 97.7 3E-06 6.4E-11 52.8 -1.5 42 19-64 300-342 (350)
66 PF14447 Prok-RING_4: Prokaryo 97.7 2.7E-05 5.8E-10 37.2 1.9 46 19-66 7-52 (55)
67 KOG0826|consensus 97.7 5.2E-05 1.1E-09 48.0 3.1 49 16-64 297-346 (357)
68 PF14570 zf-RING_4: RING/Ubox 97.6 5.6E-05 1.2E-09 35.2 2.4 42 22-63 1-47 (48)
69 COG5236 Uncharacterized conser 97.4 0.00029 6.3E-09 45.2 3.9 53 11-63 53-107 (493)
70 KOG1571|consensus 97.3 0.00018 4E-09 46.0 2.6 45 17-64 303-347 (355)
71 PF08746 zf-RING-like: RING-li 97.1 0.00083 1.8E-08 30.6 3.0 38 22-59 1-43 (43)
72 KOG1001|consensus 97.1 0.00012 2.6E-09 50.6 -0.0 48 20-68 455-504 (674)
73 KOG2817|consensus 97.1 0.00055 1.2E-08 44.4 2.8 49 15-63 330-384 (394)
74 KOG1814|consensus 97.1 0.00016 3.5E-09 47.1 0.4 48 15-62 180-238 (445)
75 KOG3800|consensus 97.1 0.00063 1.4E-08 42.5 2.9 46 21-66 2-53 (300)
76 PF03854 zf-P11: P-11 zinc fin 97.0 0.00028 6.1E-09 32.6 0.7 42 22-65 5-47 (50)
77 KOG1941|consensus 97.0 0.00025 5.4E-09 46.1 0.6 44 18-61 364-413 (518)
78 PHA02825 LAP/PHD finger-like p 97.0 0.0017 3.7E-08 37.4 3.8 49 16-65 5-60 (162)
79 PF05290 Baculo_IE-1: Baculovi 96.9 0.0015 3.2E-08 36.6 3.3 49 18-66 79-134 (140)
80 PF10367 Vps39_2: Vacuolar sor 96.9 0.0004 8.6E-09 37.1 0.7 32 16-47 75-108 (109)
81 KOG3002|consensus 96.8 0.0011 2.3E-08 42.0 2.6 47 16-65 45-92 (299)
82 PF07800 DUF1644: Protein of u 96.8 0.0022 4.7E-08 37.0 3.4 34 18-51 1-47 (162)
83 KOG4739|consensus 96.7 0.00048 1E-08 42.0 0.3 44 21-66 5-50 (233)
84 KOG1952|consensus 96.6 0.0013 2.7E-08 46.4 1.8 46 17-62 189-245 (950)
85 KOG1940|consensus 96.5 0.0018 4E-08 40.4 2.0 42 20-61 159-204 (276)
86 PF02891 zf-MIZ: MIZ/SP-RING z 96.5 0.0014 3.1E-08 30.7 1.1 42 20-62 3-50 (50)
87 KOG2114|consensus 96.5 0.0018 3.9E-08 45.7 1.9 41 20-63 841-882 (933)
88 COG5175 MOT2 Transcriptional r 96.4 0.0038 8.2E-08 40.2 2.9 46 21-66 16-66 (480)
89 PHA03096 p28-like protein; Pro 96.3 0.003 6.5E-08 39.7 2.0 42 20-61 179-231 (284)
90 KOG4362|consensus 96.3 0.00079 1.7E-08 46.4 -0.6 49 18-66 20-71 (684)
91 KOG3268|consensus 96.3 0.0047 1E-07 36.4 2.6 44 21-64 167-228 (234)
92 KOG3970|consensus 96.2 0.0068 1.5E-07 37.0 3.1 47 20-66 51-107 (299)
93 KOG1428|consensus 96.1 0.0047 1E-07 46.6 2.5 51 15-65 3482-3545(3738)
94 KOG4445|consensus 96.0 0.0021 4.6E-08 40.6 0.5 49 18-66 114-188 (368)
95 PF05883 Baculo_RING: Baculovi 96.0 0.004 8.6E-08 35.0 1.5 35 19-53 26-69 (134)
96 KOG3113|consensus 96.0 0.0082 1.8E-07 37.1 2.8 55 16-72 108-166 (293)
97 PHA02862 5L protein; Provision 95.8 0.012 2.6E-07 33.5 2.9 45 20-65 3-54 (156)
98 KOG2932|consensus 95.6 0.0066 1.4E-07 38.6 1.3 42 20-63 91-133 (389)
99 KOG3161|consensus 95.4 0.0043 9.4E-08 42.9 -0.0 41 15-57 7-51 (861)
100 KOG3039|consensus 95.1 0.027 5.8E-07 34.9 2.8 36 15-50 39-74 (303)
101 KOG0298|consensus 95.0 0.0046 1E-07 45.4 -0.7 48 18-65 1152-1200(1394)
102 PF12906 RINGv: RING-variant d 95.0 0.013 2.8E-07 27.1 1.0 38 22-59 1-47 (47)
103 COG5109 Uncharacterized conser 94.4 0.045 9.7E-07 35.1 2.6 49 15-63 332-386 (396)
104 PF10272 Tmpp129: Putative tra 94.2 0.044 9.6E-07 35.6 2.3 30 37-66 311-353 (358)
105 COG5220 TFB3 Cdk activating ki 94.0 0.015 3.2E-07 35.9 -0.1 47 19-65 10-65 (314)
106 PF14446 Prok-RING_1: Prokaryo 93.6 0.098 2.1E-06 25.0 2.3 31 19-49 5-39 (54)
107 KOG3579|consensus 93.4 0.12 2.7E-06 32.7 3.2 36 17-52 266-305 (352)
108 COG3813 Uncharacterized protei 93.3 0.056 1.2E-06 27.3 1.3 33 37-71 27-59 (84)
109 KOG2034|consensus 93.2 0.054 1.2E-06 38.8 1.5 37 15-51 813-851 (911)
110 KOG1815|consensus 93.1 0.08 1.7E-06 35.2 2.2 34 18-51 69-103 (444)
111 PF06906 DUF1272: Protein of u 92.9 0.18 3.9E-06 24.2 2.7 45 21-67 7-55 (57)
112 KOG1812|consensus 92.6 0.061 1.3E-06 35.3 1.1 33 19-51 146-182 (384)
113 KOG3899|consensus 91.6 0.14 3E-06 32.7 1.8 30 37-66 325-367 (381)
114 KOG1100|consensus 91.6 0.082 1.8E-06 31.9 0.8 39 22-64 161-200 (207)
115 KOG4718|consensus 91.3 0.12 2.6E-06 31.4 1.3 42 20-61 182-224 (235)
116 PF06844 DUF1244: Protein of u 91.1 0.15 3.3E-06 25.2 1.3 12 40-51 11-22 (68)
117 KOG3053|consensus 90.8 0.21 4.6E-06 31.2 2.0 50 15-64 16-82 (293)
118 KOG0309|consensus 90.5 0.19 4.2E-06 35.9 1.8 39 20-58 1029-1069(1081)
119 KOG1812|consensus 90.4 0.14 3E-06 33.6 1.1 41 19-59 306-351 (384)
120 PF10571 UPF0547: Uncharacteri 90.1 0.19 4.2E-06 20.3 1.0 8 22-29 3-10 (26)
121 COG5183 SSM4 Protein involved 89.7 0.44 9.6E-06 34.5 3.0 51 17-67 10-69 (1175)
122 PF07191 zinc-ribbons_6: zinc- 89.6 0.0077 1.7E-07 30.2 -4.0 40 20-64 2-41 (70)
123 PF14569 zf-UDP: Zinc-binding 88.8 0.82 1.8E-05 23.5 2.9 48 18-65 8-63 (80)
124 PF13240 zinc_ribbon_2: zinc-r 88.1 0.054 1.2E-06 21.3 -1.3 6 55-60 15-20 (23)
125 PF10235 Cript: Microtubule-as 87.5 0.6 1.3E-05 24.6 2.0 40 20-68 45-84 (90)
126 PLN02638 cellulose synthase A 86.5 1.7 3.8E-05 32.3 4.4 47 18-64 16-70 (1079)
127 PF10497 zf-4CXXC_R1: Zinc-fin 86.2 1.8 4E-05 23.3 3.6 25 38-62 37-70 (105)
128 KOG2169|consensus 85.1 0.95 2.1E-05 31.8 2.6 66 14-79 301-371 (636)
129 KOG2068|consensus 84.4 1.3 2.8E-05 28.7 2.8 46 20-65 250-299 (327)
130 KOG2042|consensus 84.1 1.3 2.9E-05 32.4 3.0 63 17-79 868-931 (943)
131 KOG1609|consensus 84.1 1.5 3.3E-05 27.5 3.0 46 19-64 78-134 (323)
132 PF04216 FdhE: Protein involve 83.3 0.13 2.8E-06 32.3 -1.9 46 18-63 171-221 (290)
133 KOG0825|consensus 82.1 1.9 4E-05 31.4 3.0 46 18-63 95-153 (1134)
134 PF14353 CpXC: CpXC protein 81.6 1.5 3.2E-05 24.2 2.0 46 20-65 2-50 (128)
135 TIGR01562 FdhE formate dehydro 81.5 0.33 7.1E-06 31.1 -0.7 45 18-62 183-233 (305)
136 cd00350 rubredoxin_like Rubred 81.3 1.4 3E-05 18.6 1.5 11 52-62 16-26 (33)
137 PLN02189 cellulose synthase 80.9 1.6 3.4E-05 32.4 2.4 46 19-64 34-87 (1040)
138 KOG2979|consensus 80.8 1 2.2E-05 28.2 1.3 43 20-62 177-222 (262)
139 PF07975 C1_4: TFIIH C1-like d 80.4 2 4.2E-05 20.3 1.9 25 36-60 26-50 (51)
140 cd00065 FYVE FYVE domain; Zinc 80.4 1.5 3.3E-05 20.4 1.6 29 21-49 4-36 (57)
141 smart00064 FYVE Protein presen 79.8 2.1 4.5E-05 20.8 2.1 32 19-50 10-45 (68)
142 PLN02436 cellulose synthase A 79.5 1.8 4E-05 32.2 2.4 46 19-64 36-89 (1094)
143 PLN02195 cellulose synthase A 79.5 2.8 6E-05 31.0 3.2 45 20-64 7-59 (977)
144 KOG0269|consensus 79.4 2.4 5.3E-05 30.5 2.9 44 19-62 779-826 (839)
145 PF01363 FYVE: FYVE zinc finge 79.2 0.4 8.7E-06 23.5 -0.7 29 19-47 9-41 (69)
146 COG3492 Uncharacterized protei 78.9 1.2 2.7E-05 23.5 1.1 12 40-51 42-53 (104)
147 PRK03564 formate dehydrogenase 78.6 0.86 1.9E-05 29.3 0.5 44 18-61 186-234 (309)
148 PF10146 zf-C4H2: Zinc finger- 77.6 2.9 6.3E-05 25.8 2.6 27 41-67 196-222 (230)
149 PLN02400 cellulose synthase 76.6 1.9 4.1E-05 32.2 1.8 46 19-64 36-89 (1085)
150 PF04423 Rad50_zn_hook: Rad50 75.4 0.92 2E-05 21.3 0.0 12 54-65 21-32 (54)
151 smart00132 LIM Zinc-binding do 75.0 1.8 4E-05 18.0 1.0 34 22-63 2-37 (39)
152 PF00628 PHD: PHD-finger; Int 74.1 1.4 3.1E-05 20.0 0.5 27 21-47 1-30 (51)
153 KOG4451|consensus 73.5 3.8 8.3E-05 25.4 2.3 27 40-66 250-276 (286)
154 PLN02915 cellulose synthase A 73.1 3.5 7.6E-05 30.8 2.4 47 18-64 14-68 (1044)
155 PF09889 DUF2116: Uncharacteri 72.3 2.8 6.1E-05 20.3 1.3 17 52-68 2-18 (59)
156 PF13901 DUF4206: Domain of un 72.1 3.9 8.5E-05 24.6 2.2 38 18-60 151-196 (202)
157 PRK11595 DNA utilization prote 71.5 5 0.00011 24.4 2.5 38 21-63 7-44 (227)
158 smart00249 PHD PHD zinc finger 69.9 3.6 7.9E-05 17.7 1.4 26 22-47 2-30 (47)
159 COG4647 AcxC Acetone carboxyla 69.9 2.3 5.1E-05 24.0 0.8 21 24-44 62-82 (165)
160 smart00154 ZnF_AN1 AN1-like Zi 69.4 4.2 9E-05 17.9 1.4 22 22-43 1-24 (39)
161 KOG0289|consensus 69.2 5.9 0.00013 26.9 2.6 47 20-66 1-48 (506)
162 KOG2462|consensus 68.6 2 4.4E-05 27.2 0.4 52 18-69 160-231 (279)
163 PF12773 DZR: Double zinc ribb 68.0 6.3 0.00014 17.8 2.0 25 40-64 13-40 (50)
164 KOG0802|consensus 67.7 4.7 0.0001 27.8 2.0 46 17-66 477-522 (543)
165 COG0068 HypF Hydrogenase matur 67.2 4.6 0.0001 29.0 1.9 47 17-63 99-183 (750)
166 KOG0801|consensus 66.6 1.9 4.1E-05 25.3 0.0 12 20-31 178-189 (205)
167 KOG0824|consensus 65.7 2.2 4.7E-05 27.5 0.1 47 17-63 103-150 (324)
168 KOG2231|consensus 64.6 7 0.00015 27.9 2.4 45 21-65 2-53 (669)
169 KOG0827|consensus 64.1 1.3 2.8E-05 29.5 -1.1 47 20-66 197-247 (465)
170 smart00647 IBR In Between Ring 64.0 0.77 1.7E-05 21.8 -1.7 15 36-50 45-59 (64)
171 PF07503 zf-HYPF: HypF finger; 63.1 10 0.00022 16.3 2.0 23 41-63 1-31 (35)
172 KOG1829|consensus 62.8 2.8 6.1E-05 29.3 0.3 21 36-59 536-556 (580)
173 COG4640 Predicted membrane pro 62.2 1.7 3.8E-05 29.0 -0.7 37 41-77 3-39 (465)
174 PF14311 DUF4379: Domain of un 60.6 7.1 0.00015 18.2 1.4 9 51-59 47-55 (55)
175 PRK11088 rrmA 23S rRNA methylt 60.3 6.3 0.00014 24.4 1.5 22 20-41 3-27 (272)
176 KOG2807|consensus 58.6 13 0.00028 24.4 2.6 40 21-60 332-374 (378)
177 PLN02248 cellulose synthase-li 57.0 13 0.00028 28.2 2.7 30 36-65 149-178 (1135)
178 TIGR00622 ssl1 transcription f 55.8 19 0.00042 19.8 2.7 41 20-60 56-110 (112)
179 KOG2113|consensus 54.6 19 0.00041 23.6 2.9 42 19-62 343-385 (394)
180 PF00412 LIM: LIM domain; Int 54.3 16 0.00035 16.7 2.1 28 20-47 27-55 (58)
181 PF06750 DiS_P_DiS: Bacterial 52.5 27 0.00059 18.3 2.9 39 19-66 33-71 (92)
182 PRK01343 zinc-binding protein; 52.2 11 0.00024 18.2 1.2 12 53-64 9-20 (57)
183 PF05605 zf-Di19: Drought indu 52.2 11 0.00025 17.4 1.3 8 54-61 3-10 (54)
184 PF01428 zf-AN1: AN1-like Zinc 51.4 8.9 0.00019 17.0 0.8 20 25-44 6-26 (43)
185 COG5627 MMS21 DNA repair prote 51.3 9.6 0.00021 23.9 1.2 39 20-58 190-231 (275)
186 PF03119 DNA_ligase_ZBD: NAD-d 50.8 5.6 0.00012 16.1 0.1 11 55-65 1-11 (28)
187 smart00734 ZnF_Rad18 Rad18-lik 50.5 9.1 0.0002 15.2 0.7 9 55-63 3-11 (26)
188 KOG2789|consensus 49.3 16 0.00034 24.7 2.0 33 18-50 73-107 (482)
189 PRK06393 rpoE DNA-directed RNA 49.2 11 0.00024 18.6 1.0 12 52-63 16-27 (64)
190 PF14471 DUF4428: Domain of un 48.3 28 0.0006 16.2 2.3 28 21-49 1-30 (51)
191 PF10083 DUF2321: Uncharacteri 47.8 14 0.00031 21.5 1.5 26 38-66 27-52 (158)
192 PRK08351 DNA-directed RNA poly 47.8 13 0.00028 18.2 1.1 12 52-63 14-25 (61)
193 PF02318 FYVE_2: FYVE-type zin 47.7 6.7 0.00015 21.4 0.2 44 18-61 53-102 (118)
194 PRK04023 DNA polymerase II lar 45.8 20 0.00043 27.2 2.2 47 18-66 625-676 (1121)
195 COG2093 DNA-directed RNA polym 45.3 7.1 0.00015 19.2 0.0 11 52-62 17-27 (64)
196 COG4098 comFA Superfamily II D 45.3 9.8 0.00021 25.4 0.6 30 18-47 38-68 (441)
197 PRK00418 DNA gyrase inhibitor; 44.6 13 0.00028 18.2 0.9 11 54-64 7-17 (62)
198 COG3058 FdhE Uncharacterized p 44.1 21 0.00046 22.9 2.0 46 17-62 183-234 (308)
199 smart00290 ZnF_UBP Ubiquitin C 43.9 19 0.0004 16.2 1.3 22 22-43 2-23 (50)
200 PF09538 FYDLN_acid: Protein o 43.4 22 0.00047 19.4 1.7 12 54-65 27-38 (108)
201 PF14169 YdjO: Cold-inducible 43.2 17 0.00038 17.6 1.2 12 54-65 40-51 (59)
202 KOG3476|consensus 42.9 3.4 7.4E-05 21.7 -1.4 40 20-68 55-94 (100)
203 PF06827 zf-FPG_IleRS: Zinc fi 41.8 3.8 8.3E-05 16.6 -1.1 9 22-30 4-12 (30)
204 PF10013 DUF2256: Uncharacteri 41.8 19 0.00042 16.2 1.1 13 52-64 7-19 (42)
205 PF01485 IBR: IBR domain; Int 41.7 1.4 3E-05 20.9 -2.9 30 20-49 19-58 (64)
206 TIGR00143 hypF [NiFe] hydrogen 41.0 17 0.00037 26.2 1.4 47 17-63 66-150 (711)
207 KOG4642|consensus 41.0 16 0.00035 23.1 1.1 63 17-79 209-272 (284)
208 KOG2066|consensus 40.9 9.7 0.00021 27.8 0.1 40 19-59 784-830 (846)
209 PF04710 Pellino: Pellino; In 40.0 9.5 0.00021 25.6 0.0 47 19-65 328-402 (416)
210 KOG2071|consensus 40.0 18 0.00039 25.5 1.3 34 17-50 511-557 (579)
211 PTZ00303 phosphatidylinositol 39.7 26 0.00057 26.1 2.1 30 20-49 461-499 (1374)
212 COG4357 Zinc finger domain con 39.4 34 0.00074 18.4 2.0 14 53-66 80-93 (105)
213 KOG3362|consensus 39.0 17 0.00037 21.0 0.9 29 18-47 117-146 (156)
214 cd00729 rubredoxin_SM Rubredox 38.9 18 0.00038 15.3 0.8 9 54-62 19-27 (34)
215 PF06937 EURL: EURL protein; 38.9 37 0.0008 21.7 2.4 38 17-57 28-74 (285)
216 PF13894 zf-C2H2_4: C2H2-type 38.6 10 0.00022 13.6 -0.0 8 56-63 3-10 (24)
217 COG4068 Uncharacterized protei 38.4 27 0.00059 17.0 1.4 15 52-66 7-21 (64)
218 PF10186 Atg14: UV radiation r 37.2 30 0.00064 21.5 1.9 21 21-49 1-21 (302)
219 KOG3842|consensus 36.5 30 0.00064 22.8 1.8 49 18-66 340-416 (429)
220 PF09986 DUF2225: Uncharacteri 36.3 15 0.00032 22.3 0.4 14 53-66 5-18 (214)
221 PF00301 Rubredoxin: Rubredoxi 35.9 22 0.00047 16.4 0.8 14 14-27 29-42 (47)
222 KOG0883|consensus 35.3 48 0.001 22.6 2.6 51 19-69 40-90 (518)
223 PF00096 zf-C2H2: Zinc finger, 35.3 10 0.00023 13.9 -0.2 8 56-63 3-10 (23)
224 PF06677 Auto_anti-p27: Sjogre 34.2 34 0.00075 15.2 1.3 17 49-65 13-29 (41)
225 PF09237 GAGA: GAGA factor; I 33.7 13 0.00027 17.7 -0.1 13 54-66 25-37 (54)
226 PF06221 zf-C2HC5: Putative zi 33.7 35 0.00076 16.4 1.4 26 34-65 21-47 (57)
227 PF08882 Acetone_carb_G: Aceto 33.7 22 0.00049 19.5 0.8 12 33-44 25-36 (112)
228 COG3024 Uncharacterized protei 33.7 25 0.00053 17.4 0.9 13 53-65 7-19 (65)
229 KOG0956|consensus 33.5 39 0.00084 24.7 2.1 30 33-62 42-71 (900)
230 PF00643 zf-B_box: B-box zinc 33.3 40 0.00087 14.4 1.5 29 20-48 4-32 (42)
231 KOG3005|consensus 33.3 34 0.00074 21.8 1.6 44 20-63 183-242 (276)
232 PF03884 DUF329: Domain of unk 33.0 14 0.00031 17.8 -0.0 11 55-65 4-14 (57)
233 cd00730 rubredoxin Rubredoxin; 33.0 23 0.00051 16.5 0.7 14 15-28 30-43 (50)
234 COG5151 SSL1 RNA polymerase II 32.8 39 0.00083 22.3 1.8 42 20-61 363-418 (421)
235 TIGR00373 conserved hypothetic 32.2 40 0.00087 19.5 1.7 17 50-66 125-141 (158)
236 KOG1356|consensus 32.1 34 0.00074 25.4 1.7 33 18-50 228-262 (889)
237 COG5242 TFB4 RNA polymerase II 32.1 19 0.00042 22.5 0.4 11 53-63 274-284 (296)
238 PF07649 C1_3: C1-like domain; 31.7 45 0.00097 13.3 1.6 25 21-45 2-29 (30)
239 PF13913 zf-C2HC_2: zinc-finge 31.4 24 0.00053 13.7 0.6 8 56-63 5-12 (25)
240 PF14205 Cys_rich_KTR: Cystein 31.2 29 0.00062 16.6 0.9 9 55-63 6-14 (55)
241 PF13453 zf-TFIIB: Transcripti 31.1 26 0.00056 15.2 0.7 11 55-65 1-11 (41)
242 PRK14559 putative protein seri 30.8 14 0.00031 26.3 -0.3 10 54-63 42-51 (645)
243 COG4338 Uncharacterized protei 30.6 18 0.00039 16.9 0.1 11 54-64 13-23 (54)
244 PF13811 DUF4186: Domain of un 30.0 33 0.00071 18.9 1.1 11 41-51 76-86 (111)
245 PRK13130 H/ACA RNA-protein com 29.6 66 0.0014 15.4 2.0 14 53-66 17-30 (56)
246 PF12132 DUF3587: Protein of u 29.4 56 0.0012 19.9 2.1 13 39-51 165-177 (199)
247 PRK11827 hypothetical protein; 28.6 32 0.0007 16.7 0.8 14 52-65 7-20 (60)
248 PF13832 zf-HC5HC2H_2: PHD-zin 28.4 91 0.002 16.4 2.7 29 18-48 54-87 (110)
249 PRK00564 hypA hydrogenase nick 28.3 16 0.00035 20.0 -0.3 9 55-63 90-98 (117)
250 KOG3799|consensus 28.3 13 0.00028 21.3 -0.7 13 16-28 62-74 (169)
251 PRK00241 nudC NADH pyrophospha 27.9 52 0.0011 20.6 1.8 19 46-64 92-110 (256)
252 PF06416 DUF1076: Protein of u 27.6 46 0.001 18.3 1.4 52 15-66 36-93 (113)
253 PRK06266 transcription initiat 27.5 69 0.0015 18.9 2.2 17 50-66 133-149 (178)
254 PF05715 zf-piccolo: Piccolo Z 27.4 37 0.0008 16.5 0.9 12 53-64 2-13 (61)
255 KOG3475|consensus 27.1 35 0.00076 17.8 0.8 28 37-64 14-42 (92)
256 PRK00420 hypothetical protein; 27.0 64 0.0014 17.8 1.9 11 54-64 41-51 (112)
257 TIGR01206 lysW lysine biosynth 26.9 32 0.0007 16.3 0.6 11 54-64 3-13 (54)
258 PF11023 DUF2614: Protein of u 26.2 21 0.00045 19.7 -0.1 20 49-68 81-100 (114)
259 KOG1818|consensus 25.9 26 0.00057 25.0 0.3 38 14-51 160-201 (634)
260 PF11781 RRN7: RNA polymerase 25.7 47 0.001 14.2 1.0 9 20-28 9-17 (36)
261 PF13834 DUF4193: Domain of un 25.4 23 0.0005 19.1 -0.0 29 17-45 68-98 (99)
262 KOG3816|consensus 25.4 46 0.001 22.6 1.3 29 23-51 92-120 (526)
263 PRK03681 hypA hydrogenase nick 25.2 13 0.00028 20.3 -1.1 9 54-62 88-96 (114)
264 TIGR00100 hypA hydrogenase nic 25.2 11 0.00023 20.6 -1.4 11 53-63 86-96 (115)
265 PF12907 zf-met2: Zinc-binding 24.9 13 0.00027 16.6 -0.9 7 21-27 3-9 (40)
266 PF13719 zinc_ribbon_5: zinc-r 24.3 30 0.00065 14.8 0.2 12 55-66 4-15 (37)
267 PF13912 zf-C2H2_6: C2H2-type 24.1 22 0.00047 13.6 -0.2 10 21-30 3-12 (27)
268 PF14255 Cys_rich_CPXG: Cystei 23.9 40 0.00086 15.9 0.6 10 55-64 2-11 (52)
269 PF12874 zf-met: Zinc-finger o 23.7 22 0.00048 13.2 -0.2 8 22-29 3-10 (25)
270 PRK12380 hydrogenase nickel in 23.3 13 0.00028 20.3 -1.3 9 54-62 87-95 (113)
271 KOG1842|consensus 23.1 31 0.00067 23.7 0.2 31 18-48 179-213 (505)
272 PF06676 DUF1178: Protein of u 23.0 1.3E+02 0.0028 17.4 2.7 10 54-63 33-42 (148)
273 PF06170 DUF983: Protein of un 23.0 47 0.001 17.3 0.8 19 48-66 3-21 (86)
274 TIGR00627 tfb4 transcription f 23.0 19 0.00041 23.0 -0.7 8 54-61 270-277 (279)
275 KOG3993|consensus 22.7 10 0.00023 25.7 -2.0 37 19-64 267-306 (500)
276 PF01396 zf-C4_Topoisom: Topoi 22.7 45 0.00098 14.4 0.7 12 54-65 2-13 (39)
277 PF11290 DUF3090: Protein of u 22.6 76 0.0016 18.9 1.7 14 52-65 153-166 (171)
278 COG1439 Predicted nucleic acid 22.6 17 0.00036 21.7 -1.0 15 51-65 151-165 (177)
279 COG1675 TFA1 Transcription ini 22.6 70 0.0015 19.1 1.6 19 48-66 127-145 (176)
280 PRK14714 DNA polymerase II lar 22.4 43 0.00093 26.1 0.8 47 19-65 667-721 (1337)
281 KOG4021|consensus 22.3 36 0.00078 20.8 0.4 22 43-64 97-119 (239)
282 PRK00398 rpoP DNA-directed RNA 21.8 43 0.00093 14.9 0.5 12 53-64 21-32 (46)
283 KOG1245|consensus 21.8 46 0.00099 26.2 0.9 47 17-63 1106-1159(1404)
284 PF13465 zf-H2C2_2: Zinc-finge 21.4 35 0.00076 13.2 0.2 11 19-29 14-24 (26)
285 TIGR02098 MJ0042_CXXC MJ0042 f 21.1 43 0.00093 14.0 0.4 10 54-63 26-35 (38)
286 PF06869 DUF1258: Protein of u 21.1 19 0.00041 22.7 -1.0 21 38-59 17-37 (258)
287 KOG1729|consensus 21.1 64 0.0014 20.8 1.3 31 18-48 167-202 (288)
288 PF12292 DUF3624: Protein of u 21.1 20 0.00043 18.4 -0.8 18 42-59 3-21 (77)
289 COG3809 Uncharacterized protei 21.1 13 0.00029 19.2 -1.4 12 20-31 2-13 (88)
290 PF13717 zinc_ribbon_4: zinc-r 21.0 36 0.00079 14.5 0.2 12 20-31 3-14 (36)
291 PF10217 DUF2039: Uncharacteri 20.9 64 0.0014 17.2 1.1 20 39-62 71-90 (92)
292 PF07754 DUF1610: Domain of un 20.8 48 0.001 13.0 0.5 7 54-60 17-23 (24)
293 PF13771 zf-HC5HC2H: PHD-like 20.8 1.1E+02 0.0024 15.3 2.0 32 17-48 34-68 (90)
294 COG2835 Uncharacterized conser 20.7 52 0.0011 16.0 0.7 11 54-64 9-19 (60)
295 PF05502 Dynactin_p62: Dynacti 20.5 42 0.00092 23.1 0.5 11 54-64 53-63 (483)
296 smart00834 CxxC_CXXC_SSSS Puta 20.5 61 0.0013 13.6 0.9 11 53-63 26-36 (41)
297 smart00355 ZnF_C2H2 zinc finge 20.5 65 0.0014 11.3 0.9 11 55-65 2-12 (26)
298 KOG1701|consensus 20.3 1.1E+02 0.0024 21.0 2.3 13 54-66 395-407 (468)
299 KOG4443|consensus 20.2 65 0.0014 23.3 1.3 45 17-61 16-70 (694)
300 PF02148 zf-UBP: Zn-finger in 20.2 84 0.0018 14.9 1.4 11 34-44 14-24 (63)
301 PF02961 BAF: Barrier to autoi 20.0 67 0.0015 17.0 1.1 11 41-51 77-87 (89)
302 PF14369 zf-RING_3: zinc-finge 20.0 51 0.0011 14.0 0.5 8 56-63 24-31 (35)
No 1
>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=99.66 E-value=1.3e-16 Score=78.80 Aligned_cols=63 Identities=22% Similarity=0.380 Sum_probs=56.2
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhhhcC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFVQIF 81 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~y 81 (81)
.+.|+||.+.+.+|+.++|||+||+.||.+|+..+..||.|+.++......++..+.+.++.|
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~~ 63 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQEW 63 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHhC
Confidence 368999999999999999999999999999999888999999999777788888777777654
No 2
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.65 E-value=1.1e-16 Score=73.36 Aligned_cols=38 Identities=50% Similarity=1.233 Sum_probs=30.4
Q ss_pred ccccccCCCCCeecCCCCcccHHHHHHHHhCC----CCCCCC
Q psy8828 22 CPICHDEFKTPVQLTCCHIFCESCVTKWFDRE----QTCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~----~~CP~C 59 (81)
