Query psy2479
Match_columns 156
No_of_seqs 140 out of 1873
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 17:19:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00504 Ubox Modified RING 99.5 1.4E-14 3E-19 88.9 3.7 61 69-133 1-61 (63)
2 PF04564 U-box: U-box domain; 99.5 3.9E-14 8.4E-19 89.7 4.0 69 67-139 2-71 (73)
3 PF15227 zf-C3HC4_4: zinc fing 99.5 3.9E-14 8.5E-19 80.2 2.7 38 72-109 1-42 (42)
4 TIGR00599 rad18 DNA repair pro 99.5 7.5E-14 1.6E-18 113.2 5.3 71 63-137 20-90 (397)
5 KOG0287|consensus 99.4 2.4E-13 5.1E-18 106.6 4.1 71 63-137 17-87 (442)
6 PLN03208 E3 ubiquitin-protein 99.4 3.1E-13 6.6E-18 99.4 4.1 54 66-119 15-84 (193)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 6.6E-13 1.4E-17 74.0 2.2 38 72-109 1-39 (39)
8 PF13920 zf-C3HC4_3: Zinc fing 99.3 8.4E-13 1.8E-17 77.5 2.3 47 69-115 2-49 (50)
9 KOG0823|consensus 99.3 1.7E-12 3.6E-17 97.2 4.0 58 65-122 43-103 (230)
10 PF13639 zf-RING_2: Ring finge 99.3 8.1E-13 1.7E-17 75.5 1.3 40 71-110 2-44 (44)
11 KOG0317|consensus 99.3 2.8E-12 6.2E-17 98.7 4.0 53 66-118 236-288 (293)
12 KOG0320|consensus 99.2 2.8E-12 6E-17 92.4 2.2 52 68-119 130-183 (187)
13 PHA02929 N1R/p28-like protein; 99.2 7.3E-12 1.6E-16 95.5 3.4 51 66-116 171-229 (238)
14 PF00097 zf-C3HC4: Zinc finger 99.2 1.7E-11 3.6E-16 68.9 2.3 38 72-109 1-41 (41)
15 COG5432 RAD18 RING-finger-cont 99.1 2.7E-11 5.9E-16 93.4 3.1 56 63-118 19-74 (391)
16 PF14835 zf-RING_6: zf-RING of 99.1 2E-11 4.3E-16 74.0 1.8 60 67-132 5-65 (65)
17 PF13445 zf-RING_UBOX: RING-ty 99.1 4.1E-11 9E-16 67.9 1.8 35 72-107 1-43 (43)
18 cd00162 RING RING-finger (Real 99.1 1.1E-10 2.3E-15 66.0 3.0 43 71-113 1-45 (45)
19 KOG0978|consensus 99.0 4.2E-11 9.1E-16 102.4 1.0 85 35-119 607-694 (698)
20 PF14634 zf-RING_5: zinc-RING 99.0 2.3E-10 5.1E-15 65.3 2.9 41 71-111 1-44 (44)
21 smart00184 RING Ring finger. E 99.0 6E-10 1.3E-14 60.8 2.9 38 72-109 1-39 (39)
22 PF12678 zf-rbx1: RING-H2 zinc 98.9 6.7E-10 1.4E-14 70.2 2.9 40 71-110 21-73 (73)
23 PHA02926 zinc finger-like prot 98.9 4.3E-10 9.4E-15 84.0 2.1 51 64-114 165-230 (242)
24 KOG2177|consensus 98.9 1.4E-09 3E-14 84.2 3.6 72 64-141 8-79 (386)
25 KOG4628|consensus 98.9 1.1E-09 2.3E-14 87.4 2.5 47 70-116 230-280 (348)
26 KOG2660|consensus 98.8 1.2E-09 2.6E-14 85.7 1.8 72 64-135 10-82 (331)
27 COG5574 PEX10 RING-finger-cont 98.8 2.4E-09 5.1E-14 81.8 2.1 52 67-118 213-266 (271)
28 KOG2164|consensus 98.8 2.5E-09 5.4E-14 88.2 2.3 52 69-120 186-242 (513)
29 KOG4159|consensus 98.8 8.6E-09 1.9E-13 84.0 4.7 74 64-137 79-153 (398)
30 COG5243 HRD1 HRD ubiquitin lig 98.6 1.5E-08 3.3E-13 80.8 2.5 48 66-113 284-344 (491)
31 COG5540 RING-finger-containing 98.6 1.8E-08 3.9E-13 78.4 2.9 48 68-115 322-373 (374)
32 TIGR00570 cdk7 CDK-activating 98.6 4E-08 8.6E-13 77.4 4.8 58 69-126 3-70 (309)
33 KOG0802|consensus 98.6 1.7E-08 3.6E-13 85.9 1.9 52 66-117 288-344 (543)
34 KOG0311|consensus 98.6 1.2E-08 2.6E-13 80.7 0.6 68 65-132 39-109 (381)
35 PF12861 zf-Apc11: Anaphase-pr 98.6 4.6E-08 1E-12 62.9 3.1 47 68-114 20-82 (85)
36 COG5222 Uncharacterized conser 98.5 1.2E-07 2.6E-12 73.9 4.8 73 70-142 275-350 (427)
37 COG5152 Uncharacterized conser 98.5 8.6E-08 1.9E-12 70.6 3.3 50 69-118 196-245 (259)
38 KOG1813|consensus 98.4 2.4E-07 5.1E-12 72.0 2.7 50 69-118 241-290 (313)
39 KOG0824|consensus 98.3 2.5E-07 5.4E-12 72.0 1.6 49 70-118 8-57 (324)
40 PF11789 zf-Nse: Zinc-finger o 98.2 6.6E-07 1.4E-11 53.7 1.7 42 67-108 9-53 (57)
41 KOG4265|consensus 98.2 1E-06 2.2E-11 70.2 2.3 52 67-118 288-340 (349)
42 KOG2879|consensus 98.1 2E-06 4.3E-11 66.3 3.4 51 64-114 234-287 (298)
43 KOG0297|consensus 98.1 2.6E-06 5.7E-11 69.9 3.6 56 65-120 17-73 (391)
44 KOG1002|consensus 98.0 3.8E-06 8.3E-11 70.1 2.4 54 65-118 532-590 (791)
45 KOG4172|consensus 98.0 1.4E-06 3E-11 51.1 -0.2 46 69-114 7-54 (62)
46 KOG0827|consensus 97.9 5.9E-06 1.3E-10 66.5 2.4 50 70-119 5-61 (465)
47 PF11793 FANCL_C: FANCL C-term 97.9 1.4E-06 2.9E-11 54.6 -1.1 47 69-115 2-67 (70)
48 KOG1734|consensus 97.9 4.5E-06 9.8E-11 64.3 0.8 48 68-115 223-282 (328)
49 KOG0804|consensus 97.8 9.8E-06 2.1E-10 66.3 1.4 47 66-114 172-222 (493)
50 PF04641 Rtf2: Rtf2 RING-finge 97.7 3.7E-05 7.9E-10 59.9 4.3 72 