|+||++++.+|++++|||+||..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999998843 468876
No 3
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.62 E-value=3.3e-16 Score=100.04 Aligned_cols=71 Identities=31% Similarity=0.638 Sum_probs=61.5
Q ss_pred CccccCCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhhhcC
Q psy8828 11 TKETLLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFVQIF 81 (81)
Q Consensus 11 ~~~~~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~y 81 (81)
.....++..+.|+||.+.+.+|++++|||+||..|+..|+.....||.|+..+....+..+..+.++++.|
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESF 88 (397)
T ss_pred ccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHH
Confidence 33456678899999999999999999999999999999999888999999998877777788788877654
No 4
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.60 E-value=2.4e-15 Score=87.91 Aligned_cols=52 Identities=33% Similarity=0.864 Sum_probs=44.4
Q ss_pred CCCCccccccccCCCCCeecCCCCcccHHHHHHHHhC----------------CCCCCCCCCCCCCCc
Q psy8828 16 LGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDR----------------EQTCPLCRATLVDDP 67 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~----------------~~~CP~C~~~~~~~~ 67 (81)
..+.+.|+||++.+.+|+.++|||.||..||.+|+.. ...||+|+..+....
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 3457899999999999999999999999999999742 258999999986543
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=99.57 E-value=2.2e-15 Score=68.04 Aligned_cols=38 Identities=45% Similarity=1.314 Sum_probs=33.5
Q ss_pred ccccccCCCCC-eecCCCCcccHHHHHHHHhCCCCCCCC
Q psy8828 22 CPICHDEFKTP-VQLTCCHIFCESCVTKWFDREQTCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~p-~~l~C~h~fc~~Cl~~~~~~~~~CP~C 59 (81)
|+||++.+.+| +.++|||+||.+|+.+|++.+..||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 79999999999 577999999999999999998899987
No 6
>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=99.54 E-value=1.8e-15 Score=69.97 Aligned_cols=40 Identities=48% Similarity=1.299 Sum_probs=34.7
Q ss_pred cccccccCCCC---CeecCCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 21 ICPICHDEFKT---PVQLTCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 21 ~C~iC~~~~~~---p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
.|+||++.+.. .+.++|||.||.+||.+|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 69999999853 45679999999999999999999999996
No 7
>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=99.52 E-value=1.1e-14 Score=69.02 Aligned_cols=46 Identities=37% Similarity=1.003 Sum_probs=41.0
Q ss_pred CccccccccCCCCCeecCCCCc-ccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHI-FCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~-fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
+..|.||++...+.+.+||||. ||..|+.+|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4689999999999989999999 999999999999999999999874
No 8
>KOG0287|consensus
Probab=99.52 E-value=1.3e-15 Score=95.01 Aligned_cols=67 Identities=25% Similarity=0.603 Sum_probs=60.2
Q ss_pred cCCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhhhcC
Q psy8828 15 LLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFVQIF 81 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~y 81 (81)
.+...++|.||.++|..|+++||+|+||.-||..++.....||.|+.++.+..+..+..++.+++-|
T Consensus 19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 3456789999999999999999999999999999999999999999999988888888888877654
No 9
>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=99.51 E-value=6.3e-15 Score=74.88 Aligned_cols=65 Identities=22% Similarity=0.446 Sum_probs=52.9
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhC-CCCCCCCCCCCCCCccccCcccchhhhcC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDR-EQTCPLCRATLVDDPAWRDGATSYFVQIF 81 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~~~~~~y 81 (81)
.+.+.|+|+.+++.+|+++++||+|.+.+|.+|+.. ...||.++.++....+.+|..+...++.|
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence 357899999999999999999999999999999998 78999999999888888888888777654
No 10
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.49 E-value=3.9e-14 Score=85.55 Aligned_cols=49 Identities=29% Similarity=0.866 Sum_probs=41.6
Q ss_pred CCCccccccccCCCCC--------eecCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTP--------VQLTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p--------~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
....+|+||++.+.++ +.++|+|.||..||.+|+..+.+||+||..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3467999999987653 345899999999999999999999999998753
No 11
>KOG0823|consensus
Probab=99.48 E-value=3e-14 Score=84.81 Aligned_cols=52 Identities=37% Similarity=0.839 Sum_probs=45.5
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhC---CCCCCCCCCCCCCCcc
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDR---EQTCPLCRATLVDDPA 68 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~---~~~CP~C~~~~~~~~~ 68 (81)
...+.|.||++.-++|+.+.|||.||-.||.+|+.. ++.||+|+..+....+
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 456899999999999999999999999999999983 4689999998866543
No 12
>KOG0317|consensus
Probab=99.45 E-value=7.6e-14 Score=85.31 Aligned_cols=54 Identities=30% Similarity=0.800 Sum_probs=48.4
Q ss_pred cCCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCcc
Q psy8828 15 LLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPA 68 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~ 68 (81)
..+....|.+|++...+|.-+||||.||-.||..|......||+||..+.+.++
T Consensus 235 i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 345568999999999999999999999999999999999999999999877654
No 13
>KOG0320|consensus
Probab=99.43 E-value=1e-13 Score=79.73 Aligned_cols=50 Identities=30% Similarity=0.815 Sum_probs=43.3
Q ss_pred CCccccccccCCCCC--eecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCc
Q psy8828 18 VGCICPICHDEFKTP--VQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDP 67 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p--~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~ 67 (81)
..+.||||++.+.+. +.+.|||.||..||++.++....||+|++.+....
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 457999999998874 45799999999999999999999999999776543
No 14
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.43 E-value=5.8e-15 Score=72.16 Aligned_cols=61 Identities=31% Similarity=0.639 Sum_probs=34.1
Q ss_pred CCCCccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhh
Q psy8828 16 LGVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFV 78 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~ 78 (81)
+++.+.|++|.+.+.+|+.+ .|.|.||..|+.+.+. ..||+|+.+....+...|+.+++++
T Consensus 4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHHHH
T ss_pred HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhccC
Confidence 34568999999999999865 8999999999977544 4599999999888888888887764
No 15
>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=99.43 E-value=1.3e-13 Score=62.66 Aligned_cols=38 Identities=50% Similarity=1.378 Sum_probs=34.7
Q ss_pred ccccccCCCCCe-ecCCCCcccHHHHHHHHh--CCCCCCCC
Q psy8828 22 CPICHDEFKTPV-QLTCCHIFCESCVTKWFD--REQTCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~p~-~l~C~h~fc~~Cl~~~~~--~~~~CP~C 59 (81)
|+||++.+.++. .++|||.||..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 799999999999 789999999999999998 55789987
No 16
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.36 E-value=9.6e-13 Score=60.26 Aligned_cols=43 Identities=53% Similarity=1.398 Sum_probs=37.0
Q ss_pred cccccccCCCCCeec-CCCCcccHHHHHHHHhC-CCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQL-TCCHIFCESCVTKWFDR-EQTCPLCRATL 63 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~-~~~CP~C~~~~ 63 (81)
.|+||++.+.+++.+ +|||.||..|+.+|+.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 489999999777766 49999999999999987 77899998753
No 17
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.34 E-value=3.4e-13 Score=82.98 Aligned_cols=64 Identities=23% Similarity=0.590 Sum_probs=52.6
Q ss_pred CCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhhh
Q psy8828 16 LGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFVQ 79 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~ 79 (81)
+...+.|.||.+.+..|..++|||+||.-||.+++.....||+|+.+........+.....+++
T Consensus 22 LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~e 85 (391)
T COG5432 22 LDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINE 85 (391)
T ss_pred chhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHH
Confidence 3456799999999999999999999999999999999999999999876655544444444443
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.32 E-value=1.9e-12 Score=59.75 Aligned_cols=41 Identities=39% Similarity=1.081 Sum_probs=34.9
Q ss_pred cccccccCC---CCCeecCCCCcccHHHHHHHHhCCCCCCCCCC
Q psy8828 21 ICPICHDEF---KTPVQLTCCHIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 21 ~C~iC~~~~---~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
.|++|.+.+ ..+..++|||+||..|+..+......||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 489999998 24667799999999999998866789999974
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.31 E-value=1.5e-12 Score=59.71 Aligned_cols=30 Identities=47% Similarity=1.268 Sum_probs=21.2
Q ss_pred ccccccCCCC----CeecCCCCcccHHHHHHHHhC
Q psy8828 22 CPICHDEFKT----PVQLTCCHIFCESCVTKWFDR 52 (81)
Q Consensus 22 C~iC~~~~~~----p~~l~C~h~fc~~Cl~~~~~~ 52 (81)
|+||.+ +.+ |+.|+|||+||.+|+.++.+.
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 777 899999999999999999883
No 20
>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=99.30 E-value=3e-12 Score=64.98 Aligned_cols=42 Identities=38% Similarity=1.042 Sum_probs=34.3
Q ss_pred CccccccccCCCCC------------e-ecCCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP------------V-QLTCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 19 ~~~C~iC~~~~~~p------------~-~l~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
+..|+||++.+.++ + ..+|||.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 34599999999432 2 238999999999999999999999997
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.27 E-value=7.6e-12 Score=55.45 Aligned_cols=38 Identities=55% Similarity=1.441 Sum_probs=34.1
Q ss_pred ccccccCCCCCeecCCCCcccHHHHHHHHh-CCCCCCCC
Q psy8828 22 CPICHDEFKTPVQLTCCHIFCESCVTKWFD-REQTCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~-~~~~CP~C 59 (81)
|+||++....++.++|||.||..|+.+|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988888999999999999999998 55679986
No 22
>KOG0802|consensus
Probab=99.26 E-value=2.4e-12 Score=85.59 Aligned_cols=54 Identities=44% Similarity=0.968 Sum_probs=46.5
Q ss_pred cCCCCccccccccCCCC-----CeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCcc
Q psy8828 15 LLGVGCICPICHDEFKT-----PVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPA 68 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~-----p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~ 68 (81)
.......|+||.+.+.. +.+++|+|.||..|+..|+++..+||.||..+.....
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 34457799999999998 7899999999999999999999999999996554433
No 23
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=6.2e-12 Score=79.64 Aligned_cols=51 Identities=39% Similarity=0.991 Sum_probs=43.3
Q ss_pred ccCCCCccccccccCC-CC------------CeecCCCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 14 TLLGVGCICPICHDEF-KT------------PVQLTCCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~-~~------------p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
+...++..|.||++.+ .. |+.+||||.+|..|++.|++++++||.||.++.
T Consensus 282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 3445677999999984 33 478999999999999999999999999999853
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=99.23 E-value=8.3e-12 Score=74.33 Aligned_cols=49 Identities=29% Similarity=0.803 Sum_probs=38.8
Q ss_pred CCCccccccccCCCC---------CeecCCCCcccHHHHHHHHhCC------CCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKT---------PVQLTCCHIFCESCVTKWFDRE------QTCPLCRATLVD 65 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~---------p~~l~C~h~fc~~Cl~~~~~~~------~~CP~C~~~~~~ 65 (81)
..+.+|+||++...+ ++..+|+|.||..||..|.... ..||.||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 456899999998643 2345899999999999999742 469999998753
No 25
>KOG4628|consensus
Probab=99.19 E-value=1.4e-11 Score=77.73 Aligned_cols=47 Identities=28% Similarity=0.862 Sum_probs=40.3
Q ss_pred ccccccccCCCCC---eecCCCCcccHHHHHHHHhCC-CCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTP---VQLTCCHIFCESCVTKWFDRE-QTCPLCRATLVDD 66 (81)
Q Consensus 20 ~~C~iC~~~~~~p---~~l~C~h~fc~~Cl~~~~~~~-~~CP~C~~~~~~~ 66 (81)
..|+||+|.|... +.|||+|.||..||..|+.+. ..||+|+..+...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 5999999999875 356999999999999999977 4599999987553
No 26
>KOG2177|consensus
Probab=99.16 E-value=1.2e-11 Score=75.55 Aligned_cols=49 Identities=39% Similarity=0.971 Sum_probs=43.0
Q ss_pred cccCCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCC
Q psy8828 13 ETLLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 13 ~~~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
.....+.+.|+||++.+..|++++|||+||..|+..+......||.|+.
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 3455678899999999999988899999999999998886678999994
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=4.6e-11 Score=72.56 Aligned_cols=52 Identities=33% Similarity=0.772 Sum_probs=44.5
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHH-HHhCCC-CCCCCCCCCCCCcc
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTK-WFDREQ-TCPLCRATLVDDPA 68 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~-~~~~~~-~CP~C~~~~~~~~~ 68 (81)
..++.|+||++....|..++|||.||..||.. |-.+.. .||+||+......+
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 45789999999999999999999999999998 877665 49999998765443
No 28
>KOG2164|consensus
Probab=99.04 E-value=1.7e-10 Score=75.35 Aligned_cols=49 Identities=35% Similarity=0.954 Sum_probs=42.7
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCC-----CCCCCCCCCCCCCc
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDRE-----QTCPLCRATLVDDP 67 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~-----~~CP~C~~~~~~~~ 67 (81)
...||||++...-|..+.|||.||..||..++..+ ..||+|+..+...+
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 78999999999999999999999999999988733 58999998876543
No 29
>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=98.96 E-value=1.2e-09 Score=68.23 Aligned_cols=49 Identities=33% Similarity=0.814 Sum_probs=37.9
Q ss_pred CccccccccC-CCCCe---ec-CCCCcccHHHHHHHHh-CCCCCCCCCCCCCCCc
Q psy8828 19 GCICPICHDE-FKTPV---QL-TCCHIFCESCVTKWFD-REQTCPLCRATLVDDP 67 (81)
Q Consensus 19 ~~~C~iC~~~-~~~p~---~l-~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~~~ 67 (81)
+..||+|... +.+|. .+ +|||.||..|+..++. ....||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4589999995 34443 22 7999999999999765 4568999999887654
No 30
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.92 E-value=1.5e-09 Score=56.07 Aligned_cols=47 Identities=32% Similarity=0.858 Sum_probs=37.2
Q ss_pred CCccccccccCCCC------------Ceec-CCCCcccHHHHHHHHhC---CCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKT------------PVQL-TCCHIFCESCVTKWFDR---EQTCPLCRATLV 64 (81)
Q Consensus 18 ~~~~C~iC~~~~~~------------p~~l-~C~h~fc~~Cl~~~~~~---~~~CP~C~~~~~ 64 (81)
.+..|.||+..|.. |+.+ .|+|.||..||.+|+.. +..||.||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 46688888887763 3333 79999999999999984 369999998764
No 31
>KOG2660|consensus
Probab=98.92 E-value=3.4e-10 Score=70.63 Aligned_cols=54 Identities=26% Similarity=0.713 Sum_probs=47.0
Q ss_pred ccCCCCccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCCCCCCCc
Q psy8828 14 TLLGVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRATLVDDP 67 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~ 67 (81)
..+.....|.+|..++.++.++ .|.|+||+.||.+++.....||.|...+....
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 3455678999999999999876 79999999999999999999999988876543
No 32
>KOG0311|consensus
Probab=98.91 E-value=1.1e-10 Score=73.48 Aligned_cols=65 Identities=29% Similarity=0.669 Sum_probs=51.8
Q ss_pred ccCCCCccccccccCCCCCeec-CCCCcccHHHHHHHHh-CCCCCCCCCCCCCCC-ccccCcccchhh
Q psy8828 14 TLLGVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFD-REQTCPLCRATLVDD-PAWRDGATSYFV 78 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~~-~~~~~~~~~~~~ 78 (81)
..+...+.|+||+++++..+++ .|+|.||.+||...+. .+..||.||+.+.+. .+..+.+++.++
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLi 105 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALI 105 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHH
Confidence 3445678999999999998877 7999999999988777 568999999998764 555666665544
No 33
>KOG4159|consensus
Probab=98.90 E-value=8.1e-10 Score=71.14 Aligned_cols=52 Identities=35% Similarity=0.816 Sum_probs=47.3
Q ss_pred ccCCCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 14 TLLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
.....++.|.||...+..|+.+||||+||..||.+.+.....||.|+..+..
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 3446789999999999999999999999999999988888999999999875
No 34
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=1.2e-09 Score=67.78 Aligned_cols=47 Identities=36% Similarity=0.852 Sum_probs=40.0
Q ss_pred CccccccccCCCCC---eecCCCCcccHHHHHHHHh-CCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP---VQLTCCHIFCESCVTKWFD-REQTCPLCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~~~~p---~~l~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~ 65 (81)
..+|+||++.+... +.+||.|.||..|+.+|+. -+..||+|+.++++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 46899999987642 4569999999999999998 56799999998864
No 35
>KOG0978|consensus
Probab=98.84 E-value=1.2e-09 Score=74.04 Aligned_cols=55 Identities=29% Similarity=0.744 Sum_probs=46.8
Q ss_pred cCCCCccccccccCCCCCeecCCCCcccHHHHHHHHh-CCCCCCCCCCCCCCCccc
Q psy8828 15 LLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFD-REQTCPLCRATLVDDPAW 69 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~~~~~ 69 (81)
....-+.|++|..-..+.+++.|||.||..|+.+... +...||.|...|...++.
T Consensus 639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVH 694 (698)
T ss_pred HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccccc
Confidence 3345689999999999999999999999999998777 668999999999876543
No 36
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.71 E-value=7e-09 Score=61.17 Aligned_cols=58 Identities=22% Similarity=0.690 Sum_probs=47.1
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchh
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYF 77 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~ 77 (81)
.+.|.||...|..|+.+.|||.||..|..+-.+....|-+|.+...-. .+....++.+
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~-f~V~~d~~km 253 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR-FWVVSDLQKM 253 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccc-eeHHhhHHHH
Confidence 579999999999999999999999999999889999999998875432 3334444433
No 37
>KOG1734|consensus
Probab=98.63 E-value=8.1e-09 Score=63.29 Aligned_cols=52 Identities=27% Similarity=0.740 Sum_probs=41.2
Q ss_pred cCCCCccccccccCCCCC----------eecCCCCcccHHHHHHHHh--CCCCCCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTP----------VQLTCCHIFCESCVTKWFD--REQTCPLCRATLVDD 66 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p----------~~l~C~h~fc~~Cl~~~~~--~~~~CP~C~~~~~~~ 66 (81)
.-.++..|+||...+... .+++|+|+|+..||..|.. +.++||.|++.+...
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 334667899999876543 3679999999999999976 568999998877543
No 38
>KOG0824|consensus
Probab=98.63 E-value=1.7e-08 Score=62.56 Aligned_cols=48 Identities=31% Similarity=0.739 Sum_probs=42.1
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCC-CCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDRE-QTCPLCRATLVDD 66 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~-~~CP~C~~~~~~~ 66 (81)
.-+|+||+....-|+.++|+|.||.-||+...... ..|++||.++.+.
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 34799999999999999999999999999877755 5699999998765
No 39
>KOG0297|consensus
Probab=98.57 E-value=5.8e-08 Score=62.76 Aligned_cols=52 Identities=38% Similarity=0.924 Sum_probs=46.4
Q ss_pred CCCCccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCCCCCCCc
Q psy8828 16 LGVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRATLVDDP 67 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~ 67 (81)
.++++.|++|...+.+|+.. .|||.||..|+..|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 56789999999999999984 99999999999999999999999988765543
No 40
>KOG4265|consensus
Probab=98.54 E-value=6.8e-08 Score=61.05 Aligned_cols=49 Identities=31% Similarity=0.777 Sum_probs=44.0
Q ss_pred CCCccccccccCCCCCeecCCCCc-ccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHI-FCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~-fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
+...+|-||+...++-+.+||.|. .|..|.+...-+...||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 457799999999999999999997 8999999887788999999999865
No 41
>KOG1813|consensus
Probab=98.48 E-value=4.7e-08 Score=60.50 Aligned_cols=47 Identities=32% Similarity=0.725 Sum_probs=42.8
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
.+.|-||...|.+|+.+.|+|.||..|...-++.+..|++|.+.+..
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCCcceeccccccc
Confidence 46799999999999999999999999999988889999999887643
No 42
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.42 E-value=1.5e-07 Score=45.54 Aligned_cols=42 Identities=26% Similarity=0.715 Sum_probs=29.8
Q ss_pred CCCccccccccCCCCCeec-CCCCcccHHHHHHHHh--CCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFD--REQTCPL 58 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~--~~~~CP~ 58 (81)
...+.|||.+..+.+|+.- .|||+|-++.|..+++ ....||+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3467999999999999875 8999999999999994 3468997
No 43
>KOG2879|consensus
Probab=98.38 E-value=6.9e-07 Score=55.00 Aligned_cols=51 Identities=27% Similarity=0.624 Sum_probs=42.2
Q ss_pred cCCCCccccccccCCCCCeec-CCCCcccHHHHHHHHh--CCCCCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFD--REQTCPLCRATLVD 65 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~--~~~~CP~C~~~~~~ 65 (81)
.-....+|++|.+....|.+. +|+|.||..|+..... .+..||.|......
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 334567999999999999887 5999999999987665 45899999887753
No 44
>KOG4172|consensus
Probab=98.37 E-value=9.7e-08 Score=45.34 Aligned_cols=47 Identities=32% Similarity=0.712 Sum_probs=39.8
Q ss_pred CccccccccCCCCCeecCCCCc-ccHHHHHHHHh-CCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHI-FCESCVTKWFD-REQTCPLCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~-fc~~Cl~~~~~-~~~~CP~C~~~~~~ 65 (81)
..+|.||.+...+.+...|||. .|.+|-.+.++ .+..||+||+++.+
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 3689999999888888899996 89999988777 56799999998753
No 45
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.35 E-value=7.7e-08 Score=48.42 Aligned_cols=46 Identities=26% Similarity=0.663 Sum_probs=22.9
Q ss_pred CccccccccCCC-C---Ceec----CCCCcccHHHHHHHHhC---C--------CCCCCCCCCCC
Q psy8828 19 GCICPICHDEFK-T---PVQL----TCCHIFCESCVTKWFDR---E--------QTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~-~---p~~l----~C~h~fc~~Cl~~~~~~---~--------~~CP~C~~~~~ 64 (81)
+..|+||..... + |... .|+..||..||.+|+.. + ..||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999865 2 2222 69999999999999872 1 26999988764
No 46
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.33 E-value=4.8e-07 Score=46.09 Aligned_cols=46 Identities=35% Similarity=0.834 Sum_probs=35.8
Q ss_pred ccccccccCCCCC---------------eec-CCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTP---------------VQL-TCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 20 ~~C~iC~~~~~~p---------------~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
..|+||+..+-++ +.. -|.|.|+..||.+|+.....||+++++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 4677777765431 112 599999999999999999999999987643
No 47
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.32 E-value=7.8e-07 Score=41.78 Aligned_cols=40 Identities=33% Similarity=1.007 Sum_probs=30.5
Q ss_pred ccccccc--CCCCCeecCCC-----CcccHHHHHHHHhC--CCCCCCCC
Q psy8828 21 ICPICHD--EFKTPVQLTCC-----HIFCESCVTKWFDR--EQTCPLCR 60 (81)
Q Consensus 21 ~C~iC~~--~~~~p~~l~C~-----h~fc~~Cl~~~~~~--~~~CP~C~ 60 (81)
.|.||++ .-.++...||. +.+|..|+.+|+.. +..||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889987 33456666875 77999999999974 45899984
No 48
>KOG0828|consensus
Probab=98.31 E-value=4.1e-07 Score=59.93 Aligned_cols=49 Identities=31% Similarity=0.724 Sum_probs=39.1
Q ss_pred CCCccccccccCCCC-----------------CeecCCCCcccHHHHHHHHh-CCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKT-----------------PVQLTCCHIFCESCVTKWFD-REQTCPLCRATLVD 65 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~-----------------p~~l~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~ 65 (81)
+....|+||+..+.- -+.+||.|.|+..|+.+|+. .+..||+||.+++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 445689999997642 12359999999999999999 55699999998864
No 49
>KOG1039|consensus
Probab=98.23 E-value=8.1e-07 Score=56.58 Aligned_cols=47 Identities=30% Similarity=0.817 Sum_probs=38.2
Q ss_pred CCccccccccCCCCCe-----e---cCCCCcccHHHHHHHHh--C-----CCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPV-----Q---LTCCHIFCESCVTKWFD--R-----EQTCPLCRATLV 64 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~-----~---l~C~h~fc~~Cl~~~~~--~-----~~~CP~C~~~~~ 64 (81)
.+..|.||++...+.. . .+|.|.||..|+..|.. + ...||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 4679999999877654 2 47999999999999984 3 478999998753
No 50
>KOG0804|consensus
Probab=98.21 E-value=9.1e-07 Score=57.63 Aligned_cols=48 Identities=31% Similarity=0.816 Sum_probs=38.3
Q ss_pred cCCCCccccccccCCCCCe----ecCCCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTPV----QLTCCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~----~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
...+.-.||||++.+.+.+ .+.|.|+|+..|+..|. ..+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 3345559999999998754 34899999999999994 478999987655
No 51
>KOG3039|consensus
Probab=98.19 E-value=1.8e-06 Score=52.66 Aligned_cols=53 Identities=21% Similarity=0.417 Sum_probs=46.0
Q ss_pred CCccccccccCCCCCee----cCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCcccc
Q psy8828 18 VGCICPICHDEFKTPVQ----LTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWR 70 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~----l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~ 70 (81)
..+.||+|.+.+.+.+. -+|||+|+.+|+++++.....||+|..++.+.++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 56899999999998543 389999999999999999999999999998775543
No 52
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.13 E-value=7.6e-07 Score=62.60 Aligned_cols=49 Identities=31% Similarity=0.746 Sum_probs=37.7
Q ss_pred CCCCccccccccCCC-CCee------cCCCCcccHHHHHHHHhC--CCCCCCCCCCCC
Q psy8828 16 LGVGCICPICHDEFK-TPVQ------LTCCHIFCESCVTKWFDR--EQTCPLCRATLV 64 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~-~p~~------l~C~h~fc~~Cl~~~~~~--~~~CP~C~~~~~ 64 (81)
+....+|+||...+. .... -.|.|.||..|+.+|.+. +.+||+||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 344568999999876 1122 259999999999999984 479999997764
No 53
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.10 E-value=2.1e-06 Score=53.80 Aligned_cols=42 Identities=31% Similarity=0.912 Sum_probs=37.0
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHh-CCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFD-REQTCPLCRA 61 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~-~~~~CP~C~~ 61 (81)
+.|+.|..++.+|+.+ -|+|.||.+||...+. ..+.||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 7999999999999998 5799999999997766 5589999954
No 54
>KOG0827|consensus
Probab=98.06 E-value=2.7e-06 Score=54.74 Aligned_cols=49 Identities=37% Similarity=0.905 Sum_probs=36.4
Q ss_pred ccccccccCCCCCeec----CCCCcccHHHHHHHHhC--C-CCCCCCCCCCCCCcc
Q psy8828 20 CICPICHDEFKTPVQL----TCCHIFCESCVTKWFDR--E-QTCPLCRATLVDDPA 68 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l----~C~h~fc~~Cl~~~~~~--~-~~CP~C~~~~~~~~~ 68 (81)
..|.||.+.+....-+ .|||+|+..|+..|+.. + ..||.|+-.+.....
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~ 60 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHV 60 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceee
Confidence 4799997765543333 59999999999999983 3 589999855554433
No 55
>KOG1785|consensus
Probab=98.05 E-value=1.8e-06 Score=55.83 Aligned_cols=45 Identities=38% Similarity=0.958 Sum_probs=38.0
Q ss_pred cccccccCCCCCeecCCCCcccHHHHHHHHhC--CCCCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQLTCCHIFCESCVTKWFDR--EQTCPLCRATLVD 65 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~--~~~CP~C~~~~~~ 65 (81)
.|.||-+.-++-.+-||||..|..|+..|... ...||+||..+.-
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 69999998777666699999999999999863 5899999988743
No 56
>KOG1002|consensus
Probab=98.02 E-value=3.5e-06 Score=56.29 Aligned_cols=50 Identities=30% Similarity=0.782 Sum_probs=42.5
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHh-----CCCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFD-----REQTCPLCRATLVDD 66 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~-----~~~~CP~C~~~~~~~ 66 (81)
.....|.+|.+.-++++...|.|.||+.|+.++.. .+.+||.|...+...
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 34579999999999999999999999999988876 346999998887543
No 57
>KOG4692|consensus
Probab=98.00 E-value=3.7e-06 Score=53.69 Aligned_cols=49 Identities=29% Similarity=0.674 Sum_probs=44.0
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
.++..||||..-..+.+..||+|.-|..||.+.+.+.+.|-.|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 4566899999999999999999999999999999999999999887653
No 58
>KOG2930|consensus
Probab=97.97 E-value=5.2e-06 Score=44.30 Aligned_cols=28 Identities=29% Similarity=0.856 Sum_probs=25.6
Q ss_pred CCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 36 TCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 36 ~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
.|.|.|+.-||.+|++.+..||++.++-
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 5999999999999999999999997653
No 59
>KOG1493|consensus
Probab=97.88 E-value=3.6e-06 Score=42.62 Aligned_cols=45 Identities=36% Similarity=0.925 Sum_probs=34.2
Q ss_pred ccccccccCCCC------------Ceec-CCCCcccHHHHHHHHhC---CCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT------------PVQL-TCCHIFCESCVTKWFDR---EQTCPLCRATLV 64 (81)
Q Consensus 20 ~~C~iC~~~~~~------------p~~l-~C~h~fc~~Cl~~~~~~---~~~CP~C~~~~~ 64 (81)
..|.||+-.|.. |..+ .|.|.|+..||.+|+.. ...||.||+...
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 378888777653 3333 59999999999999873 368999998753
No 60
>KOG1645|consensus
Probab=97.86 E-value=4.8e-06 Score=53.88 Aligned_cols=48 Identities=40% Similarity=1.063 Sum_probs=38.1
Q ss_pred CccccccccCCCCC-----eecCCCCcccHHHHHHHHhCC--CCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP-----VQLTCCHIFCESCVTKWFDRE--QTCPLCRATLVDD 66 (81)
Q Consensus 19 ~~~C~iC~~~~~~p-----~~l~C~h~fc~~Cl~~~~~~~--~~CP~C~~~~~~~ 66 (81)
...||||++.+.-+ +.+.|||.|-..||++|+.+. ..||.|......+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr 58 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKR 58 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHH
Confidence 46899999998765 345899999999999999743 5899997655443
No 61
>KOG0825|consensus
Probab=97.80 E-value=2.9e-06 Score=58.74 Aligned_cols=47 Identities=32% Similarity=0.714 Sum_probs=36.1
Q ss_pred ccccccccCCCCCe---ecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPV---QLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 20 ~~C~iC~~~~~~p~---~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
..|++|+..+.+.. ...|+|.||..|+..|.+...+||+||..+...
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 35666666554432 237999999999999999999999999987553
No 62
>KOG4367|consensus
Probab=97.74 E-value=1.8e-05 Score=51.95 Aligned_cols=36 Identities=25% Similarity=0.782 Sum_probs=32.2
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDR 52 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~ 52 (81)
++++.|+||...|.+|++++|+|..|+.|....+.+
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 567899999999999999999999999999876653
No 63
>KOG4185|consensus
Probab=97.73 E-value=2.7e-05 Score=48.62 Aligned_cols=45 Identities=33% Similarity=0.892 Sum_probs=37.4
Q ss_pred CccccccccCCCC------CeecCCCCcccHHHHHHHHhCC-CCCCCCCCCC
Q psy8828 19 GCICPICHDEFKT------PVQLTCCHIFCESCVTKWFDRE-QTCPLCRATL 63 (81)
Q Consensus 19 ~~~C~iC~~~~~~------p~~l~C~h~fc~~Cl~~~~~~~-~~CP~C~~~~ 63 (81)
...|-||.+.|.. |..+.|||++|..|+.+.+... ..||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3578999988864 6777899999999999888754 5789999985
No 64
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.73 E-value=6.8e-05 Score=46.31 Aligned_cols=53 Identities=21% Similarity=0.518 Sum_probs=41.7
Q ss_pred CCCCccccccccCCCCCe----ecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccc
Q psy8828 16 LGVGCICPICHDEFKTPV----QLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAW 69 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~----~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~ 69 (81)
....+.|||....+.... ..+|||+|...++.+.- ....||+|..++...++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence 456789999999985432 23999999999999884 467899999998766544
No 65
>KOG4275|consensus
Probab=97.73 E-value=3e-06 Score=52.79 Aligned_cols=42 Identities=36% Similarity=0.880 Sum_probs=35.9
Q ss_pred CccccccccCCCCCeecCCCCc-ccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHI-FCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~-fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
...|.||++...+-+.|+|||. -|.+|-.+. ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 5689999999999999999994 699998655 47999998754
No 66
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.71 E-value=2.7e-05 Score=37.16 Aligned_cols=46 Identities=26% Similarity=0.627 Sum_probs=35.2
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
...|-.|...-...+.++|||..|..|..- ++-+.||+|..++...
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEccccccccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence 445666777666778899999999999753 2447899999988654
No 67
>KOG0826|consensus
Probab=97.66 E-value=5.2e-05 Score=47.99 Aligned_cols=49 Identities=20% Similarity=0.511 Sum_probs=42.0
Q ss_pred CCCCccccccccCCCCCeecC-CCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 16 LGVGCICPICHDEFKTPVQLT-CCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l~-C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
..+...||+|+....+|..+. -|-+||..|+..++...+.||+-..+..
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 345579999999999998885 5999999999999999999998876654
No 68
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.65 E-value=5.6e-05 Score=35.21 Aligned_cols=42 Identities=26% Similarity=0.774 Sum_probs=21.3
Q ss_pred ccccccCCCCC--eec--CCCCcccHHHHHHHHh-CCCCCCCCCCCC
Q psy8828 22 CPICHDEFKTP--VQL--TCCHIFCESCVTKWFD-REQTCPLCRATL 63 (81)
Q Consensus 22 C~iC~~~~~~p--~~l--~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~ 63 (81)
||+|.+.+... ... +||...|..|..+.+. ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 67888877321 122 6899999999999887 578999999864
No 69
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.39 E-value=0.00029 Score=45.25 Aligned_cols=53 Identities=23% Similarity=0.573 Sum_probs=41.9
Q ss_pred CccccCCCCccccccccCCCCCeecCCCCcccHHHHHHHH--hCCCCCCCCCCCC
Q psy8828 11 TKETLLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWF--DREQTCPLCRATL 63 (81)
Q Consensus 11 ~~~~~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~--~~~~~CP~C~~~~ 63 (81)
+..+..++...|.||-+.+.-...+||+|..|.-|..+.. -..+.|++|+..-
T Consensus 53 SaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3444556778999999987776788999999999987653 3778999998764
No 70
>KOG1571|consensus
Probab=97.34 E-value=0.00018 Score=45.97 Aligned_cols=45 Identities=31% Similarity=0.702 Sum_probs=34.3
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
.....|.||.+..++.+.+||||.-| |..-.. ....||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 34568999999999999999999866 554332 2345999988764
No 71
>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=97.13 E-value=0.00083 Score=30.59 Aligned_cols=38 Identities=24% Similarity=0.743 Sum_probs=23.7
Q ss_pred ccccccCCCCCeecC---CCCcccHHHHHHHHhCCC--CCCCC
Q psy8828 22 CPICHDEFKTPVQLT---CCHIFCESCVTKWFDREQ--TCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~p~~l~---C~h~fc~~Cl~~~~~~~~--~CP~C 59 (81)
|.+|.++....+.-+ |+-.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888888777654 988999999999988554 79977
No 72
>KOG1001|consensus
Probab=97.10 E-value=0.00012 Score=50.56 Aligned_cols=48 Identities=33% Similarity=0.771 Sum_probs=39.7
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHHHHhCC--CCCCCCCCCCCCCcc
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTKWFDRE--QTCPLCRATLVDDPA 68 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~--~~CP~C~~~~~~~~~ 68 (81)
..|.+|.+ ...++.++|+|.||.+|+....... ..||.|+..+.....
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 79999999 7778888999999999999887743 479999887755433
No 73
>KOG2817|consensus
Probab=97.08 E-value=0.00055 Score=44.36 Aligned_cols=49 Identities=20% Similarity=0.558 Sum_probs=38.5
Q ss_pred cCCCCccccccccCCC---CCeecCCCCcccHHHHHHHHhCC---CCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFK---TPVQLTCCHIFCESCVTKWFDRE---QTCPLCRATL 63 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~---~p~~l~C~h~fc~~Cl~~~~~~~---~~CP~C~~~~ 63 (81)
.....|.|||=.+.-. .|+.+.|||+.+.+-+.+..++. ..||.|-...
T Consensus 330 ~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred cccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 3456789999777544 38899999999999999987743 6899995543
No 74
>KOG1814|consensus
Probab=97.08 E-value=0.00016 Score=47.05 Aligned_cols=48 Identities=29% Similarity=0.665 Sum_probs=35.5
Q ss_pred cCCCCccccccccCCCCC---eecCCCCcccHHHHHHHHh--------CCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTP---VQLTCCHIFCESCVTKWFD--------REQTCPLCRAT 62 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p---~~l~C~h~fc~~Cl~~~~~--------~~~~CP~C~~~ 62 (81)
.....+.|.||++..... +.+||+|.||+.|+..+.. +...||.+...
T Consensus 180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 180 FVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred HHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 345568999999986542 4569999999999999876 22478775443
No 75
>KOG3800|consensus
Probab=97.06 E-value=0.00063 Score=42.53 Aligned_cols=46 Identities=35% Similarity=0.860 Sum_probs=35.2
Q ss_pred cccccccC-CCCCee----cCCCCcccHHHHHHHHh-CCCCCCCCCCCCCCC
Q psy8828 21 ICPICHDE-FKTPVQ----LTCCHIFCESCVTKWFD-REQTCPLCRATLVDD 66 (81)
Q Consensus 21 ~C~iC~~~-~~~p~~----l~C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~~~ 66 (81)
.||+|... |.+|-. -+|+|..|.+|+.+.+. ....||.|...+...
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 58888875 445421 28999999999999887 457999998877654
No 76
>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=97.00 E-value=0.00028 Score=32.64 Aligned_cols=42 Identities=29% Similarity=0.768 Sum_probs=25.5
Q ss_pred ccccccCCCCCeecCCC-CcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 22 CPICHDEFKTPVQLTCC-HIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 22 C~iC~~~~~~p~~l~C~-h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
|.-|.-. +.-.+.|. |..|..|+...+..+..||+|..+++.
T Consensus 5 CKsCWf~--~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 5 CKSCWFA--NKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp --SS-S----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred Chhhhhc--CCCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 4444433 33355776 788999999999999999999998864
No 77
>KOG1941|consensus
Probab=96.98 E-value=0.00025 Score=46.14 Aligned_cols=44 Identities=27% Similarity=0.759 Sum_probs=34.9
Q ss_pred CCccccccccCCCC-Ce---ecCCCCcccHHHHHHHHhCC--CCCCCCCC
Q psy8828 18 VGCICPICHDEFKT-PV---QLTCCHIFCESCVTKWFDRE--QTCPLCRA 61 (81)
Q Consensus 18 ~~~~C~iC~~~~~~-p~---~l~C~h~fc~~Cl~~~~~~~--~~CP~C~~ 61 (81)
-++-|..|.+.+-. +- -+||.|.||..|+.+++.++ .+||.|++
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 35689999987643 22 35999999999999999855 68999984
No 78
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.96 E-value=0.0017 Score=37.43 Aligned_cols=49 Identities=24% Similarity=0.643 Sum_probs=35.5
Q ss_pred CCCCccccccccCCCCCeecCCCC-----cccHHHHHHHHhC--CCCCCCCCCCCCC
Q psy8828 16 LGVGCICPICHDEFKTPVQLTCCH-----IFCESCVTKWFDR--EQTCPLCRATLVD 65 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l~C~h-----~fc~~Cl~~~~~~--~~~CP~C~~~~~~ 65 (81)
...+..|-||.+...+ ..-||.. ..|.+|+.+|+.. ...|+.|+.+...
T Consensus 5 s~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3455689999988542 3346543 3499999999984 4689999988643
No 79
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.92 E-value=0.0015 Score=36.60 Aligned_cols=49 Identities=20% Similarity=0.567 Sum_probs=40.5
Q ss_pred CCccccccccCCCCCeec-C---CCCcccHHHHHHHHhC---CCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQL-T---CCHIFCESCVTKWFDR---EQTCPLCRATLVDD 66 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l-~---C~h~fc~~Cl~~~~~~---~~~CP~C~~~~~~~ 66 (81)
...+|.||.+...+...| | ||-..|..|--..++. ...||+|+..+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 457999999998888877 2 8999999999877773 47999999888664
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=96.86 E-value=0.0004 Score=37.08 Aligned_cols=32 Identities=22% Similarity=0.613 Sum_probs=26.1
Q ss_pred CCCCccccccccCCCCCeec--CCCCcccHHHHH
Q psy8828 16 LGVGCICPICHDEFKTPVQL--TCCHIFCESCVT 47 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~l--~C~h~fc~~Cl~ 47 (81)
+.+...|++|...+.+.... ||||.||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34566899999999876543 999999999975
No 81
>KOG3002|consensus
Probab=96.85 E-value=0.0011 Score=41.96 Aligned_cols=47 Identities=28% Similarity=0.609 Sum_probs=37.7
Q ss_pred CCCCccccccccCCCCCee-cCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 16 LGVGCICPICHDEFKTPVQ-LTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~~-l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
..+.+.||||.+.+..|+. -.=||..|..|-. +....||.|+.++..
T Consensus 45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred chhhccCchhhccCcccceecCCCcEehhhhhh---hhcccCCcccccccc
Confidence 3456899999999999863 3568999999975 356789999998874
No 82
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.80 E-value=0.0022 Score=36.97 Aligned_cols=34 Identities=24% Similarity=0.616 Sum_probs=25.6
Q ss_pred CCccccccccCCCCCeecC------------CCCcc-cHHHHHHHHh
Q psy8828 18 VGCICPICHDEFKTPVQLT------------CCHIF-CESCVTKWFD 51 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l~------------C~h~f-c~~Cl~~~~~ 51 (81)
++..||||++...+++.|- |+..| +..||.++.+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3568999999999999873 44332 6789988754
No 83
>KOG4739|consensus
Probab=96.70 E-value=0.00048 Score=41.96 Aligned_cols=44 Identities=30% Similarity=0.739 Sum_probs=29.5
Q ss_pred cccccccCCC-CCe-ecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 21 ICPICHDEFK-TPV-QLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 21 ~C~iC~~~~~-~p~-~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
.|..|..... ++. .+.|+|+||..|...- ....||.|++.+...
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccC--Cccccccccceeeee
Confidence 4666655433 233 4589999999998532 223899999986543
No 84
>KOG1952|consensus
Probab=96.59 E-value=0.0013 Score=46.40 Aligned_cols=46 Identities=28% Similarity=0.799 Sum_probs=35.4
Q ss_pred CCCccccccccCCCCCeec----CCCCcccHHHHHHHHhC-------CCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQL----TCCHIFCESCVTKWFDR-------EQTCPLCRAT 62 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l----~C~h~fc~~Cl~~~~~~-------~~~CP~C~~~ 62 (81)
...++|.||.+.+.....+ .|-|+|+..||.+|... ...||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4567999999987653222 58899999999999872 3589999843
No 85
>KOG1940|consensus
Probab=96.51 E-value=0.0018 Score=40.41 Aligned_cols=42 Identities=29% Similarity=0.686 Sum_probs=35.4
Q ss_pred ccccccccCCCC----CeecCCCCcccHHHHHHHHhCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT----PVQLTCCHIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 20 ~~C~iC~~~~~~----p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
..||||.+.+.. +..++|||..+..|+......+.+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 459999997654 456799999999999988887799999988
No 86
>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=96.49 E-value=0.0014 Score=30.73 Aligned_cols=42 Identities=24% Similarity=0.729 Sum_probs=21.0
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHh-----CCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFD-----REQTCPLCRAT 62 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~-----~~~~CP~C~~~ 62 (81)
+.||+....+..|++- .|.|.-|.+- ..|+. ....||+|.++
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 6899999999999876 8999866432 22332 34689999763
No 87
>KOG2114|consensus
Probab=96.48 E-value=0.0018 Score=45.69 Aligned_cols=41 Identities=29% Similarity=0.844 Sum_probs=34.8
Q ss_pred ccccccccCCCCCee-cCCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQ-LTCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~-l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
-.|..|...+.-|.. -.|||.||..|+. .+...||.|+...
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 489999999999865 4999999999998 4667999997744
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.40 E-value=0.0038 Score=40.22 Aligned_cols=46 Identities=24% Similarity=0.674 Sum_probs=34.5
Q ss_pred cccccccCCCCC--e--ecCCCCcccHHHHHHHHhC-CCCCCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTP--V--QLTCCHIFCESCVTKWFDR-EQTCPLCRATLVDD 66 (81)
Q Consensus 21 ~C~iC~~~~~~p--~--~l~C~h~fc~~Cl~~~~~~-~~~CP~C~~~~~~~ 66 (81)
-||+|++.+... - -.+||...|+.|.....+. +..||.||....+.
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 499999987632 1 2378999999998766553 57899999876554
No 89
>PHA03096 p28-like protein; Provisional
Probab=96.28 E-value=0.003 Score=39.70 Aligned_cols=42 Identities=29% Similarity=0.542 Sum_probs=29.8
Q ss_pred ccccccccCCCCC--------eecCCCCcccHHHHHHHHhCC---CCCCCCCC
Q psy8828 20 CICPICHDEFKTP--------VQLTCCHIFCESCVTKWFDRE---QTCPLCRA 61 (81)
Q Consensus 20 ~~C~iC~~~~~~p--------~~l~C~h~fc~~Cl~~~~~~~---~~CP~C~~ 61 (81)
..|.||++..... +.-.|.|.||..|+..|...+ ..||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 5799999976532 222799999999999998733 34444433
No 90
>KOG4362|consensus
Probab=96.27 E-value=0.00079 Score=46.44 Aligned_cols=49 Identities=35% Similarity=0.809 Sum_probs=39.9
Q ss_pred CCccccccccCCCCCeecCCCCcccHHHHHHHHhC---CCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDR---EQTCPLCRATLVDD 66 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~---~~~CP~C~~~~~~~ 66 (81)
..++|+||...+.+|+.+.|.|.||..|+...+.. ...||+|+..+...
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 45799999999999999999999999999865552 45799998665443
No 91
>KOG3268|consensus
Probab=96.26 E-value=0.0047 Score=36.42 Aligned_cols=44 Identities=25% Similarity=0.686 Sum_probs=30.9
Q ss_pred cccccccCCCCCee-------cCCCCcccHHHHHHHHhC------C-----CCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQ-------LTCCHIFCESCVTKWFDR------E-----QTCPLCRATLV 64 (81)
Q Consensus 21 ~C~iC~~~~~~p~~-------l~C~h~fc~~Cl~~~~~~------~-----~~CP~C~~~~~ 64 (81)
.|.||..+--+..+ ..||..|+.-|+..|++. + ..||.|..++.
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 45566554333221 369999999999999972 2 37999988764
No 92
>KOG3970|consensus
Probab=96.18 E-value=0.0068 Score=37.00 Aligned_cols=47 Identities=21% Similarity=0.627 Sum_probs=37.4
Q ss_pred ccccccccCCCC--CeecCCCCcccHHHHHHHHhC--------CCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT--PVQLTCCHIFCESCVTKWFDR--------EQTCPLCRATLVDD 66 (81)
Q Consensus 20 ~~C~iC~~~~~~--p~~l~C~h~fc~~Cl~~~~~~--------~~~CP~C~~~~~~~ 66 (81)
--|.+|...+.+ .+.+-|-|.|+-+|+.+|... ...||.|..++...
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 478899988875 456799999999999999762 35899998876543
No 93
>KOG1428|consensus
Probab=96.12 E-value=0.0047 Score=46.58 Aligned_cols=51 Identities=27% Similarity=0.705 Sum_probs=38.6
Q ss_pred cCCCCccccccccCCC---CCeecCCCCcccHHHHHHHHhCC----------CCCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFK---TPVQLTCCHIFCESCVTKWFDRE----------QTCPLCRATLVD 65 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~---~p~~l~C~h~fc~~Cl~~~~~~~----------~~CP~C~~~~~~ 65 (81)
....+..|-||+..-- ..+++.|+|.|+..|..+.+++. ..||+|..++..
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 3445678999988643 24678999999999998776643 389999888754
No 94
>KOG4445|consensus
Probab=96.03 E-value=0.0021 Score=40.61 Aligned_cols=49 Identities=24% Similarity=0.632 Sum_probs=37.4
Q ss_pred CCccccccccCCCCC---eecCCCCcccHHHHHHHHh-----------------------CCCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTP---VQLTCCHIFCESCVTKWFD-----------------------REQTCPLCRATLVDD 66 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p---~~l~C~h~fc~~Cl~~~~~-----------------------~~~~CP~C~~~~~~~ 66 (81)
....|.||+--|.+. +.++|.|.|+..|+.+++. ....||+|+..+...
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 345899998877653 3569999999999988874 113799999988654
No 95
>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=96.02 E-value=0.004 Score=34.99 Aligned_cols=35 Identities=29% Similarity=0.709 Sum_probs=26.8
Q ss_pred CccccccccCCCC--Cee-cCCC------CcccHHHHHHHHhCC
Q psy8828 19 GCICPICHDEFKT--PVQ-LTCC------HIFCESCVTKWFDRE 53 (81)
Q Consensus 19 ~~~C~iC~~~~~~--p~~-l~C~------h~fc~~Cl~~~~~~~ 53 (81)
..+|.||++.+.+ .++ ++|| |.||.+|+.+|....
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 5799999999887 543 3554 679999999995433
No 96
>KOG3113|consensus
Probab=95.98 E-value=0.0082 Score=37.15 Aligned_cols=55 Identities=20% Similarity=0.395 Sum_probs=41.0
Q ss_pred CCCCccccccccCCCCCe----ecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCc
Q psy8828 16 LGVGCICPICHDEFKTPV----QLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDG 72 (81)
Q Consensus 16 ~~~~~~C~iC~~~~~~p~----~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~ 72 (81)
....+.|||-.-.+.... ..+|||+|-..-+.+. ....|++|++.+...+.....
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlN 166 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLN 166 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeC
Confidence 356789999877766543 3489999999888765 468999999998776554433
No 97
>PHA02862 5L protein; Provisional
Probab=95.84 E-value=0.012 Score=33.51 Aligned_cols=45 Identities=24% Similarity=0.616 Sum_probs=33.5
Q ss_pred ccccccccCCCCCeecCCC-----CcccHHHHHHHHhC--CCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQLTCC-----HIFCESCVTKWFDR--EQTCPLCRATLVD 65 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~-----h~fc~~Cl~~~~~~--~~~CP~C~~~~~~ 65 (81)
..|-||.+.-.+. .-||. ...|++|+.+|+.. ...|+.|+.+...
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 4688999986544 34654 34699999999984 4689999988743
No 98
>KOG2932|consensus
Probab=95.56 E-value=0.0066 Score=38.64 Aligned_cols=42 Identities=29% Similarity=0.811 Sum_probs=28.5
Q ss_pred ccccccccCCCC-CeecCCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT-PVQLTCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 20 ~~C~iC~~~~~~-p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
..|--|-..+.. ...++|.|+||.+|... ...+.||.|...+
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 355556554433 34569999999999752 3467899996554
No 99
>KOG3161|consensus
Probab=95.36 E-value=0.0043 Score=42.87 Aligned_cols=41 Identities=34% Similarity=0.837 Sum_probs=31.3
Q ss_pred cCCCCccccccccCCC----CCeecCCCCcccHHHHHHHHhCCCCCC
Q psy8828 15 LLGVGCICPICHDEFK----TPVQLTCCHIFCESCVTKWFDREQTCP 57 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~----~p~~l~C~h~fc~~Cl~~~~~~~~~CP 57 (81)
.+.+.+.|+||...+. .|+.+.|||+.|..|+..... ..||
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 3445678999977765 478889999999999987644 4555
No 100
>KOG3039|consensus
Probab=95.11 E-value=0.027 Score=34.92 Aligned_cols=36 Identities=11% Similarity=0.180 Sum_probs=30.9
Q ss_pred cCCCCccccccccCCCCCeecCCCCcccHHHHHHHH
Q psy8828 15 LLGVGCICPICHDEFKTPVQLTCCHIFCESCVTKWF 50 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~ 50 (81)
.+.+..-|.+|+....+|++.+=||.|+++||.+++
T Consensus 39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 334456789999999999999999999999998775
No 101
>KOG0298|consensus
Probab=95.02 E-value=0.0046 Score=45.44 Aligned_cols=48 Identities=27% Similarity=0.642 Sum_probs=40.8
Q ss_pred CCccccccccCCC-CCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFK-TPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 18 ~~~~C~iC~~~~~-~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
....|.||.+.+. ...+..|||.+|..|...|+..+..||.|+....+
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~d 1200 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIKGD 1200 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhhhh
Confidence 4468999999998 45677999999999999999999999999755443
No 102
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.99 E-value=0.013 Score=27.11 Aligned_cols=38 Identities=26% Similarity=0.834 Sum_probs=23.1
Q ss_pred ccccccCCCC--CeecCCCC-----cccHHHHHHHHh--CCCCCCCC
Q psy8828 22 CPICHDEFKT--PVQLTCCH-----IFCESCVTKWFD--REQTCPLC 59 (81)
Q Consensus 22 C~iC~~~~~~--p~~l~C~h-----~fc~~Cl~~~~~--~~~~CP~C 59 (81)
|-||++.-.+ +.+.||.- ..|.+|+.+|+. .+..|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5577776443 35557642 469999999998 45678776
No 103
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.39 E-value=0.045 Score=35.09 Aligned_cols=49 Identities=22% Similarity=0.522 Sum_probs=37.2
Q ss_pred cCCCCccccccccCCC---CCeecCCCCcccHHHHHHHHhC---CCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFK---TPVQLTCCHIFCESCVTKWFDR---EQTCPLCRATL 63 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~---~p~~l~C~h~fc~~Cl~~~~~~---~~~CP~C~~~~ 63 (81)
.....+.||+=.+.-. .|+.+.|||+.-.+-+....+. ++.||.|-...
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4566789998666543 3788999999999999887764 36899995543
No 104
>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=94.17 E-value=0.044 Score=35.63 Aligned_cols=30 Identities=37% Similarity=0.976 Sum_probs=22.5
Q ss_pred CCCcccHHHHHHHHh-------------CCCCCCCCCCCCCCC
Q psy8828 37 CCHIFCESCVTKWFD-------------REQTCPLCRATLVDD 66 (81)
Q Consensus 37 C~h~fc~~Cl~~~~~-------------~~~~CP~C~~~~~~~ 66 (81)
|....|.+|+-+|+. ++..||+||+.+-..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 455679999998876 234899999987543
No 105
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=93.97 E-value=0.015 Score=35.88 Aligned_cols=47 Identities=38% Similarity=0.992 Sum_probs=34.3
Q ss_pred CccccccccC-CCCC-ee-c--C-CCCcccHHHHHHHHhCC-CCCC--CCCCCCCC
Q psy8828 19 GCICPICHDE-FKTP-VQ-L--T-CCHIFCESCVTKWFDRE-QTCP--LCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~-~~~p-~~-l--~-C~h~fc~~Cl~~~~~~~-~~CP--~C~~~~~~ 65 (81)
+..||+|... +-+| +. + | |-|..|.+|+.+.+... ..|| -|.+.+..
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK 65 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRK 65 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHH
Confidence 4589999976 4444 22 2 4 99999999999998854 6898 57665543
No 106
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.58 E-value=0.098 Score=24.96 Aligned_cols=31 Identities=29% Similarity=0.835 Sum_probs=24.5
Q ss_pred CccccccccCC--CCCeec--CCCCcccHHHHHHH
Q psy8828 19 GCICPICHDEF--KTPVQL--TCCHIFCESCVTKW 49 (81)
Q Consensus 19 ~~~C~iC~~~~--~~p~~l--~C~h~fc~~Cl~~~ 49 (81)
.-.|++|.+.+ .+.++. .||-.++++|..+.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 45799999999 555554 79999999998653
No 107
>KOG3579|consensus
Probab=93.42 E-value=0.12 Score=32.68 Aligned_cols=36 Identities=22% Similarity=0.681 Sum_probs=29.9
Q ss_pred CCCccccccccCCCCCeecCC----CCcccHHHHHHHHhC
Q psy8828 17 GVGCICPICHDEFKTPVQLTC----CHIFCESCVTKWFDR 52 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C----~h~fc~~Cl~~~~~~ 52 (81)
...+.|-+|.+.+++-..+.| .|.||..|-.+.++.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 345899999999999877766 699999999888773
No 108
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.31 E-value=0.056 Score=27.28 Aligned_cols=33 Identities=27% Similarity=0.626 Sum_probs=24.5
Q ss_pred CCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccC
Q psy8828 37 CCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRD 71 (81)
Q Consensus 37 C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~ 71 (81)
=.++||.+|.+..+. ..||.|...+...+..+.
T Consensus 27 fEcTFCadCae~~l~--g~CPnCGGelv~RP~RPa 59 (84)
T COG3813 27 FECTFCADCAENRLH--GLCPNCGGELVARPIRPA 59 (84)
T ss_pred EeeehhHhHHHHhhc--CcCCCCCchhhcCcCChH
Confidence 357999999986544 789999888866555443
No 109
>KOG2034|consensus
Probab=93.16 E-value=0.054 Score=38.79 Aligned_cols=37 Identities=22% Similarity=0.489 Sum_probs=28.2
Q ss_pred cCCCCccccccccCCCC-Cee-cCCCCcccHHHHHHHHh
Q psy8828 15 LLGVGCICPICHDEFKT-PVQ-LTCCHIFCESCVTKWFD 51 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~-p~~-l~C~h~fc~~Cl~~~~~ 51 (81)
.++....|.+|...+.. |-. -+|||.|+.+|+.+...
T Consensus 813 v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred EecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 34566789999987654 443 39999999999987653
No 110
>KOG1815|consensus
Probab=93.07 E-value=0.08 Score=35.25 Aligned_cols=34 Identities=29% Similarity=0.744 Sum_probs=29.1
Q ss_pred CCccccccccCCCC-CeecCCCCcccHHHHHHHHh
Q psy8828 18 VGCICPICHDEFKT-PVQLTCCHIFCESCVTKWFD 51 (81)
Q Consensus 18 ~~~~C~iC~~~~~~-p~~l~C~h~fc~~Cl~~~~~ 51 (81)
....|.||.+.+.. ...+.|||.||..|+..++.
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence 45789999999885 55669999999999999887
No 111
>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=92.88 E-value=0.18 Score=24.18 Aligned_cols=45 Identities=24% Similarity=0.646 Sum_probs=29.4
Q ss_pred cccccccCCCCC----eecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCc
Q psy8828 21 ICPICHDEFKTP----VQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDP 67 (81)
Q Consensus 21 ~C~iC~~~~~~p----~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~ 67 (81)
.|-.|-..+... .+-+=..+||.+|....+ ...||.|...+..++
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 355555554432 222333589999998876 478999988876543
No 112
>KOG1812|consensus
Probab=92.56 E-value=0.061 Score=35.28 Aligned_cols=33 Identities=33% Similarity=0.674 Sum_probs=24.9
Q ss_pred CccccccccCCCCC-e---ecCCCCcccHHHHHHHHh
Q psy8828 19 GCICPICHDEFKTP-V---QLTCCHIFCESCVTKWFD 51 (81)
Q Consensus 19 ~~~C~iC~~~~~~p-~---~l~C~h~fc~~Cl~~~~~ 51 (81)
...|.||......+ . ...|+|.||.+|+.++..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 56899999433322 1 347999999999998877
No 113
>KOG3899|consensus
Probab=91.64 E-value=0.14 Score=32.67 Aligned_cols=30 Identities=30% Similarity=0.850 Sum_probs=22.8
Q ss_pred CCCcccHHHHHHHHh-------------CCCCCCCCCCCCCCC
Q psy8828 37 CCHIFCESCVTKWFD-------------REQTCPLCRATLVDD 66 (81)
Q Consensus 37 C~h~fc~~Cl~~~~~-------------~~~~CP~C~~~~~~~ 66 (81)
|....|.+|+-+|+. ++..||.||+.+-..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 556779999988865 345899999987543
No 114
>KOG1100|consensus
Probab=91.56 E-value=0.082 Score=31.90 Aligned_cols=39 Identities=31% Similarity=0.781 Sum_probs=28.9
Q ss_pred ccccccCCCCCeecCCCC-cccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 22 CPICHDEFKTPVQLTCCH-IFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 22 C~iC~~~~~~p~~l~C~h-~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
|-.|.+.-..-..+||.| .+|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 888888766655669998 589988643 356999977654
No 115
>KOG4718|consensus
Probab=91.28 E-value=0.12 Score=31.35 Aligned_cols=42 Identities=21% Similarity=0.675 Sum_probs=35.9
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
..|.+|..+....+.. .|+-.++..|+.+++++...||.|.-
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 4899999988777655 78888999999999999999999944
No 116
>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=91.14 E-value=0.15 Score=25.23 Aligned_cols=12 Identities=42% Similarity=1.450 Sum_probs=8.8
Q ss_pred cccHHHHHHHHh
Q psy8828 40 IFCESCVTKWFD 51 (81)
Q Consensus 40 ~fc~~Cl~~~~~ 51 (81)
.||+.||.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 117
>KOG3053|consensus
Probab=90.79 E-value=0.21 Score=31.19 Aligned_cols=50 Identities=22% Similarity=0.604 Sum_probs=35.6
Q ss_pred cCCCCccccccccCCCCCeec----CC-----CCcccHHHHHHHHhCC--------CCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTPVQL----TC-----CHIFCESCVTKWFDRE--------QTCPLCRATLV 64 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l----~C-----~h~fc~~Cl~~~~~~~--------~~CP~C~~~~~ 64 (81)
..+.+..|-||+..=++.... || .|-.|..|+.+|.... -.||.|+....
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 344566899999987664332 54 3568999999998732 37999988753
No 118
>KOG0309|consensus
Probab=90.46 E-value=0.19 Score=35.89 Aligned_cols=39 Identities=33% Similarity=0.761 Sum_probs=28.3
Q ss_pred ccccccccCCCCCe--ecCCCCcccHHHHHHHHhCCCCCCC
Q psy8828 20 CICPICHDEFKTPV--QLTCCHIFCESCVTKWFDREQTCPL 58 (81)
Q Consensus 20 ~~C~iC~~~~~~p~--~l~C~h~fc~~Cl~~~~~~~~~CP~ 58 (81)
+.|.+|--...... ...|+|..+.+|..+|++....||.
T Consensus 1029 ~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEeeccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 45666554433322 2379999999999999998888887
No 119
>KOG1812|consensus
Probab=90.40 E-value=0.14 Score=33.64 Aligned_cols=41 Identities=27% Similarity=0.636 Sum_probs=31.2
Q ss_pred CccccccccCCCC-----CeecCCCCcccHHHHHHHHhCCCCCCCC
Q psy8828 19 GCICPICHDEFKT-----PVQLTCCHIFCESCVTKWFDREQTCPLC 59 (81)
Q Consensus 19 ~~~C~iC~~~~~~-----p~~l~C~h~fc~~Cl~~~~~~~~~CP~C 59 (81)
...|+.|...+.. .++-.|||.||..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 4589999887653 3444799999999999998877666443
No 120
>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=90.07 E-value=0.19 Score=20.28 Aligned_cols=8 Identities=50% Similarity=1.244 Sum_probs=4.1
Q ss_pred ccccccCC
Q psy8828 22 CPICHDEF 29 (81)
Q Consensus 22 C~iC~~~~ 29 (81)
||-|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 55555544
No 121
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.67 E-value=0.44 Score=34.45 Aligned_cols=51 Identities=20% Similarity=0.505 Sum_probs=36.3
Q ss_pred CCCccccccccCC--CCCeecCCCCc-----ccHHHHHHHHhC--CCCCCCCCCCCCCCc
Q psy8828 17 GVGCICPICHDEF--KTPVQLTCCHI-----FCESCVTKWFDR--EQTCPLCRATLVDDP 67 (81)
Q Consensus 17 ~~~~~C~iC~~~~--~~p~~l~C~h~-----fc~~Cl~~~~~~--~~~CP~C~~~~~~~~ 67 (81)
++...|.||...- .+|..-||..+ .|++|+.+|+.. ...|-.|+.++.-.+
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 3446899998753 34544476542 599999999984 468999998875443
No 122
>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=89.64 E-value=0.0077 Score=30.20 Aligned_cols=40 Identities=33% Similarity=0.795 Sum_probs=20.9
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
+.||.|...+... =++.+|..|-..+ .....||.|.+++.
T Consensus 2 ~~CP~C~~~L~~~----~~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ----GGHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE----TTEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe----CCEEECccccccc-eecccCCCcccHHH
Confidence 4789998875421 2677788887643 33457899988764
No 123
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=88.80 E-value=0.82 Score=23.45 Aligned_cols=48 Identities=29% Similarity=0.668 Sum_probs=19.2
Q ss_pred CCccccccccCCCC----Ceec---CCCCcccHHHHHHH-HhCCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKT----PVQL---TCCHIFCESCVTKW-FDREQTCPLCRATLVD 65 (81)
Q Consensus 18 ~~~~C~iC~~~~~~----p~~l---~C~h~fc~~Cl~~~-~~~~~~CP~C~~~~~~ 65 (81)
..-.|.||.+.+-- .+.+ .|+-..|+.|.+-- ...++.||.|+.....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 34579999987542 1222 57777899999633 3367899999877643
No 124
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=88.14 E-value=0.054 Score=21.26 Aligned_cols=6 Identities=50% Similarity=1.353 Sum_probs=2.5
Q ss_pred CCCCCC
Q psy8828 55 TCPLCR 60 (81)
Q Consensus 55 ~CP~C~ 60 (81)
.||.|.
T Consensus 15 fC~~CG 20 (23)
T PF13240_consen 15 FCPNCG 20 (23)
T ss_pred chhhhC
Confidence 344443
No 125
>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=87.50 E-value=0.6 Score=24.63 Aligned_cols=40 Identities=23% Similarity=0.788 Sum_probs=28.9
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCcc
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPA 68 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~ 68 (81)
..|-||...+..+ |+.||..|.. ....|..|.+.+.+...
T Consensus 45 ~~C~~CK~~v~q~-----g~~YCq~CAY----kkGiCamCGKki~dtk~ 84 (90)
T PF10235_consen 45 SKCKICKTKVHQP-----GAKYCQTCAY----KKGICAMCGKKILDTKN 84 (90)
T ss_pred ccccccccccccC-----CCccChhhhc----ccCcccccCCeeccccc
Confidence 3687887765542 7889999975 34689999998865433
No 126
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=86.46 E-value=1.7 Score=32.32 Aligned_cols=47 Identities=28% Similarity=0.705 Sum_probs=33.4
Q ss_pred CCccccccccCCCCC----eec---CCCCcccHHHHH-HHHhCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTP----VQL---TCCHIFCESCVT-KWFDREQTCPLCRATLV 64 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p----~~l---~C~h~fc~~Cl~-~~~~~~~~CP~C~~~~~ 64 (81)
..-.|.||.+.+-.. ..+ .|+--.|+.|.+ +....++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 345899999986531 122 678789999995 33336789999988765
No 127
>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=86.19 E-value=1.8 Score=23.35 Aligned_cols=25 Identities=28% Similarity=0.805 Sum_probs=18.7
Q ss_pred CCcccHHHHHHHHh---------CCCCCCCCCCC
Q psy8828 38 CHIFCESCVTKWFD---------REQTCPLCRAT 62 (81)
Q Consensus 38 ~h~fc~~Cl~~~~~---------~~~~CP~C~~~ 62 (81)
.-.||..||..... ....||.|+..
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 66799999976654 33579998774
No 128
>KOG2169|consensus
Probab=85.10 E-value=0.95 Score=31.77 Aligned_cols=66 Identities=24% Similarity=0.399 Sum_probs=42.1
Q ss_pred ccCCCCccccccccCCCCCee-cCCCCcccHHHHHHHHh----CCCCCCCCCCCCCCCccccCcccchhhh
Q psy8828 14 TLLGVGCICPICHDEFKTPVQ-LTCCHIFCESCVTKWFD----REQTCPLCRATLVDDPAWRDGATSYFVQ 79 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~~~p~~-l~C~h~fc~~Cl~~~~~----~~~~CP~C~~~~~~~~~~~~~~~~~~~~ 79 (81)
......+.|+|....+.-|.. ..|.|.-|.+-+.-... ....||+|.+......+..+..+.++++
T Consensus 301 t~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~iL~ 371 (636)
T KOG2169|consen 301 TSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNILQ 371 (636)
T ss_pred ccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchhhhHHHHHHHh
Confidence 344556789988877666544 37888777665432211 2368999988877666666655555443
No 129
>KOG2068|consensus
Probab=84.43 E-value=1.3 Score=28.68 Aligned_cols=46 Identities=26% Similarity=0.594 Sum_probs=35.7
Q ss_pred ccccccccCCCC--Cee--cCCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT--PVQ--LTCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 20 ~~C~iC~~~~~~--p~~--l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
-.|++|.+.... ... .+|++..|..|+.........||.|+++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 589999997632 122 3788888999999888889999999977643
No 130
>KOG2042|consensus
Probab=84.10 E-value=1.3 Score=32.45 Aligned_cols=63 Identities=16% Similarity=0.154 Sum_probs=51.7
Q ss_pred CCCccccccccCCCCCeecC-CCCcccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchhhh
Q psy8828 17 GVGCICPICHDEFKTPVQLT-CCHIFCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYFVQ 79 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~-C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~ 79 (81)
.+.+.=|+-.....+|+.+| -+++.++.=+.+++....+=|+||.++......++..+..-++
T Consensus 868 pdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~v~pn~eLK~kI~ 931 (943)
T KOG2042|consen 868 PDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDMVSPNEELKAKIR 931 (943)
T ss_pred chhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhhcCCCHHHHHHHH
Confidence 34556677778889999998 8899999999999998888899999999887777766655554
No 131
>KOG1609|consensus
Probab=84.08 E-value=1.5 Score=27.45 Aligned_cols=46 Identities=35% Similarity=0.870 Sum_probs=33.7
Q ss_pred CccccccccCCCC----CeecCCC-----CcccHHHHHHHHh--CCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKT----PVQLTCC-----HIFCESCVTKWFD--REQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~----p~~l~C~-----h~fc~~Cl~~~~~--~~~~CP~C~~~~~ 64 (81)
...|-||...... +...||. ...++.|+..|.. .+..|..|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4679999996543 3455653 3458999999998 5678999987654
No 132
>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=83.35 E-value=0.13 Score=32.35 Aligned_cols=46 Identities=26% Similarity=0.494 Sum_probs=22.7
Q ss_pred CCccccccccCCCCCeecCC---C--CcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQLTC---C--HIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l~C---~--h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
..-.||||.....-.+...= | +.+|.-|-..|.-....||.|...-
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTD 221 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---S
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCC
Confidence 34689999997654444322 3 5679999999988889999997653
No 133
>KOG0825|consensus
Probab=82.14 E-value=1.9 Score=31.40 Aligned_cols=46 Identities=17% Similarity=0.392 Sum_probs=32.6
Q ss_pred CCccccccccCCCCCe----ecC---CCCcccHHHHHHHHhC------CCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPV----QLT---CCHIFCESCVTKWFDR------EQTCPLCRATL 63 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~----~l~---C~h~fc~~Cl~~~~~~------~~~CP~C~~~~ 63 (81)
+...|.+|...+.+++ ..+ |+|.+|..||..|..+ .-.|++|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4467888887777632 234 9999999999999872 24567775544
No 134
>PF14353 CpXC: CpXC protein
Probab=81.56 E-value=1.5 Score=24.23 Aligned_cols=46 Identities=26% Similarity=0.346 Sum_probs=25.5
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHHHHhCC---CCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTKWFDRE---QTCPLCRATLVD 65 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~---~~CP~C~~~~~~ 65 (81)
+.||-|...+.-.+-..-.-..-.+-..+.+..+ .+||.|++.+..
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 5788888877654332221111223334444433 589999887643
No 135
>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=81.49 E-value=0.33 Score=31.07 Aligned_cols=45 Identities=20% Similarity=0.548 Sum_probs=32.5
Q ss_pred CCccccccccCCCCCeec----CCC--CcccHHHHHHHHhCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQL----TCC--HIFCESCVTKWFDREQTCPLCRAT 62 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l----~C~--h~fc~~Cl~~~~~~~~~CP~C~~~ 62 (81)
..-.||||.....-.++. .=| +.+|.-|-.+|.-....||.|...
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 345899999976543322 123 456888989998889999999764
No 136
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=81.33 E-value=1.4 Score=18.58 Aligned_cols=11 Identities=36% Similarity=0.911 Sum_probs=7.3
Q ss_pred CCCCCCCCCCC
Q psy8828 52 REQTCPLCRAT 62 (81)
Q Consensus 52 ~~~~CP~C~~~ 62 (81)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 34578888653
No 137
>PLN02189 cellulose synthase
Probab=80.92 E-value=1.6 Score=32.40 Aligned_cols=46 Identities=28% Similarity=0.692 Sum_probs=32.6
Q ss_pred CccccccccCCCCC----eec---CCCCcccHHHHHHH-HhCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP----VQL---TCCHIFCESCVTKW-FDREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p----~~l---~C~h~fc~~Cl~~~-~~~~~~CP~C~~~~~ 64 (81)
...|.||.+.+... ..+ .|+--.|+.|.+-- ...++.||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34899999986521 222 57778899999532 235689999988765
No 138
>KOG2979|consensus
Probab=80.84 E-value=1 Score=28.22 Aligned_cols=43 Identities=19% Similarity=0.393 Sum_probs=35.2
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHhC--CCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFDR--EQTCPLCRAT 62 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~--~~~CP~C~~~ 62 (81)
+.||+-...+.+|++- .|||.|=++-+..++.. ...||+-+..
T Consensus 177 ~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 5899988888898754 89999999999998886 4678885444
No 139
>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=80.39 E-value=2 Score=20.26 Aligned_cols=25 Identities=28% Similarity=0.740 Sum_probs=12.7
Q ss_pred CCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 36 TCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 36 ~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
.|++.||.+|=.=.-+.-..||-|.
T Consensus 26 ~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCccccCcChhhhccccCCcCCC
Confidence 5889999999532222335788773
No 140
>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=80.38 E-value=1.5 Score=20.44 Aligned_cols=29 Identities=28% Similarity=0.653 Sum_probs=19.9
Q ss_pred cccccccCCCCCe----ecCCCCcccHHHHHHH
Q psy8828 21 ICPICHDEFKTPV----QLTCCHIFCESCVTKW 49 (81)
Q Consensus 21 ~C~iC~~~~~~p~----~l~C~h~fc~~Cl~~~ 49 (81)
.|.+|...|..-. -..||+.||.+|....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 5777877655321 1279999999998644
No 141
>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 PLN02436 cellulose synthase A
Probab=79.55 E-value=1.8 Score=32.20 Aligned_cols=46 Identities=28% Similarity=0.684 Sum_probs=32.5
Q ss_pred CccccccccCCCCC----eec---CCCCcccHHHHHHHH-hCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP----VQL---TCCHIFCESCVTKWF-DREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p----~~l---~C~h~fc~~Cl~~~~-~~~~~CP~C~~~~~ 64 (81)
...|.||.+.+-.. ..+ .|+-..|+.|.+--. ..++.||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34899999986421 222 577788999995322 25689999988765
No 143
>PLN02195 cellulose synthase A
Probab=79.49 E-value=2.8 Score=31.02 Aligned_cols=45 Identities=20% Similarity=0.562 Sum_probs=32.3
Q ss_pred ccccccccCCCC-----Ceec--CCCCcccHHHHH-HHHhCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT-----PVQL--TCCHIFCESCVT-KWFDREQTCPLCRATLV 64 (81)
Q Consensus 20 ~~C~iC~~~~~~-----p~~l--~C~h~fc~~Cl~-~~~~~~~~CP~C~~~~~ 64 (81)
-.|.||.+.+.. +-.. .|+--.|+.|.+ +....++.||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 479999997542 2221 688889999995 22235689999988876
No 144
>KOG0269|consensus
Probab=79.38 E-value=2.4 Score=30.48 Aligned_cols=44 Identities=20% Similarity=0.480 Sum_probs=32.3
Q ss_pred CccccccccCCCCCeec--CCCCcccHHHHHHHHhCCCCCCC--CCCC
Q psy8828 19 GCICPICHDEFKTPVQL--TCCHIFCESCVTKWFDREQTCPL--CRAT 62 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l--~C~h~fc~~Cl~~~~~~~~~CP~--C~~~ 62 (81)
...|.+|...+..-..- .|||.-|.+++..|+..+..||. |...
T Consensus 779 ~~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred hcCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 34677887766542222 59999999999999998888876 5443
No 145
>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=79.20 E-value=0.4 Score=23.49 Aligned_cols=29 Identities=28% Similarity=0.709 Sum_probs=14.2
Q ss_pred CccccccccCCCCCee----cCCCCcccHHHHH
Q psy8828 19 GCICPICHDEFKTPVQ----LTCCHIFCESCVT 47 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~----l~C~h~fc~~Cl~ 47 (81)
...|.+|...|.--.. -.||+.||.+|..
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhC
Confidence 4589999998843211 1699999988875
No 146
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=78.91 E-value=1.2 Score=23.52 Aligned_cols=12 Identities=33% Similarity=1.384 Sum_probs=10.9
Q ss_pred cccHHHHHHHHh
Q psy8828 40 IFCESCVTKWFD 51 (81)
Q Consensus 40 ~fc~~Cl~~~~~ 51 (81)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 599999999987
No 147
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=78.56 E-value=0.86 Score=29.26 Aligned_cols=44 Identities=23% Similarity=0.591 Sum_probs=32.4
Q ss_pred CCccccccccCCCCCee-c--CCC--CcccHHHHHHHHhCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQ-L--TCC--HIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~-l--~C~--h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
..-.||+|.....-.+. + .=| +.+|.-|-.+|.-....||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45689999997654432 1 223 45688898999888899999975
No 148
>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=77.59 E-value=2.9 Score=25.77 Aligned_cols=27 Identities=30% Similarity=0.698 Sum_probs=22.3
Q ss_pred ccHHHHHHHHhCCCCCCCCCCCCCCCc
Q psy8828 41 FCESCVTKWFDREQTCPLCRATLVDDP 67 (81)
Q Consensus 41 fc~~Cl~~~~~~~~~CP~C~~~~~~~~ 67 (81)
-|..|-...-++...||+|+....+..
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCC
Confidence 488998888788899999998877653
No 149
>PLN02400 cellulose synthase
Probab=76.58 E-value=1.9 Score=32.16 Aligned_cols=46 Identities=33% Similarity=0.774 Sum_probs=32.5
Q ss_pred CccccccccCCCCC----eec---CCCCcccHHHHH-HHHhCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTP----VQL---TCCHIFCESCVT-KWFDREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p----~~l---~C~h~fc~~Cl~-~~~~~~~~CP~C~~~~~ 64 (81)
...|.||.+.+-.. ..+ .|+--.|+.|.+ +....++.||.|+....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 34899999986531 122 677788999995 22335689999988765
No 150
>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=75.38 E-value=0.92 Score=21.28 Aligned_cols=12 Identities=42% Similarity=0.982 Sum_probs=6.3
Q ss_pred CCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVD 65 (81)
Q Consensus 54 ~~CP~C~~~~~~ 65 (81)
..||+|+.++..
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 389999888764
No 151
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=75.04 E-value=1.8 Score=18.03 Aligned_cols=34 Identities=21% Similarity=0.574 Sum_probs=18.3
Q ss_pred ccccccCCCCC-eec-CCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 22 CPICHDEFKTP-VQL-TCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 22 C~iC~~~~~~p-~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
|..|.+.+... ..+ .=+..|+..| +.|..|+.++
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcC
Confidence 66677766653 222 3345555555 3466666554
No 152
>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=74.06 E-value=1.4 Score=20.02 Aligned_cols=27 Identities=22% Similarity=0.685 Sum_probs=17.8
Q ss_pred cccccccCCCCCeec---CCCCcccHHHHH
Q psy8828 21 ICPICHDEFKTPVQL---TCCHIFCESCVT 47 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l---~C~h~fc~~Cl~ 47 (81)
.|.||...-.+...+ .|+..||..|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~ 30 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVG 30 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTST
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCC
Confidence 377888844333333 678888888875
No 153
>KOG4451|consensus
Probab=73.46 E-value=3.8 Score=25.42 Aligned_cols=27 Identities=30% Similarity=0.656 Sum_probs=21.6
Q ss_pred cccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 40 IFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 40 ~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
..|..|-...-++...||+|+....+.
T Consensus 250 K~ClsChqqIHRNAPiCPlCKaKsRSr 276 (286)
T KOG4451|consen 250 KVCLSCHQQIHRNAPICPLCKAKSRSR 276 (286)
T ss_pred hHHHHHHHHHhcCCCCCcchhhccccC
Confidence 347888888777889999999887664
No 154
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=73.08 E-value=3.5 Score=30.76 Aligned_cols=47 Identities=23% Similarity=0.582 Sum_probs=33.0
Q ss_pred CCccccccccCCCCC----eec---CCCCcccHHHHH-HHHhCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTP----VQL---TCCHIFCESCVT-KWFDREQTCPLCRATLV 64 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p----~~l---~C~h~fc~~Cl~-~~~~~~~~CP~C~~~~~ 64 (81)
....|.||.+..-.. ..+ .|+-..|+.|.+ +....++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 345899999986531 122 678889999995 22235689999988765
No 155
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=72.26 E-value=2.8 Score=20.34 Aligned_cols=17 Identities=24% Similarity=0.733 Sum_probs=12.4
Q ss_pred CCCCCCCCCCCCCCCcc
Q psy8828 52 REQTCPLCRATLVDDPA 68 (81)
Q Consensus 52 ~~~~CP~C~~~~~~~~~ 68 (81)
.+..||.|+++++.+..
T Consensus 2 ~HkHC~~CG~~Ip~~~~ 18 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDES 18 (59)
T ss_pred CCCcCCcCCCcCCcchh
Confidence 35679999988876533
No 156
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=72.12 E-value=3.9 Score=24.56 Aligned_cols=38 Identities=37% Similarity=1.002 Sum_probs=25.6
Q ss_pred CCccccccccC-----CCCCeec---CCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 18 VGCICPICHDE-----FKTPVQL---TCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 18 ~~~~C~iC~~~-----~~~p~~l---~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
.++.|.+|.+. |....+. .|+..||..|..+ ..||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 45789999863 1111111 6899999999862 6699993
No 157
>PRK11595 DNA utilization protein GntX; Provisional
Probab=71.47 E-value=5 Score=24.40 Aligned_cols=38 Identities=18% Similarity=0.498 Sum_probs=22.4
Q ss_pred cccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
.|.+|...+... ....|..|...+..-...|+.|..+.
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 588887765321 12367778766533234688887654
No 158
>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 COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=69.92 E-value=2.3 Score=24.03 Aligned_cols=21 Identities=29% Similarity=0.608 Sum_probs=13.1
Q ss_pred ccccCCCCCeecCCCCcccHH
Q psy8828 24 ICHDEFKTPVQLTCCHIFCES 44 (81)
Q Consensus 24 iC~~~~~~p~~l~C~h~fc~~ 44 (81)
||.+.-..-+...|||+||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 455543333345899999864
No 160
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=69.39 E-value=4.2 Score=17.87 Aligned_cols=22 Identities=23% Similarity=0.794 Sum_probs=10.7
Q ss_pred ccccccCCCC-CeecC-CCCcccH
Q psy8828 22 CPICHDEFKT-PVQLT-CCHIFCE 43 (81)
Q Consensus 22 C~iC~~~~~~-p~~l~-C~h~fc~ 43 (81)
|.+|.....- |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 3344443333 44444 6666664
No 161
>KOG0289|consensus
Probab=69.18 E-value=5.9 Score=26.93 Aligned_cols=47 Identities=17% Similarity=0.360 Sum_probs=40.8
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
+.|+|-.+..++|+.- --||.|=+.-|+++......+|+-.+++...
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~e 48 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIE 48 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHH
Confidence 3699999999999876 4789999999999999999999998887544
No 162
>KOG2462|consensus
Probab=68.60 E-value=2 Score=27.17 Aligned_cols=52 Identities=21% Similarity=0.588 Sum_probs=33.4
Q ss_pred CCccccccccCCCC-C--------eecCCCCcccHHHHH-HHHhC----------CCCCCCCCCCCCCCccc
Q psy8828 18 VGCICPICHDEFKT-P--------VQLTCCHIFCESCVT-KWFDR----------EQTCPLCRATLVDDPAW 69 (81)
Q Consensus 18 ~~~~C~iC~~~~~~-p--------~~l~C~h~fc~~Cl~-~~~~~----------~~~CP~C~~~~~~~~~~ 69 (81)
..+.|.+|-..|.. | -.++|...+|.+-.. .|+.+ -+.||.|++.|.++.+.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNL 231 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNL 231 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHH
Confidence 34677788777654 1 124676667766554 66652 25899999988776443
No 163
>PF12773 DZR: Double zinc ribbon
Probab=68.04 E-value=6.3 Score=17.83 Aligned_cols=25 Identities=36% Similarity=0.693 Sum_probs=13.7
Q ss_pred cccHHHHHHHH--h-CCCCCCCCCCCCC
Q psy8828 40 IFCESCVTKWF--D-REQTCPLCRATLV 64 (81)
Q Consensus 40 ~fc~~Cl~~~~--~-~~~~CP~C~~~~~ 64 (81)
.||..|-.... . ....||.|...+.
T Consensus 13 ~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 13 KFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred cCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 35555554443 1 2356888877654
No 164
>KOG0802|consensus
Probab=67.73 E-value=4.7 Score=27.80 Aligned_cols=46 Identities=28% Similarity=0.777 Sum_probs=35.0
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
+....|.+|.... .....+|. +..|+.+|......||.|+......
T Consensus 477 ~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred cccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcc
Confidence 4456888888887 44555676 5788899999899999998876543
No 165
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=67.17 E-value=4.6 Score=28.99 Aligned_cols=47 Identities=28% Similarity=0.634 Sum_probs=33.8
Q ss_pred CCCccccccccCCCCCee----------cCCCCcc--------------------cHHHHHHHHh--------CCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQ----------LTCCHIF--------------------CESCVTKWFD--------REQTCPL 58 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~----------l~C~h~f--------------------c~~Cl~~~~~--------~~~~CP~ 58 (81)
.+.-.|.-|++.+.+|.. +.||..| |..|.+++.. +...||.
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~ 178 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPK 178 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcc
Confidence 455689999998887631 3577766 9999988765 2358999
Q ss_pred CCCCC
Q psy8828 59 CRATL 63 (81)
Q Consensus 59 C~~~~ 63 (81)
|.-.+
T Consensus 179 CGP~~ 183 (750)
T COG0068 179 CGPHL 183 (750)
T ss_pred cCCCe
Confidence 97654
No 166
>KOG0801|consensus
Probab=66.58 E-value=1.9 Score=25.35 Aligned_cols=12 Identities=25% Similarity=0.772 Sum_probs=6.4
Q ss_pred ccccccccCCCC
Q psy8828 20 CICPICHDEFKT 31 (81)
Q Consensus 20 ~~C~iC~~~~~~ 31 (81)
-+|.||++.+..
T Consensus 178 GECvICLEdL~~ 189 (205)
T KOG0801|consen 178 GECVICLEDLEA 189 (205)
T ss_pred CcEEEEhhhccC
Confidence 355555555543
No 167
>KOG0824|consensus
Probab=65.68 E-value=2.2 Score=27.47 Aligned_cols=47 Identities=32% Similarity=0.757 Sum_probs=37.3
Q ss_pred CCCccccccccCCCCCeec-CCCCcccHHHHHHHHhCCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQL-TCCHIFCESCVTKWFDREQTCPLCRATL 63 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~~~~CP~C~~~~ 63 (81)
.+...|-+|...+.-|.+. .|+|.||.-|...|......||.|+...
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4556888999988887766 6999999999999988777787776543
No 168
>KOG2231|consensus
Probab=64.55 E-value=7 Score=27.90 Aligned_cols=45 Identities=27% Similarity=0.600 Sum_probs=34.7
Q ss_pred cccccccCCCCCeecCCCC-cccHHHHHHHHh--C----CCCCCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQLTCCH-IFCESCVTKWFD--R----EQTCPLCRATLVD 65 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l~C~h-~fc~~Cl~~~~~--~----~~~CP~C~~~~~~ 65 (81)
.|+||-..+.-...-.||| ..|..|..+... . ...||+|+..+..
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 5889988887777779999 899999987654 3 3567999886543
No 169
>KOG0827|consensus
Probab=64.07 E-value=1.3 Score=29.48 Aligned_cols=47 Identities=26% Similarity=0.639 Sum_probs=37.3
Q ss_pred ccccccccCCCCC----eecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTP----VQLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 20 ~~C~iC~~~~~~p----~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
-.+.||...+..- ..+.|||.++..+|.+|+.....||.|+..+...
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 3678888876643 2458999999999999999888899998877543
No 170
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=63.96 E-value=0.77 Score=21.81 Aligned_cols=15 Identities=33% Similarity=1.008 Sum_probs=12.4
Q ss_pred CCCCcccHHHHHHHH
Q psy8828 36 TCCHIFCESCVTKWF 50 (81)
Q Consensus 36 ~C~h~fc~~Cl~~~~ 50 (81)
.|++.||..|..+|-
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999987763
No 171
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=63.12 E-value=10 Score=16.32 Aligned_cols=23 Identities=26% Similarity=0.885 Sum_probs=11.5
Q ss_pred ccHHHHHHHHhC--------CCCCCCCCCCC
Q psy8828 41 FCESCVTKWFDR--------EQTCPLCRATL 63 (81)
Q Consensus 41 fc~~Cl~~~~~~--------~~~CP~C~~~~ 63 (81)
.|.+|+.++... ...|+.|.-.+
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~ 31 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRY 31 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCE
Confidence 367777777542 24788885543
No 172
>KOG1829|consensus
Probab=62.76 E-value=2.8 Score=29.28 Aligned_cols=21 Identities=33% Similarity=1.081 Sum_probs=17.0
Q ss_pred CCCCcccHHHHHHHHhCCCCCCCC
Q psy8828 36 TCCHIFCESCVTKWFDREQTCPLC 59 (81)
Q Consensus 36 ~C~h~fc~~Cl~~~~~~~~~CP~C 59 (81)
.|++.||.+|+.+ .+..||.|
T Consensus 536 ~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 536 TCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHhc---cCCCCCch
Confidence 6999999999864 44559999
No 173
>COG4640 Predicted membrane protein [Function unknown]
Probab=62.20 E-value=1.7 Score=28.97 Aligned_cols=37 Identities=16% Similarity=0.457 Sum_probs=19.5
Q ss_pred ccHHHHHHHHhCCCCCCCCCCCCCCCccccCcccchh
Q psy8828 41 FCESCVTKWFDREQTCPLCRATLVDDPAWRDGATSYF 77 (81)
Q Consensus 41 fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~ 77 (81)
||..|-..-.+....||.|+.++.....+.+..+.+.
T Consensus 3 fC~kcG~qk~Ed~~qC~qCG~~~t~~~sqan~~tn~i 39 (465)
T COG4640 3 FCPKCGSQKAEDDVQCTQCGHKFTSRQSQANKSTNEI 39 (465)
T ss_pred cccccccccccccccccccCCcCCchhhhhhHHHHHH
Confidence 5555553333444447777777766544444444433
No 174
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=60.60 E-value=7.1 Score=18.23 Aligned_cols=9 Identities=44% Similarity=1.280 Sum_probs=5.6
Q ss_pred hCCCCCCCC
Q psy8828 51 DREQTCPLC 59 (81)
Q Consensus 51 ~~~~~CP~C 59 (81)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 345677776
No 175
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=60.27 E-value=6.3 Score=24.44 Aligned_cols=22 Identities=27% Similarity=0.637 Sum_probs=15.0
Q ss_pred ccccccccCCCC-Ceec--CCCCcc
Q psy8828 20 CICPICHDEFKT-PVQL--TCCHIF 41 (81)
Q Consensus 20 ~~C~iC~~~~~~-p~~l--~C~h~f 41 (81)
+.||+|...+.. ...+ +.+|+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 689999998852 2233 557776
No 176
>KOG2807|consensus
Probab=58.60 E-value=13 Score=24.44 Aligned_cols=40 Identities=25% Similarity=0.708 Sum_probs=25.8
Q ss_pred cccccccCCCCCee--c-CCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 21 ICPICHDEFKTPVQ--L-TCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 21 ~C~iC~~~~~~p~~--l-~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
.|-.|.+....... . .|.+.||.+|=.-.-..-..||-|.
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 48888665544322 2 6899999999543323336789885
No 177
>PLN02248 cellulose synthase-like protein
Probab=56.95 E-value=13 Score=28.20 Aligned_cols=30 Identities=20% Similarity=0.553 Sum_probs=25.7
Q ss_pred CCCCcccHHHHHHHHhCCCCCCCCCCCCCC
Q psy8828 36 TCCHIFCESCVTKWFDREQTCPLCRATLVD 65 (81)
Q Consensus 36 ~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~ 65 (81)
.|+...|++|....+.....||-|+++...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 467788999999999988999999988743
No 178
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.78 E-value=19 Score=19.80 Aligned_cols=41 Identities=27% Similarity=0.650 Sum_probs=28.2
Q ss_pred ccccccccCCCCCe--------------ecCCCCcccHHHHHHHHhCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPV--------------QLTCCHIFCESCVTKWFDREQTCPLCR 60 (81)
Q Consensus 20 ~~C~iC~~~~~~p~--------------~l~C~h~fc~~Cl~~~~~~~~~CP~C~ 60 (81)
..|--|+..|.++. -..|++.||.+|=.-+-..-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 35888988876531 125889999988654444446788885
No 179
>KOG2113|consensus
Probab=54.61 E-value=19 Score=23.60 Aligned_cols=42 Identities=7% Similarity=-0.084 Sum_probs=31.5
Q ss_pred CccccccccCCCCCeecCCCC-cccHHHHHHHHhCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCH-IFCESCVTKWFDREQTCPLCRAT 62 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h-~fc~~Cl~~~~~~~~~CP~C~~~ 62 (81)
.+.|-.|..-+...+..+|+| .||.+|.. +..+..||+|...
T Consensus 343 ~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceeeeEeecCCcccChhhhhh--cccCCcccccccc
Confidence 457878877766666669998 58999986 4566889999654
No 180
>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=54.32 E-value=16 Score=16.69 Aligned_cols=28 Identities=14% Similarity=0.387 Sum_probs=13.8
Q ss_pred ccccccccCCCCCe-ecCCCCcccHHHHH
Q psy8828 20 CICPICHDEFKTPV-QLTCCHIFCESCVT 47 (81)
Q Consensus 20 ~~C~iC~~~~~~p~-~l~C~h~fc~~Cl~ 47 (81)
+.|..|...+.... ...=+..||..|..
T Consensus 27 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~ 55 (58)
T PF00412_consen 27 FKCSKCGKPLNDGDFYEKDGKPYCKDCYQ 55 (58)
T ss_dssp SBETTTTCBTTTSSEEEETTEEEEHHHHH
T ss_pred cccCCCCCccCCCeeEeECCEEECHHHHh
Confidence 45556665555432 22334455555544
No 181
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=52.53 E-value=27 Score=18.29 Aligned_cols=39 Identities=15% Similarity=0.347 Sum_probs=24.2
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
...|+-|...+.---.+| +..|+..+..|..|++++...
T Consensus 33 rS~C~~C~~~L~~~~lIP---------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIP---------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCcCcCCCCcCcccccch---------HHHHHHhCCCCcccCCCCChH
Confidence 345666666555332333 345666778899998887653
No 182
>PRK01343 zinc-binding protein; Provisional
Probab=52.23 E-value=11 Score=18.19 Aligned_cols=12 Identities=25% Similarity=0.719 Sum_probs=9.1
Q ss_pred CCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLV 64 (81)
Q Consensus 53 ~~~CP~C~~~~~ 64 (81)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 467999988764
No 183
>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=52.22 E-value=11 Score=17.43 Aligned_cols=8 Identities=50% Similarity=1.211 Sum_probs=4.1
Q ss_pred CCCCCCCC
Q psy8828 54 QTCPLCRA 61 (81)
Q Consensus 54 ~~CP~C~~ 61 (81)
..||.|.+
T Consensus 3 f~CP~C~~ 10 (54)
T PF05605_consen 3 FTCPYCGK 10 (54)
T ss_pred cCCCCCCC
Confidence 34555544
No 184
>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=51.43 E-value=8.9 Score=17.03 Aligned_cols=20 Identities=25% Similarity=0.610 Sum_probs=8.9
Q ss_pred cccCCCCCeecC-CCCcccHH
Q psy8828 25 CHDEFKTPVQLT-CCHIFCES 44 (81)
Q Consensus 25 C~~~~~~p~~l~-C~h~fc~~ 44 (81)
|......|..-+ |+..||.+
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLK 26 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TT
T ss_pred CcCccCCCeECCCCCcccCcc
Confidence 555544555554 88888754
No 185
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=51.34 E-value=9.6 Score=23.85 Aligned_cols=39 Identities=23% Similarity=0.359 Sum_probs=31.0
Q ss_pred ccccccccCCCCCeec-CCCCcccHHHHHHHHhC--CCCCCC
Q psy8828 20 CICPICHDEFKTPVQL-TCCHIFCESCVTKWFDR--EQTCPL 58 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l-~C~h~fc~~Cl~~~~~~--~~~CP~ 58 (81)
.+|||-...+.-|+.- .|.|.|=.+-|...+.. ...||.
T Consensus 190 nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 190 NRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred ccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 5899988877777643 79999999999998884 456776
No 186
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=50.79 E-value=5.6 Score=16.14 Aligned_cols=11 Identities=55% Similarity=1.277 Sum_probs=5.8
Q ss_pred CCCCCCCCCCC
Q psy8828 55 TCPLCRATLVD 65 (81)
Q Consensus 55 ~CP~C~~~~~~ 65 (81)
.||.|...+..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48999888753
No 187
>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=50.54 E-value=9.1 Score=15.18 Aligned_cols=9 Identities=33% Similarity=1.121 Sum_probs=7.1
Q ss_pred CCCCCCCCC
Q psy8828 55 TCPLCRATL 63 (81)
Q Consensus 55 ~CP~C~~~~ 63 (81)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589997776
No 188
>KOG2789|consensus
Probab=49.32 E-value=16 Score=24.69 Aligned_cols=33 Identities=24% Similarity=0.643 Sum_probs=25.5
Q ss_pred CCccccccccCCCCCeec--CCCCcccHHHHHHHH
Q psy8828 18 VGCICPICHDEFKTPVQL--TCCHIFCESCVTKWF 50 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l--~C~h~fc~~Cl~~~~ 50 (81)
...+|+||+-++-....+ -|..+.|..|+.++-
T Consensus 73 r~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAKNLVRCCSETICGECFAPFG 107 (482)
T ss_pred ccccCceeeeecccccchhhhhccchhhhheeccc
Confidence 456999999988775544 578899999997653
No 189
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=49.18 E-value=11 Score=18.60 Aligned_cols=12 Identities=33% Similarity=0.634 Sum_probs=9.0
Q ss_pred CCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATL 63 (81)
Q Consensus 52 ~~~~CP~C~~~~ 63 (81)
....||.|....
T Consensus 16 ~~~~Cp~Cgs~~ 27 (64)
T PRK06393 16 PEKTCPVHGDEK 27 (64)
T ss_pred CCCcCCCCCCCc
Confidence 456899998764
No 190
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=48.33 E-value=28 Score=16.21 Aligned_cols=28 Identities=21% Similarity=0.635 Sum_probs=19.1
Q ss_pred cccccccCCC--CCeecCCCCcccHHHHHHH
Q psy8828 21 ICPICHDEFK--TPVQLTCCHIFCESCVTKW 49 (81)
Q Consensus 21 ~C~iC~~~~~--~p~~l~C~h~fc~~Cl~~~ 49 (81)
.|+||...+- ....+.=| ..|.+|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4888887643 23455666 5899999775
No 191
>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=47.81 E-value=14 Score=21.51 Aligned_cols=26 Identities=31% Similarity=0.764 Sum_probs=18.7
Q ss_pred CCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 38 CHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 38 ~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
.+.||.+|-.+-. ..||.|..++.-.
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 3569999987644 3699998887643
No 192
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=47.81 E-value=13 Score=18.20 Aligned_cols=12 Identities=33% Similarity=0.899 Sum_probs=8.6
Q ss_pred CCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATL 63 (81)
Q Consensus 52 ~~~~CP~C~~~~ 63 (81)
....||.|....
T Consensus 14 ~~~~CP~Cgs~~ 25 (61)
T PRK08351 14 TEDRCPVCGSRD 25 (61)
T ss_pred CCCcCCCCcCCc
Confidence 445799997765
No 193
>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=47.72 E-value=6.7 Score=21.42 Aligned_cols=44 Identities=20% Similarity=0.426 Sum_probs=23.8
Q ss_pred CCccccccccCCC---C-Ce-ecCCCCcccHHHHHHHHh-CCCCCCCCCC
Q psy8828 18 VGCICPICHDEFK---T-PV-QLTCCHIFCESCVTKWFD-REQTCPLCRA 61 (81)
Q Consensus 18 ~~~~C~iC~~~~~---~-p~-~l~C~h~fc~~Cl~~~~~-~~~~CP~C~~ 61 (81)
....|.+|...|. + +. -..|.|.+|..|-..-.. ....|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 3458999987542 2 22 237999999888654111 1235666643
No 194
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.76 E-value=20 Score=27.17 Aligned_cols=47 Identities=21% Similarity=0.279 Sum_probs=30.7
Q ss_pred CCccccccccCCCCCeecCCCC-----cccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFKTPVQLTCCH-----IFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l~C~h-----~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
....|+-|........--.||. .||.+|- .......||.|...+...
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPY 676 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCcc
Confidence 3458998888754332224874 4899993 333446799998887653
No 195
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=45.32 E-value=7.1 Score=19.22 Aligned_cols=11 Identities=36% Similarity=1.081 Sum_probs=8.1
Q ss_pred CCCCCCCCCCC
Q psy8828 52 REQTCPLCRAT 62 (81)
Q Consensus 52 ~~~~CP~C~~~ 62 (81)
....||.|...
T Consensus 17 d~e~CP~Cgs~ 27 (64)
T COG2093 17 DTEICPVCGST 27 (64)
T ss_pred CCccCCCCCCc
Confidence 34569999877
No 196
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=45.27 E-value=9.8 Score=25.40 Aligned_cols=30 Identities=20% Similarity=0.620 Sum_probs=23.2
Q ss_pred CCccccccc-cCCCCCeecCCCCcccHHHHH
Q psy8828 18 VGCICPICH-DEFKTPVQLTCCHIFCESCVT 47 (81)
Q Consensus 18 ~~~~C~iC~-~~~~~p~~l~C~h~fc~~Cl~ 47 (81)
..+.|.-|. .....-..+|||..||+.|+.
T Consensus 38 gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 38 GKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred CcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 346888888 445556678999999999995
No 197
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=44.64 E-value=13 Score=18.24 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=8.9
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
..||.|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 57999999864
No 198
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=44.07 E-value=21 Score=22.93 Aligned_cols=46 Identities=20% Similarity=0.497 Sum_probs=31.3
Q ss_pred CCCccccccccCCCCCeec----CCCC--cccHHHHHHHHhCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQL----TCCH--IFCESCVTKWFDREQTCPLCRAT 62 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l----~C~h--~fc~~Cl~~~~~~~~~CP~C~~~ 62 (81)
+..-.||+|.......++. .-|- .-|.-|...|...+..|-.|...
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~t 234 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQS 234 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhcccccc
Confidence 4455899999987655433 1232 34889999998877777777543
No 199
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=43.92 E-value=19 Score=16.15 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=11.5
Q ss_pred ccccccCCCCCeecCCCCcccH
Q psy8828 22 CPICHDEFKTPVQLTCCHIFCE 43 (81)
Q Consensus 22 C~iC~~~~~~p~~l~C~h~fc~ 43 (81)
|..|...-..-+-+.|++.+|.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCcCCeEEecCCCCcccC
Confidence 4555543322234567777773
No 200
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=43.35 E-value=22 Score=19.38 Aligned_cols=12 Identities=25% Similarity=0.711 Sum_probs=6.8
Q ss_pred CCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVD 65 (81)
Q Consensus 54 ~~CP~C~~~~~~ 65 (81)
..||.|...+..
T Consensus 27 ivCP~CG~~~~~ 38 (108)
T PF09538_consen 27 IVCPKCGTEFPP 38 (108)
T ss_pred ccCCCCCCccCc
Confidence 346666665543
No 201
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=43.24 E-value=17 Score=17.62 Aligned_cols=12 Identities=42% Similarity=1.248 Sum_probs=9.6
Q ss_pred CCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVD 65 (81)
Q Consensus 54 ~~CP~C~~~~~~ 65 (81)
..||+|+.+...
T Consensus 40 p~CPlC~s~M~~ 51 (59)
T PF14169_consen 40 PVCPLCKSPMVS 51 (59)
T ss_pred ccCCCcCCcccc
Confidence 689999887654
No 202
>KOG3476|consensus
Probab=42.88 E-value=3.4 Score=21.67 Aligned_cols=40 Identities=23% Similarity=0.751 Sum_probs=26.9
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCcc
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPA 68 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~ 68 (81)
..|-||.....+| |..||..|... ...|-.|.+.+.....
T Consensus 55 ~kC~iCk~~vHQ~-----GshYC~tCAY~----KgiCAMCGKki~nTK~ 94 (100)
T KOG3476|consen 55 AKCRICKQLVHQP-----GSHYCQTCAYK----KGICAMCGKKILNTKN 94 (100)
T ss_pred chhHHHHHHhcCC-----cchhHhHhhhh----hhHHHHhhhHhhcccc
Confidence 4677887776665 44588888764 3568888777655433
No 203
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=41.82 E-value=3.8 Score=16.63 Aligned_cols=9 Identities=33% Similarity=1.077 Sum_probs=2.7
Q ss_pred ccccccCCC
Q psy8828 22 CPICHDEFK 30 (81)
Q Consensus 22 C~iC~~~~~ 30 (81)
|+.|...+.
T Consensus 4 C~rC~~~~~ 12 (30)
T PF06827_consen 4 CPRCWNYIE 12 (30)
T ss_dssp -TTT--BBE
T ss_pred CccCCCcce
Confidence 455555433
No 204
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=41.78 E-value=19 Score=16.22 Aligned_cols=13 Identities=23% Similarity=0.848 Sum_probs=9.2
Q ss_pred CCCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATLV 64 (81)
Q Consensus 52 ~~~~CP~C~~~~~ 64 (81)
....||+|..++.
T Consensus 7 p~K~C~~C~rpf~ 19 (42)
T PF10013_consen 7 PSKICPVCGRPFT 19 (42)
T ss_pred CCCcCcccCCcch
Confidence 3467888877764
No 205
>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=41.65 E-value=1.4 Score=20.87 Aligned_cols=30 Identities=30% Similarity=0.737 Sum_probs=16.2
Q ss_pred ccccc--cccCCCC-----C--eecC-CCCcccHHHHHHH
Q psy8828 20 CICPI--CHDEFKT-----P--VQLT-CCHIFCESCVTKW 49 (81)
Q Consensus 20 ~~C~i--C~~~~~~-----p--~~l~-C~h~fc~~Cl~~~ 49 (81)
.-||- |...+.. . ++-+ |++.||..|...|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36766 7776542 1 2334 9999998887655
No 206
>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=41.01 E-value=17 Score=26.17 Aligned_cols=47 Identities=26% Similarity=0.611 Sum_probs=33.7
Q ss_pred CCCccccccccCCCCCee----------cCCCCcc--------------------cHHHHHHHHhC--------CCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQ----------LTCCHIF--------------------CESCVTKWFDR--------EQTCPL 58 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~----------l~C~h~f--------------------c~~Cl~~~~~~--------~~~CP~ 58 (81)
.+.-.|.-|+..+.+|.- +.||..| |.+|..++... ...||.
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 355689999998887631 2466655 99999988552 248999
Q ss_pred CCCCC
Q psy8828 59 CRATL 63 (81)
Q Consensus 59 C~~~~ 63 (81)
|.-.+
T Consensus 146 Cgp~l 150 (711)
T TIGR00143 146 CGPQL 150 (711)
T ss_pred CCcEE
Confidence 97765
No 207
>KOG4642|consensus
Probab=40.96 E-value=16 Score=23.14 Aligned_cols=63 Identities=13% Similarity=0.053 Sum_probs=47.4
Q ss_pred CCCccccccccCCCCCeecCCCCcccHHHHHHHHhCC-CCCCCCCCCCCCCccccCcccchhhh
Q psy8828 17 GVGCICPICHDEFKTPVQLTCCHIFCESCVTKWFDRE-QTCPLCRATLVDDPAWRDGATSYFVQ 79 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~-~~CP~C~~~~~~~~~~~~~~~~~~~~ 79 (81)
.+.+.+.|-++++.+|++.|-|-+|=+.=|.+.+++- ..=|+-+.++......+|-.+...+.
T Consensus 209 pd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q~ipN~alkevIa 272 (284)
T KOG4642|consen 209 PDYLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLTEYQLIPNLALKEVIA 272 (284)
T ss_pred cchhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCCHHhhccchHHHHHHH
Confidence 3456678999999999999999999999999888743 33477788887766666665544443
No 208
>KOG2066|consensus
Probab=40.93 E-value=9.7 Score=27.76 Aligned_cols=40 Identities=20% Similarity=0.446 Sum_probs=26.9
Q ss_pred CccccccccCCCC-------CeecCCCCcccHHHHHHHHhCCCCCCCC
Q psy8828 19 GCICPICHDEFKT-------PVQLTCCHIFCESCVTKWFDREQTCPLC 59 (81)
Q Consensus 19 ~~~C~iC~~~~~~-------p~~l~C~h~fc~~Cl~~~~~~~~~CP~C 59 (81)
..+|..|.+.... -+...|||.|+..|+.....++. |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 3478888886542 23458999999999976555444 4333
No 209
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=40.02 E-value=9.5 Score=25.58 Aligned_cols=47 Identities=26% Similarity=0.644 Sum_probs=0.0
Q ss_pred CccccccccCCC--------------C---Ce--ecCCCCcccHHHHHHHHhC---------CCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFK--------------T---PV--QLTCCHIFCESCVTKWFDR---------EQTCPLCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~~~--------------~---p~--~l~C~h~fc~~Cl~~~~~~---------~~~CP~C~~~~~~ 65 (81)
...||+|+..-. + |. ..||||.--.+...-|.+- +..||+|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999997411 1 11 2389998777777777651 2489999888753
No 210
>KOG2071|consensus
Probab=39.99 E-value=18 Score=25.50 Aligned_cols=34 Identities=29% Similarity=0.645 Sum_probs=25.0
Q ss_pred CCCccccccccCCCC-------------CeecCCCCcccHHHHHHHH
Q psy8828 17 GVGCICPICHDEFKT-------------PVQLTCCHIFCESCVTKWF 50 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~-------------p~~l~C~h~fc~~Cl~~~~ 50 (81)
+....|+||.+.|.. .+.+.=|..||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 456789999998763 3444558899999997543
No 211
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=39.70 E-value=26 Score=26.09 Aligned_cols=30 Identities=30% Similarity=0.625 Sum_probs=22.2
Q ss_pred ccccccccCCCC-Ce--------ecCCCCcccHHHHHHH
Q psy8828 20 CICPICHDEFKT-PV--------QLTCCHIFCESCVTKW 49 (81)
Q Consensus 20 ~~C~iC~~~~~~-p~--------~l~C~h~fc~~Cl~~~ 49 (81)
..|..|...|.. .+ --.||..||..|-...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnR 499 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKR 499 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCc
Confidence 469999999853 11 1269999999998654
No 212
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=39.38 E-value=34 Score=18.41 Aligned_cols=14 Identities=21% Similarity=0.714 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLVDD 66 (81)
Q Consensus 53 ~~~CP~C~~~~~~~ 66 (81)
...||.|+.+++..
T Consensus 80 ~~~Cp~C~spFNp~ 93 (105)
T COG4357 80 CGSCPYCQSPFNPG 93 (105)
T ss_pred cCCCCCcCCCCCcc
Confidence 45799999998763
No 213
>KOG3362|consensus
Probab=38.96 E-value=17 Score=21.01 Aligned_cols=29 Identities=17% Similarity=0.574 Sum_probs=18.2
Q ss_pred CCccccccccCCCCCeecCCCCcccH-HHHH
Q psy8828 18 VGCICPICHDEFKTPVQLTCCHIFCE-SCVT 47 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l~C~h~fc~-~Cl~ 47 (81)
..-.|+||. ....-.-+.||..||. .|+.
T Consensus 117 ~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 117 LRKFCAVCG-YDSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred cchhhhhcC-CCchhHHHhcCCceeechhhh
Confidence 345899998 3333334589988873 4543
No 214
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=38.95 E-value=18 Score=15.29 Aligned_cols=9 Identities=44% Similarity=1.357 Sum_probs=6.8
Q ss_pred CCCCCCCCC
Q psy8828 54 QTCPLCRAT 62 (81)
Q Consensus 54 ~~CP~C~~~ 62 (81)
..||+|.++
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 579999764
No 215
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=38.85 E-value=37 Score=21.71 Aligned_cols=38 Identities=29% Similarity=0.531 Sum_probs=24.8
Q ss_pred CCCccccccccCCCCCee----c----CCCCcccHHHHHHHHh-CCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQ----L----TCCHIFCESCVTKWFD-REQTCP 57 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~----l----~C~h~fc~~Cl~~~~~-~~~~CP 57 (81)
+....|+||++.-.+.+- + --|| ++|.++|-. .+..||
T Consensus 28 ~tLsfChiCfEl~iegvpks~llHtkSlRGH---rdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 28 ETLSFCHICFELSIEGVPKSNLLHTKSLRGH---RDCFEKYHLIANQDCP 74 (285)
T ss_pred cceeecceeeccccccCccccccccccccch---HHHHHHHHHHHcCCCC
Confidence 345589999998665331 1 1444 899998865 456677
No 216
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=38.61 E-value=10 Score=13.60 Aligned_cols=8 Identities=38% Similarity=1.476 Sum_probs=2.8
Q ss_pred CCCCCCCC
Q psy8828 56 CPLCRATL 63 (81)
Q Consensus 56 CP~C~~~~ 63 (81)
|+.|...+
T Consensus 3 C~~C~~~~ 10 (24)
T PF13894_consen 3 CPICGKSF 10 (24)
T ss_dssp -SSTS-EE
T ss_pred CcCCCCcC
Confidence 45554443
No 217
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=38.42 E-value=27 Score=17.00 Aligned_cols=15 Identities=20% Similarity=0.620 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATLVDD 66 (81)
Q Consensus 52 ~~~~CP~C~~~~~~~ 66 (81)
.+..|++|.+.++..
T Consensus 7 PH~HC~VCg~aIp~d 21 (64)
T COG4068 7 PHRHCVVCGKAIPPD 21 (64)
T ss_pred CCccccccCCcCCCc
Confidence 456799999988765
No 218
>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=37.24 E-value=30 Score=21.46 Aligned_cols=21 Identities=38% Similarity=1.054 Sum_probs=13.8
Q ss_pred cccccccCCCCCeecCCCCcccHHHHHHH
Q psy8828 21 ICPICHDEFKTPVQLTCCHIFCESCVTKW 49 (81)
Q Consensus 21 ~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~ 49 (81)
.|+||. ..-.+.+|..|+..-
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~ 21 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNR 21 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHH
Confidence 488887 234456788888654
No 219
>KOG3842|consensus
Probab=36.52 E-value=30 Score=22.81 Aligned_cols=49 Identities=27% Similarity=0.609 Sum_probs=31.7
Q ss_pred CCccccccccCCC--------C---------C--eecCCCCcccHHHHHHHHh---------CCCCCCCCCCCCCCC
Q psy8828 18 VGCICPICHDEFK--------T---------P--VQLTCCHIFCESCVTKWFD---------REQTCPLCRATLVDD 66 (81)
Q Consensus 18 ~~~~C~iC~~~~~--------~---------p--~~l~C~h~fc~~Cl~~~~~---------~~~~CP~C~~~~~~~ 66 (81)
...+||+|+..-. + | ...||||.--.+=..-|.+ .+..||+|...+...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3568999987521 0 1 1238999766666666655 135899998877543
No 220
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=36.30 E-value=15 Score=22.32 Aligned_cols=14 Identities=29% Similarity=0.797 Sum_probs=8.5
Q ss_pred CCCCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLVDD 66 (81)
Q Consensus 53 ~~~CP~C~~~~~~~ 66 (81)
...||+|.+.+...
T Consensus 5 ~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 5 KITCPVCGKEFKTK 18 (214)
T ss_pred ceECCCCCCeeeee
Confidence 34677777666543
No 221
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=35.89 E-value=22 Score=16.35 Aligned_cols=14 Identities=29% Similarity=0.705 Sum_probs=7.5
Q ss_pred ccCCCCcccccccc
Q psy8828 14 TLLGVGCICPICHD 27 (81)
Q Consensus 14 ~~~~~~~~C~iC~~ 27 (81)
+.+.+...||+|..
T Consensus 29 ~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 29 EDLPDDWVCPVCGA 42 (47)
T ss_dssp GGS-TT-B-TTTSS
T ss_pred HHCCCCCcCcCCCC
Confidence 34566778888864
No 222
>KOG0883|consensus
Probab=35.35 E-value=48 Score=22.58 Aligned_cols=51 Identities=18% Similarity=0.290 Sum_probs=39.9
Q ss_pred CccccccccCCCCCeecCCCCcccHHHHHHHHhCCCCCCCCCCCCCCCccc
Q psy8828 19 GCICPICHDEFKTPVQLTCCHIFCESCVTKWFDREQTCPLCRATLVDDPAW 69 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~~~~ 69 (81)
..-|.+-+-.|..|+.+.=|.+|=..-|.+|++...+=|.-.+++...++.
T Consensus 40 ~~hC~lt~~Pfe~PvC~~dg~vFd~~~Ivp~lkk~g~nP~tG~kl~~~dLI 90 (518)
T KOG0883|consen 40 FNHCSLTMLPFEDPVCTVDGTVFDLTAIVPWLKKHGTNPITGQKLDGKDLI 90 (518)
T ss_pred hhhceeccccccCcccccCCcEEeeehhhHHHHHcCCCCCCCCccccccce
Confidence 347888888999999998899999999999999766656666666544443
No 223
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=35.31 E-value=10 Score=13.86 Aligned_cols=8 Identities=38% Similarity=1.476 Sum_probs=3.6
Q ss_pred CCCCCCCC
Q psy8828 56 CPLCRATL 63 (81)
Q Consensus 56 CP~C~~~~ 63 (81)
|+.|.+.+
T Consensus 3 C~~C~~~f 10 (23)
T PF00096_consen 3 CPICGKSF 10 (23)
T ss_dssp ETTTTEEE
T ss_pred CCCCCCcc
Confidence 44444443
No 224
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=34.22 E-value=34 Score=15.20 Aligned_cols=17 Identities=29% Similarity=0.833 Sum_probs=11.5
Q ss_pred HHhCCCCCCCCCCCCCC
Q psy8828 49 WFDREQTCPLCRATLVD 65 (81)
Q Consensus 49 ~~~~~~~CP~C~~~~~~ 65 (81)
|---+..||.|..++..
T Consensus 13 ~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 13 WTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HhHhcCccCCCCCeeEE
Confidence 33345789999777654
No 225
>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=33.73 E-value=13 Score=17.67 Aligned_cols=13 Identities=38% Similarity=1.007 Sum_probs=6.8
Q ss_pred CCCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVDD 66 (81)
Q Consensus 54 ~~CP~C~~~~~~~ 66 (81)
.+||.|...+...
T Consensus 25 atCP~C~a~~~~s 37 (54)
T PF09237_consen 25 ATCPICGAVIRQS 37 (54)
T ss_dssp EE-TTT--EESSH
T ss_pred CCCCcchhhccch
Confidence 4799998776553
No 226
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=33.69 E-value=35 Score=16.40 Aligned_cols=26 Identities=35% Similarity=0.885 Sum_probs=18.3
Q ss_pred ecCCCCcccHHHHHHHHhC-CCCCCCCCCCCCC
Q psy8828 34 QLTCCHIFCESCVTKWFDR-EQTCPLCRATLVD 65 (81)
Q Consensus 34 ~l~C~h~fc~~Cl~~~~~~-~~~CP~C~~~~~~ 65 (81)
-+.||-.+|.. .. ...||.|..++..
T Consensus 21 Cl~CGkIiC~~------Eg~~~pC~fCg~~l~~ 47 (57)
T PF06221_consen 21 CLNCGKIICEQ------EGPLGPCPFCGTPLLS 47 (57)
T ss_pred ccccChhhccc------ccCcCcCCCCCCcccC
Confidence 45788887752 33 5789999877654
No 227
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=33.68 E-value=22 Score=19.53 Aligned_cols=12 Identities=42% Similarity=1.068 Sum_probs=9.0
Q ss_pred eecCCCCcccHH
Q psy8828 33 VQLTCCHIFCES 44 (81)
Q Consensus 33 ~~l~C~h~fc~~ 44 (81)
+...|||.||..
T Consensus 25 vkc~CGh~f~d~ 36 (112)
T PF08882_consen 25 VKCDCGHEFCDA 36 (112)
T ss_pred eeccCCCeecCh
Confidence 344799999964
No 228
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.66 E-value=25 Score=17.41 Aligned_cols=13 Identities=31% Similarity=0.680 Sum_probs=9.7
Q ss_pred CCCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLVD 65 (81)
Q Consensus 53 ~~~CP~C~~~~~~ 65 (81)
...||.|++++.-
T Consensus 7 ~v~CP~Cgkpv~w 19 (65)
T COG3024 7 TVPCPTCGKPVVW 19 (65)
T ss_pred cccCCCCCCcccc
Confidence 3579999988753
No 229
>KOG0956|consensus
Probab=33.49 E-value=39 Score=24.72 Aligned_cols=30 Identities=27% Similarity=0.550 Sum_probs=21.5
Q ss_pred eecCCCCcccHHHHHHHHhCCCCCCCCCCC
Q psy8828 33 VQLTCCHIFCESCVTKWFDREQTCPLCRAT 62 (81)
Q Consensus 33 ~~l~C~h~fc~~Cl~~~~~~~~~CP~C~~~ 62 (81)
+.+|-|..||++|-..-......|-+|-..
T Consensus 42 vqVPtGpWfCrKCesqeraarvrCeLCP~k 71 (900)
T KOG0956|consen 42 VQVPTGPWFCRKCESQERAARVRCELCPHK 71 (900)
T ss_pred EecCCCchhhhhhhhhhhhccceeecccCc
Confidence 456899999999987554455677777443
No 230
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=33.29 E-value=40 Score=14.37 Aligned_cols=29 Identities=21% Similarity=0.418 Sum_probs=16.2
Q ss_pred ccccccccCCCCCeecCCCCcccHHHHHH
Q psy8828 20 CICPICHDEFKTPVQLTCCHIFCESCVTK 48 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~l~C~h~fc~~Cl~~ 48 (81)
..|..+.+....-.-..|+-.+|..|...
T Consensus 4 ~~C~~H~~~~~~~~C~~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCNEPLCSECTVS 32 (42)
T ss_dssp SB-SSTTTSBEEEEETTTTEEEEHHHHHT
T ss_pred ccCccCCccceEEEecCCCCccCccCCCC
Confidence 35655554322112237888899999853
No 231
>KOG3005|consensus
Probab=33.29 E-value=34 Score=21.84 Aligned_cols=44 Identities=23% Similarity=0.488 Sum_probs=30.5
Q ss_pred ccccccccCCCC--Ceec-----CCCCcccHHHHHHHHh---------CCCCCCCCCCCC
Q psy8828 20 CICPICHDEFKT--PVQL-----TCCHIFCESCVTKWFD---------REQTCPLCRATL 63 (81)
Q Consensus 20 ~~C~iC~~~~~~--p~~l-----~C~h~fc~~Cl~~~~~---------~~~~CP~C~~~~ 63 (81)
..|.+|.+.+.+ ...+ .|+-.++..|+-..+. ....||.|++.+
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 489999988843 2233 4777888999987433 125899998754
No 232
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=33.02 E-value=14 Score=17.76 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=5.4
Q ss_pred CCCCCCCCCCC
Q psy8828 55 TCPLCRATLVD 65 (81)
Q Consensus 55 ~CP~C~~~~~~ 65 (81)
.||.|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 59999887654
No 233
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=32.97 E-value=23 Score=16.45 Aligned_cols=14 Identities=29% Similarity=0.688 Sum_probs=9.9
Q ss_pred cCCCCccccccccC
Q psy8828 15 LLGVGCICPICHDE 28 (81)
Q Consensus 15 ~~~~~~~C~iC~~~ 28 (81)
.+.+...||+|...
T Consensus 30 ~Lp~~w~CP~C~a~ 43 (50)
T cd00730 30 DLPDDWVCPVCGAG 43 (50)
T ss_pred HCCCCCCCCCCCCc
Confidence 45667889998653
No 234
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=32.77 E-value=39 Score=22.26 Aligned_cols=42 Identities=24% Similarity=0.580 Sum_probs=25.4
Q ss_pred ccccccccCCCCCee------c--------CCCCcccHHHHHHHHhCCCCCCCCCC
Q psy8828 20 CICPICHDEFKTPVQ------L--------TCCHIFCESCVTKWFDREQTCPLCRA 61 (81)
Q Consensus 20 ~~C~iC~~~~~~p~~------l--------~C~h~fc~~Cl~~~~~~~~~CP~C~~ 61 (81)
..|-+|+..|..|.. + .|..+||.+|=.-.-..-..|+-|..
T Consensus 363 ~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 363 THCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred ccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 358888887665421 1 37788888885433233356777743
No 235
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=32.21 E-value=40 Score=19.46 Aligned_cols=17 Identities=35% Similarity=0.518 Sum_probs=13.0
Q ss_pred HhCCCCCCCCCCCCCCC
Q psy8828 50 FDREQTCPLCRATLVDD 66 (81)
Q Consensus 50 ~~~~~~CP~C~~~~~~~ 66 (81)
+...+.||.|+..+...
T Consensus 125 ~~~~F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 125 MELNFTCPRCGAMLDYL 141 (158)
T ss_pred HHcCCcCCCCCCEeeec
Confidence 34578999999987653
No 236
>KOG1356|consensus
Probab=32.13 E-value=34 Score=25.35 Aligned_cols=33 Identities=21% Similarity=0.590 Sum_probs=25.6
Q ss_pred CCccccccccCCCCCe--ecCCCCcccHHHHHHHH
Q psy8828 18 VGCICPICHDEFKTPV--QLTCCHIFCESCVTKWF 50 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~--~l~C~h~fc~~Cl~~~~ 50 (81)
....|..|...+.+-. --.|++.+|..|+..|.
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 3457889998877632 22799999999999984
No 237
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=32.07 E-value=19 Score=22.50 Aligned_cols=11 Identities=18% Similarity=0.730 Sum_probs=6.6
Q ss_pred CCCCCCCCCCC
Q psy8828 53 EQTCPLCRATL 63 (81)
Q Consensus 53 ~~~CP~C~~~~ 63 (81)
...|+.|...+
T Consensus 274 ~~~C~~C~skF 284 (296)
T COG5242 274 VPVCKKCKSKF 284 (296)
T ss_pred cCcCccccccc
Confidence 35567776655
No 238
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=31.75 E-value=45 Score=13.31 Aligned_cols=25 Identities=20% Similarity=0.395 Sum_probs=5.7
Q ss_pred cccccccCCCCCee---cCCCCcccHHH
Q psy8828 21 ICPICHDEFKTPVQ---LTCCHIFCESC 45 (81)
Q Consensus 21 ~C~iC~~~~~~p~~---l~C~h~fc~~C 45 (81)
.|.+|......... ..|.-.++.+|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhc
Confidence 45566665554111 14554455554
No 239
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=31.38 E-value=24 Score=13.68 Aligned_cols=8 Identities=38% Similarity=1.410 Sum_probs=3.6
Q ss_pred CCCCCCCC
Q psy8828 56 CPLCRATL 63 (81)
Q Consensus 56 CP~C~~~~ 63 (81)
||.|...+
T Consensus 5 C~~CgR~F 12 (25)
T PF13913_consen 5 CPICGRKF 12 (25)
T ss_pred CCCCCCEE
Confidence 44444443
No 240
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=31.20 E-value=29 Score=16.60 Aligned_cols=9 Identities=33% Similarity=1.095 Sum_probs=5.1
Q ss_pred CCCCCCCCC
Q psy8828 55 TCPLCRATL 63 (81)
Q Consensus 55 ~CP~C~~~~ 63 (81)
.||.|+...
T Consensus 6 ~CP~CgnKT 14 (55)
T PF14205_consen 6 LCPICGNKT 14 (55)
T ss_pred ECCCCCCcc
Confidence 377775443
No 241
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=31.10 E-value=26 Score=15.23 Aligned_cols=11 Identities=36% Similarity=0.890 Sum_probs=7.7
Q ss_pred CCCCCCCCCCC
Q psy8828 55 TCPLCRATLVD 65 (81)
Q Consensus 55 ~CP~C~~~~~~ 65 (81)
.||.|+..+..
T Consensus 1 ~CP~C~~~l~~ 11 (41)
T PF13453_consen 1 KCPRCGTELEP 11 (41)
T ss_pred CcCCCCcccce
Confidence 48888776544
No 242
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.85 E-value=14 Score=26.31 Aligned_cols=10 Identities=40% Similarity=0.903 Sum_probs=4.8
Q ss_pred CCCCCCCCCC
Q psy8828 54 QTCPLCRATL 63 (81)
Q Consensus 54 ~~CP~C~~~~ 63 (81)
..||.|...+
T Consensus 42 ~fC~~CG~~~ 51 (645)
T PRK14559 42 AHCPNCGAET 51 (645)
T ss_pred ccccccCCcc
Confidence 3455554443
No 243
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.64 E-value=18 Score=16.86 Aligned_cols=11 Identities=27% Similarity=1.068 Sum_probs=7.4
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
+.||+|+.++.
T Consensus 13 KICpvCqRPFs 23 (54)
T COG4338 13 KICPVCQRPFS 23 (54)
T ss_pred hhhhhhcCchH
Confidence 46788877663
No 244
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=30.03 E-value=33 Score=18.87 Aligned_cols=11 Identities=36% Similarity=1.274 Sum_probs=9.4
Q ss_pred ccHHHHHHHHh
Q psy8828 41 FCESCVTKWFD 51 (81)
Q Consensus 41 fc~~Cl~~~~~ 51 (81)
-|+.||.+|-.
T Consensus 76 CCRgCL~KWH~ 86 (111)
T PF13811_consen 76 CCRGCLEKWHG 86 (111)
T ss_pred chHHHHHHHhC
Confidence 48999999965
No 245
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=29.62 E-value=66 Score=15.39 Aligned_cols=14 Identities=21% Similarity=0.781 Sum_probs=9.7
Q ss_pred CCCCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLVDD 66 (81)
Q Consensus 53 ~~~CP~C~~~~~~~ 66 (81)
...||.|..++...
T Consensus 17 k~~CP~CG~~t~~~ 30 (56)
T PRK13130 17 KEICPVCGGKTKNP 30 (56)
T ss_pred cccCcCCCCCCCCC
Confidence 35688888876543
No 246
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=29.41 E-value=56 Score=19.87 Aligned_cols=13 Identities=31% Similarity=1.073 Sum_probs=11.2
Q ss_pred CcccHHHHHHHHh
Q psy8828 39 HIFCESCVTKWFD 51 (81)
Q Consensus 39 h~fc~~Cl~~~~~ 51 (81)
|.||...+..|+.
T Consensus 165 HHyCs~HV~~WL~ 177 (199)
T PF12132_consen 165 HHYCSQHVNSWLN 177 (199)
T ss_pred ChhhHHHHHHHHH
Confidence 6889999999986
No 247
>PRK11827 hypothetical protein; Provisional
Probab=28.60 E-value=32 Score=16.72 Aligned_cols=14 Identities=29% Similarity=0.674 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATLVD 65 (81)
Q Consensus 52 ~~~~CP~C~~~~~~ 65 (81)
.--.||.|+.++..
T Consensus 7 eILaCP~ckg~L~~ 20 (60)
T PRK11827 7 EIIACPVCNGKLWY 20 (60)
T ss_pred hheECCCCCCcCeE
Confidence 34569999988754
No 248
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=28.35 E-value=91 Score=16.40 Aligned_cols=29 Identities=24% Similarity=0.582 Sum_probs=21.1
Q ss_pred CCccccccccCCCCCeec-----CCCCcccHHHHHH
Q psy8828 18 VGCICPICHDEFKTPVQL-----TCCHIFCESCVTK 48 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~l-----~C~h~fc~~Cl~~ 48 (81)
....|.+|... ....+ .|...||-.|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 46799999997 33333 4777899999854
No 249
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.34 E-value=16 Score=20.01 Aligned_cols=9 Identities=22% Similarity=0.711 Sum_probs=6.8
Q ss_pred CCCCCCCCC
Q psy8828 55 TCPLCRATL 63 (81)
Q Consensus 55 ~CP~C~~~~ 63 (81)
.||.|....
T Consensus 90 ~CP~Cgs~~ 98 (117)
T PRK00564 90 VCEKCHSKN 98 (117)
T ss_pred cCcCCCCCc
Confidence 499998753
No 250
>KOG3799|consensus
Probab=28.26 E-value=13 Score=21.26 Aligned_cols=13 Identities=38% Similarity=0.956 Sum_probs=10.2
Q ss_pred CCCCccccccccC
Q psy8828 16 LGVGCICPICHDE 28 (81)
Q Consensus 16 ~~~~~~C~iC~~~ 28 (81)
..++..|.||...
T Consensus 62 v~ddatC~IC~KT 74 (169)
T KOG3799|consen 62 VGDDATCGICHKT 74 (169)
T ss_pred cCcCcchhhhhhc
Confidence 4566799999986
No 251
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=27.90 E-value=52 Score=20.55 Aligned_cols=19 Identities=11% Similarity=0.562 Sum_probs=10.7
Q ss_pred HHHHHhCCCCCCCCCCCCC
Q psy8828 46 VTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 46 l~~~~~~~~~CP~C~~~~~ 64 (81)
+..|...+.-||.|..++.
T Consensus 92 l~~w~~~~~fC~~CG~~~~ 110 (256)
T PRK00241 92 LAEFYRSHRFCGYCGHPMH 110 (256)
T ss_pred HHHHhhcCccccccCCCCe
Confidence 3455555566666666543
No 252
>PF06416 DUF1076: Protein of unknown function (DUF1076); InterPro: IPR010489 This entry is represented by Bacteriophage 2851, Orf74 (EP2851_74). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2KKX_A 2KKY_A.
Probab=27.61 E-value=46 Score=18.34 Aligned_cols=52 Identities=15% Similarity=0.280 Sum_probs=29.2
Q ss_pred cCCCCccccccccCCCCCeec--C-C---CCcccHHHHHHHHhCCCCCCCCCCCCCCC
Q psy8828 15 LLGVGCICPICHDEFKTPVQL--T-C---CHIFCESCVTKWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 15 ~~~~~~~C~iC~~~~~~p~~l--~-C---~h~fc~~Cl~~~~~~~~~CP~C~~~~~~~ 66 (81)
-.++.+.|||-++..++.+.+ + . -..|-..-+.+....+..=|+-|.++...
T Consensus 36 C~ee~L~CPITL~iPe~GVFvkNs~~S~VC~LyD~~Al~~Lv~~~~~HPLSREpit~s 93 (113)
T PF06416_consen 36 CPEEHLTCPITLCIPENGVFVKNSSGSDVCSLYDKEALSRLVREGAPHPLSREPITPS 93 (113)
T ss_dssp S-CHHH-BTTTTC--SCEEEEECTTTSSEEEEEEHHHHHHHHHCT---TTT-----TT
T ss_pred CCHHHcCCCeEEeecCCceEEecCCCCccceecCHHHHHHHHHcCCCCCCccCCCChh
Confidence 345668999999999998876 1 1 13567888888888776668888887654
No 253
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.45 E-value=69 Score=18.94 Aligned_cols=17 Identities=24% Similarity=0.556 Sum_probs=13.3
Q ss_pred HhCCCCCCCCCCCCCCC
Q psy8828 50 FDREQTCPLCRATLVDD 66 (81)
Q Consensus 50 ~~~~~~CP~C~~~~~~~ 66 (81)
+...+.||.|...+...
T Consensus 133 ~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEY 149 (178)
T ss_pred hhcCCcCCCCCCCCeec
Confidence 44678999999988654
No 254
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=27.37 E-value=37 Score=16.55 Aligned_cols=12 Identities=50% Similarity=1.173 Sum_probs=8.7
Q ss_pred CCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLV 64 (81)
Q Consensus 53 ~~~CP~C~~~~~ 64 (81)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 357999987763
No 255
>KOG3475|consensus
Probab=27.05 E-value=35 Score=17.85 Aligned_cols=28 Identities=21% Similarity=0.617 Sum_probs=20.2
Q ss_pred CCCcccHHHHHHHHh-CCCCCCCCCCCCC
Q psy8828 37 CCHIFCESCVTKWFD-REQTCPLCRATLV 64 (81)
Q Consensus 37 C~h~fc~~Cl~~~~~-~~~~CP~C~~~~~ 64 (81)
=.|+.|..|-.+... +..+|..|.-+..
T Consensus 14 kshtlC~RCG~~syH~QKstC~~CGYpaa 42 (92)
T KOG3475|consen 14 KSHTLCRRCGRRSYHIQKSTCSSCGYPAA 42 (92)
T ss_pred cchHHHHHhCchhhhhhcccccccCCcch
Confidence 357888888876554 5678988877654
No 256
>PRK00420 hypothetical protein; Validated
Probab=26.96 E-value=64 Score=17.76 Aligned_cols=11 Identities=18% Similarity=0.600 Sum_probs=6.7
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
..||.|...+.
T Consensus 41 ~~Cp~Cg~~~~ 51 (112)
T PRK00420 41 VVCPVHGKVYI 51 (112)
T ss_pred eECCCCCCeee
Confidence 46777766543
No 257
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=26.85 E-value=32 Score=16.29 Aligned_cols=11 Identities=36% Similarity=0.791 Sum_probs=7.3
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
..||.|.+.+.
T Consensus 3 ~~CP~CG~~ie 13 (54)
T TIGR01206 3 FECPDCGAEIE 13 (54)
T ss_pred cCCCCCCCEEe
Confidence 46777777654
No 258
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=26.20 E-value=21 Score=19.70 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=14.0
Q ss_pred HHhCCCCCCCCCCCCCCCcc
Q psy8828 49 WFDREQTCPLCRATLVDDPA 68 (81)
Q Consensus 49 ~~~~~~~CP~C~~~~~~~~~ 68 (81)
.+.+...|+.|++++.-++.
T Consensus 81 mLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred hhchhhccCcCCCcCccCch
Confidence 34455689999999875543
No 259
>KOG1818|consensus
Probab=25.90 E-value=26 Score=25.00 Aligned_cols=38 Identities=21% Similarity=0.377 Sum_probs=26.8
Q ss_pred ccCCCCccccccccCCCC----CeecCCCCcccHHHHHHHHh
Q psy8828 14 TLLGVGCICPICHDEFKT----PVQLTCCHIFCESCVTKWFD 51 (81)
Q Consensus 14 ~~~~~~~~C~iC~~~~~~----p~~l~C~h~fc~~Cl~~~~~ 51 (81)
..+.+...|-.|...|.. -....||-.||..|....+.
T Consensus 160 pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~ 201 (634)
T KOG1818|consen 160 PDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLT 201 (634)
T ss_pred cccccccccceeeeeeeeccccccccccchhhccCccccccC
Confidence 344556789888887753 22347999999999876554
No 260
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=25.67 E-value=47 Score=14.23 Aligned_cols=9 Identities=33% Similarity=1.021 Sum_probs=5.7
Q ss_pred ccccccccC
Q psy8828 20 CICPICHDE 28 (81)
Q Consensus 20 ~~C~iC~~~ 28 (81)
..|++|...
T Consensus 9 ~~C~~C~~~ 17 (36)
T PF11781_consen 9 EPCPVCGSR 17 (36)
T ss_pred CcCCCCCCe
Confidence 347777665
No 261
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=25.42 E-value=23 Score=19.06 Aligned_cols=29 Identities=14% Similarity=0.298 Sum_probs=14.9
Q ss_pred CCCccccccccCCCCCeec--CCCCcccHHH
Q psy8828 17 GVGCICPICHDEFKTPVQL--TCCHIFCESC 45 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l--~C~h~fc~~C 45 (81)
.+.|.|.-|+-+-...... .=|+.+|.+|
T Consensus 68 ~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 68 ADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCceeeeeeeeEechhhhccccCCCEecccc
Confidence 4556777776654432211 2255566555
No 262
>KOG3816|consensus
Probab=25.37 E-value=46 Score=22.62 Aligned_cols=29 Identities=17% Similarity=0.350 Sum_probs=22.0
Q ss_pred cccccCCCCCeecCCCCcccHHHHHHHHh
Q psy8828 23 PICHDEFKTPVQLTCCHIFCESCVTKWFD 51 (81)
Q Consensus 23 ~iC~~~~~~p~~l~C~h~fc~~Cl~~~~~ 51 (81)
.||..++-+--..+|+..++..|.++|-.
T Consensus 92 ~~C~~VvCNNE~C~~~~~MH~qCF~~WEs 120 (526)
T KOG3816|consen 92 LICSFVVCNNEHCPCSTWMHLQCFYEWES 120 (526)
T ss_pred hhceEEeecCCCCChhhHHHHHHHHHHHH
Confidence 35666655555678999999999999853
No 263
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.19 E-value=13 Score=20.32 Aligned_cols=9 Identities=33% Similarity=1.162 Sum_probs=6.9
Q ss_pred CCCCCCCCC
Q psy8828 54 QTCPLCRAT 62 (81)
Q Consensus 54 ~~CP~C~~~ 62 (81)
..||.|...
T Consensus 88 ~~CP~Cgs~ 96 (114)
T PRK03681 88 RRCPQCHGD 96 (114)
T ss_pred CcCcCcCCC
Confidence 469999765
No 264
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.18 E-value=11 Score=20.63 Aligned_cols=11 Identities=27% Similarity=0.821 Sum_probs=8.0
Q ss_pred CCCCCCCCCCC
Q psy8828 53 EQTCPLCRATL 63 (81)
Q Consensus 53 ~~~CP~C~~~~ 63 (81)
...||.|+...
T Consensus 86 ~~~CP~Cgs~~ 96 (115)
T TIGR00100 86 LYRCPKCHGIM 96 (115)
T ss_pred CccCcCCcCCC
Confidence 35799998653
No 265
>PF12907 zf-met2: Zinc-binding
Probab=24.87 E-value=13 Score=16.60 Aligned_cols=7 Identities=57% Similarity=1.516 Sum_probs=3.6
Q ss_pred ccccccc
Q psy8828 21 ICPICHD 27 (81)
Q Consensus 21 ~C~iC~~ 27 (81)
.|.||+.
T Consensus 3 ~C~iC~q 9 (40)
T PF12907_consen 3 ICKICRQ 9 (40)
T ss_pred CcHHhhH
Confidence 4555553
No 266
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=24.28 E-value=30 Score=14.79 Aligned_cols=12 Identities=33% Similarity=0.789 Sum_probs=8.4
Q ss_pred CCCCCCCCCCCC
Q psy8828 55 TCPLCRATLVDD 66 (81)
Q Consensus 55 ~CP~C~~~~~~~ 66 (81)
.||.|...+...
T Consensus 4 ~CP~C~~~f~v~ 15 (37)
T PF13719_consen 4 TCPNCQTRFRVP 15 (37)
T ss_pred ECCCCCceEEcC
Confidence 588887776543
No 267
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=24.07 E-value=22 Score=13.56 Aligned_cols=10 Identities=30% Similarity=0.767 Sum_probs=4.8
Q ss_pred cccccccCCC
Q psy8828 21 ICPICHDEFK 30 (81)
Q Consensus 21 ~C~iC~~~~~ 30 (81)
.|.+|...|.
T Consensus 3 ~C~~C~~~F~ 12 (27)
T PF13912_consen 3 ECDECGKTFS 12 (27)
T ss_dssp EETTTTEEES
T ss_pred CCCccCCccC
Confidence 4555554443
No 268
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=23.90 E-value=40 Score=15.85 Aligned_cols=10 Identities=30% Similarity=1.019 Sum_probs=7.0
Q ss_pred CCCCCCCCCC
Q psy8828 55 TCPLCRATLV 64 (81)
Q Consensus 55 ~CP~C~~~~~ 64 (81)
.||.|++.+.
T Consensus 2 ~CPyCge~~~ 11 (52)
T PF14255_consen 2 QCPYCGEPIE 11 (52)
T ss_pred CCCCCCCeeE
Confidence 4888877653
No 269
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=23.74 E-value=22 Score=13.22 Aligned_cols=8 Identities=50% Similarity=1.464 Sum_probs=3.5
Q ss_pred ccccccCC
Q psy8828 22 CPICHDEF 29 (81)
Q Consensus 22 C~iC~~~~ 29 (81)
|.+|...+
T Consensus 3 C~~C~~~f 10 (25)
T PF12874_consen 3 CDICNKSF 10 (25)
T ss_dssp ETTTTEEE
T ss_pred CCCCCCCc
Confidence 44444433
No 270
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.35 E-value=13 Score=20.29 Aligned_cols=9 Identities=33% Similarity=1.091 Sum_probs=6.9
Q ss_pred CCCCCCCCC
Q psy8828 54 QTCPLCRAT 62 (81)
Q Consensus 54 ~~CP~C~~~ 62 (81)
..||.|...
T Consensus 87 ~~CP~Cgs~ 95 (113)
T PRK12380 87 AQCPHCHGE 95 (113)
T ss_pred ccCcCCCCC
Confidence 469999764
No 271
>KOG1842|consensus
Probab=23.14 E-value=31 Score=23.72 Aligned_cols=31 Identities=23% Similarity=0.635 Sum_probs=23.3
Q ss_pred CCccccccccCCCCCee----cCCCCcccHHHHHH
Q psy8828 18 VGCICPICHDEFKTPVQ----LTCCHIFCESCVTK 48 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~~----l~C~h~fc~~Cl~~ 48 (81)
+...||+|...|.-... --||.+.|.+|..-
T Consensus 179 ~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~ 213 (505)
T KOG1842|consen 179 SVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKF 213 (505)
T ss_pred cccccccccchhhhHHHhhhhhhcchHHHHHHHHh
Confidence 34689999998875332 25999999999864
No 272
>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=23.04 E-value=1.3e+02 Score=17.44 Aligned_cols=10 Identities=40% Similarity=1.072 Sum_probs=7.8
Q ss_pred CCCCCCCCCC
Q psy8828 54 QTCPLCRATL 63 (81)
Q Consensus 54 ~~CP~C~~~~ 63 (81)
..||+|...-
T Consensus 33 v~CP~Cgs~~ 42 (148)
T PF06676_consen 33 VSCPVCGSTE 42 (148)
T ss_pred ccCCCCCCCe
Confidence 5899997753
No 273
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=22.99 E-value=47 Score=17.28 Aligned_cols=19 Identities=16% Similarity=0.504 Sum_probs=13.6
Q ss_pred HHHhCCCCCCCCCCCCCCC
Q psy8828 48 KWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 48 ~~~~~~~~CP~C~~~~~~~ 66 (81)
.+++....|+.|..++...
T Consensus 3 g~Lk~~~~C~~CG~d~~~~ 21 (86)
T PF06170_consen 3 GYLKVAPRCPHCGLDYSHA 21 (86)
T ss_pred ccccCCCcccccCCccccC
Confidence 3456677899998887653
No 274
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.99 E-value=19 Score=22.97 Aligned_cols=8 Identities=25% Similarity=0.982 Sum_probs=4.4
Q ss_pred CCCCCCCC
Q psy8828 54 QTCPLCRA 61 (81)
Q Consensus 54 ~~CP~C~~ 61 (81)
..||.|+.
T Consensus 270 ~~C~~Cgt 277 (279)
T TIGR00627 270 PICKTCKT 277 (279)
T ss_pred CCCCCCCC
Confidence 35666654
No 275
>KOG3993|consensus
Probab=22.69 E-value=10 Score=25.73 Aligned_cols=37 Identities=27% Similarity=0.753 Sum_probs=21.2
Q ss_pred CccccccccCCCCCeec---CCCCcccHHHHHHHHhCCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQL---TCCHIFCESCVTKWFDREQTCPLCRATLV 64 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l---~C~h~fc~~Cl~~~~~~~~~CP~C~~~~~ 64 (81)
++.|.+|.+.|.++..| .|..+.+ ....||.|.+.+.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~---------vEYrCPEC~KVFs 306 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVH---------VEYRCPECDKVFS 306 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEE---------eeecCCccccccc
Confidence 45777777777776544 3433221 2246777766654
No 276
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=22.65 E-value=45 Score=14.44 Aligned_cols=12 Identities=42% Similarity=0.924 Sum_probs=8.4
Q ss_pred CCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVD 65 (81)
Q Consensus 54 ~~CP~C~~~~~~ 65 (81)
..||.|...+..
T Consensus 2 ~~CP~Cg~~lv~ 13 (39)
T PF01396_consen 2 EKCPKCGGPLVL 13 (39)
T ss_pred cCCCCCCceeEE
Confidence 368999876643
No 277
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=22.63 E-value=76 Score=18.88 Aligned_cols=14 Identities=36% Similarity=0.795 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCCCC
Q psy8828 52 REQTCPLCRATLVD 65 (81)
Q Consensus 52 ~~~~CP~C~~~~~~ 65 (81)
....||.|..++..
T Consensus 153 GRP~CPlCg~PlDP 166 (171)
T PF11290_consen 153 GRPPCPLCGEPLDP 166 (171)
T ss_pred CCCCCCCCCCCCCC
Confidence 56799999998754
No 278
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=22.59 E-value=17 Score=21.69 Aligned_cols=15 Identities=27% Similarity=0.829 Sum_probs=10.0
Q ss_pred hCCCCCCCCCCCCCC
Q psy8828 51 DREQTCPLCRATLVD 65 (81)
Q Consensus 51 ~~~~~CP~C~~~~~~ 65 (81)
.....||.|..++..
T Consensus 151 ~~~~~Cp~CG~~~~~ 165 (177)
T COG1439 151 EPKDFCPICGSPLKR 165 (177)
T ss_pred CCCCcCCCCCCceEE
Confidence 345678888877543
No 279
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.58 E-value=70 Score=19.06 Aligned_cols=19 Identities=26% Similarity=0.497 Sum_probs=13.8
Q ss_pred HHHhCCCCCCCCCCCCCCC
Q psy8828 48 KWFDREQTCPLCRATLVDD 66 (81)
Q Consensus 48 ~~~~~~~~CP~C~~~~~~~ 66 (81)
+.....++||.|+..+...
T Consensus 127 eA~~~~F~Cp~Cg~~L~~~ 145 (176)
T COG1675 127 EAMELGFTCPKCGEDLEEY 145 (176)
T ss_pred HHHHhCCCCCCCCchhhhc
Confidence 3444568999999988654
No 280
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.38 E-value=43 Score=26.13 Aligned_cols=47 Identities=23% Similarity=0.461 Sum_probs=27.0
Q ss_pred CccccccccCCCCCeecCCCCc-----ccHHHHHHHHhC---CCCCCCCCCCCCC
Q psy8828 19 GCICPICHDEFKTPVQLTCCHI-----FCESCVTKWFDR---EQTCPLCRATLVD 65 (81)
Q Consensus 19 ~~~C~iC~~~~~~p~~l~C~h~-----fc~~Cl~~~~~~---~~~CP~C~~~~~~ 65 (81)
.+.||-|........--.||.. +|..|-.+.-.. ...||.|..++..
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 3689999886544322247744 366665432211 2368888776654
No 281
>KOG4021|consensus
Probab=22.30 E-value=36 Score=20.78 Aligned_cols=22 Identities=27% Similarity=0.735 Sum_probs=12.7
Q ss_pred HHHHHHHHh-CCCCCCCCCCCCC
Q psy8828 43 ESCVTKWFD-REQTCPLCRATLV 64 (81)
Q Consensus 43 ~~Cl~~~~~-~~~~CP~C~~~~~ 64 (81)
..||.+--. -...||+||-...
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 445543322 3457999987643
No 282
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=21.77 E-value=43 Score=14.88 Aligned_cols=12 Identities=25% Similarity=0.814 Sum_probs=9.1
Q ss_pred CCCCCCCCCCCC
Q psy8828 53 EQTCPLCRATLV 64 (81)
Q Consensus 53 ~~~CP~C~~~~~ 64 (81)
...||.|+.++.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 357999988764
No 283
>KOG1245|consensus
Probab=21.76 E-value=46 Score=26.23 Aligned_cols=47 Identities=23% Similarity=0.564 Sum_probs=33.5
Q ss_pred CCCccccccccCCCCCeec---CCCCcccHHHHHHHHh----CCCCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTPVQL---TCCHIFCESCVTKWFD----REQTCPLCRATL 63 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~l---~C~h~fc~~Cl~~~~~----~~~~CP~C~~~~ 63 (81)
.....|.+|......-..+ .|...|+..|+...+. ....||.|+..-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3456899999887764333 5666777888877665 347899998765
No 284
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=21.44 E-value=35 Score=13.16 Aligned_cols=11 Identities=36% Similarity=0.969 Sum_probs=5.9
Q ss_pred CccccccccCC
Q psy8828 19 GCICPICHDEF 29 (81)
Q Consensus 19 ~~~C~iC~~~~ 29 (81)
.+.|++|...|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 35666665443
No 285
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=21.14 E-value=43 Score=14.04 Aligned_cols=10 Identities=20% Similarity=0.504 Sum_probs=6.0
Q ss_pred CCCCCCCCCC
Q psy8828 54 QTCPLCRATL 63 (81)
Q Consensus 54 ~~CP~C~~~~ 63 (81)
..||.|+..+
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 3577776554
No 286
>PF06869 DUF1258: Protein of unknown function (DUF1258); InterPro: IPR009667 This family represents a conserved region approximately 260 residues long within a number of hypothetical proteins of unknown function that seem to be specific to Caenorhabditis elegans. Note that this family contains a number of conserved cysteine and histidine residues.
Probab=21.11 E-value=19 Score=22.73 Aligned_cols=21 Identities=29% Similarity=0.873 Sum_probs=14.2
Q ss_pred CCcccHHHHHHHHhCCCCCCCC
Q psy8828 38 CHIFCESCVTKWFDREQTCPLC 59 (81)
Q Consensus 38 ~h~fc~~Cl~~~~~~~~~CP~C 59 (81)
.|.||..|.+ .......|-.|
T Consensus 17 ~h~~CN~CG~-~~~~~~kC~~c 37 (258)
T PF06869_consen 17 THFICNSCGK-VVESNEKCSCC 37 (258)
T ss_pred eehhhhhhhh-hhccCceeecc
Confidence 4889999987 44555566544
No 287
>KOG1729|consensus
Probab=21.08 E-value=64 Score=20.79 Aligned_cols=31 Identities=23% Similarity=0.424 Sum_probs=20.1
Q ss_pred CCccccccccCCCCCe-----ecCCCCcccHHHHHH
Q psy8828 18 VGCICPICHDEFKTPV-----QLTCCHIFCESCVTK 48 (81)
Q Consensus 18 ~~~~C~iC~~~~~~p~-----~l~C~h~fc~~Cl~~ 48 (81)
+...|.+|........ --.||++||..|-..
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n 202 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRN 202 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcC
Confidence 4568999988422211 126999999888654
No 288
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=21.07 E-value=20 Score=18.40 Aligned_cols=18 Identities=33% Similarity=1.128 Sum_probs=10.9
Q ss_pred cHHHHHHHHhCC-CCCCCC
Q psy8828 42 CESCVTKWFDRE-QTCPLC 59 (81)
Q Consensus 42 c~~Cl~~~~~~~-~~CP~C 59 (81)
|..|.+.|+.++ ..|..|
T Consensus 3 C~~C~~~~F~~KiGRC~rC 21 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRC 21 (77)
T ss_pred hhhHHHHHHHHHhccHHHH
Confidence 566776666643 566655
No 289
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.06 E-value=13 Score=19.17 Aligned_cols=12 Identities=42% Similarity=0.968 Sum_probs=7.8
Q ss_pred ccccccccCCCC
Q psy8828 20 CICPICHDEFKT 31 (81)
Q Consensus 20 ~~C~iC~~~~~~ 31 (81)
+.||+|.-.+..
T Consensus 2 llCP~C~v~l~~ 13 (88)
T COG3809 2 LLCPICGVELVM 13 (88)
T ss_pred cccCcCCceeee
Confidence 467877766554
No 290
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=20.95 E-value=36 Score=14.48 Aligned_cols=12 Identities=25% Similarity=0.941 Sum_probs=7.6
Q ss_pred ccccccccCCCC
Q psy8828 20 CICPICHDEFKT 31 (81)
Q Consensus 20 ~~C~iC~~~~~~ 31 (81)
.+|+-|...|..
T Consensus 3 i~Cp~C~~~y~i 14 (36)
T PF13717_consen 3 ITCPNCQAKYEI 14 (36)
T ss_pred EECCCCCCEEeC
Confidence 457777776653
No 291
>PF10217 DUF2039: Uncharacterized conserved protein (DUF2039); InterPro: IPR019351 This entry is a region of approximately 100 residues containing three pairs of cysteine residues. The region is conserved from plants to humans but its function is unknown.
Probab=20.90 E-value=64 Score=17.15 Aligned_cols=20 Identities=25% Similarity=0.971 Sum_probs=13.1
Q ss_pred CcccHHHHHHHHhCCCCCCCCCCC
Q psy8828 39 HIFCESCVTKWFDREQTCPLCRAT 62 (81)
Q Consensus 39 h~fc~~Cl~~~~~~~~~CP~C~~~ 62 (81)
|+.|..|..+. ..|+-|.++
T Consensus 71 h~iC~~Ca~~~----~vCaKC~k~ 90 (92)
T PF10217_consen 71 HVICDPCAKEL----KVCAKCGKP 90 (92)
T ss_pred HHHHHHHHHhh----ccCcccCCC
Confidence 56677776543 668888653
No 292
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=20.85 E-value=48 Score=12.99 Aligned_cols=7 Identities=43% Similarity=1.146 Sum_probs=4.0
Q ss_pred CCCCCCC
Q psy8828 54 QTCPLCR 60 (81)
Q Consensus 54 ~~CP~C~ 60 (81)
..||.|.
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4566664
No 293
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=20.82 E-value=1.1e+02 Score=15.32 Aligned_cols=32 Identities=22% Similarity=0.429 Sum_probs=20.9
Q ss_pred CCCccccccccCCCCCee---cCCCCcccHHHHHH
Q psy8828 17 GVGCICPICHDEFKTPVQ---LTCCHIFCESCVTK 48 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p~~---l~C~h~fc~~Cl~~ 48 (81)
.....|.+|....--.+. -.|...|+..|...
T Consensus 34 ~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 345799999976222121 15888899888754
No 294
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=20.74 E-value=52 Score=16.05 Aligned_cols=11 Identities=45% Similarity=1.274 Sum_probs=8.2
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
-.||.|+.++.
T Consensus 9 LaCP~~kg~L~ 19 (60)
T COG2835 9 LACPVCKGPLV 19 (60)
T ss_pred eeccCcCCcce
Confidence 35899988864
No 295
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=20.53 E-value=42 Score=23.11 Aligned_cols=11 Identities=36% Similarity=0.963 Sum_probs=7.4
Q ss_pred CCCCCCCCCCC
Q psy8828 54 QTCPLCRATLV 64 (81)
Q Consensus 54 ~~CP~C~~~~~ 64 (81)
+.||.|...+.
T Consensus 53 f~CP~C~~~L~ 63 (483)
T PF05502_consen 53 FDCPICFSPLS 63 (483)
T ss_pred ccCCCCCCcce
Confidence 45788877664
No 296
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=20.53 E-value=61 Score=13.60 Aligned_cols=11 Identities=36% Similarity=0.866 Sum_probs=7.8
Q ss_pred CCCCCCCCCCC
Q psy8828 53 EQTCPLCRATL 63 (81)
Q Consensus 53 ~~~CP~C~~~~ 63 (81)
...||.|+..+
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 35799998743
No 297
>smart00355 ZnF_C2H2 zinc finger.
Probab=20.47 E-value=65 Score=11.28 Aligned_cols=11 Identities=27% Similarity=0.818 Sum_probs=6.8
Q ss_pred CCCCCCCCCCC
Q psy8828 55 TCPLCRATLVD 65 (81)
Q Consensus 55 ~CP~C~~~~~~ 65 (81)
.|+.|...+..
T Consensus 2 ~C~~C~~~f~~ 12 (26)
T smart00355 2 RCPECGKVFKS 12 (26)
T ss_pred CCCCCcchhCC
Confidence 47777666543
No 298
>KOG1701|consensus
Probab=20.33 E-value=1.1e+02 Score=21.05 Aligned_cols=13 Identities=15% Similarity=0.698 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCCC
Q psy8828 54 QTCPLCRATLVDD 66 (81)
Q Consensus 54 ~~CP~C~~~~~~~ 66 (81)
..|-+|..++...
T Consensus 395 PrCs~C~~PI~P~ 407 (468)
T KOG1701|consen 395 PRCSVCGNPILPR 407 (468)
T ss_pred cchhhccCCccCC
Confidence 5788888877654
No 299
>KOG4443|consensus
Probab=20.21 E-value=65 Score=23.32 Aligned_cols=45 Identities=33% Similarity=0.710 Sum_probs=29.2
Q ss_pred CCCccccccccCCCCC--eec---CCCCcccHHHHHHHHh-----CCCCCCCCCC
Q psy8828 17 GVGCICPICHDEFKTP--VQL---TCCHIFCESCVTKWFD-----REQTCPLCRA 61 (81)
Q Consensus 17 ~~~~~C~iC~~~~~~p--~~l---~C~h~fc~~Cl~~~~~-----~~~~CP~C~~ 61 (81)
...+.|++|...=..+ ..+ .|+-.|+..|+..|+. +...||-|+.
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 3456777777654432 122 5888889999998876 3356777754
No 300
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=20.20 E-value=84 Score=14.92 Aligned_cols=11 Identities=36% Similarity=0.600 Sum_probs=7.4
Q ss_pred ecCCCCcccHH
Q psy8828 34 QLTCCHIFCES 44 (81)
Q Consensus 34 ~l~C~h~fc~~ 44 (81)
-|.||+.+|..
T Consensus 14 CL~Cg~~~C~~ 24 (63)
T PF02148_consen 14 CLTCGYVGCGR 24 (63)
T ss_dssp ETTTS-EEETT
T ss_pred eCCCCcccccC
Confidence 35788888875
No 301
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=20.05 E-value=67 Score=16.97 Aligned_cols=11 Identities=36% Similarity=1.147 Sum_probs=8.2
Q ss_pred ccHHHHHHHHh
Q psy8828 41 FCESCVTKWFD 51 (81)
Q Consensus 41 fc~~Cl~~~~~ 51 (81)
-|..|+.+|..
T Consensus 77 dcy~cL~eWc~ 87 (89)
T PF02961_consen 77 DCYNCLKEWCD 87 (89)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 47888888853
No 302
>PF14369 zf-RING_3: zinc-finger
Probab=20.03 E-value=51 Score=13.99 Aligned_cols=8 Identities=38% Similarity=1.265 Sum_probs=4.6
Q ss_pred CCCCCCCC
Q psy8828 56 CPLCRATL 63 (81)
Q Consensus 56 CP~C~~~~ 63 (81)
||.|...+
T Consensus 24 CP~C~~gF 31 (35)
T PF14369_consen 24 CPRCHGGF 31 (35)
T ss_pred CcCCCCcE
Confidence 66665444
Done!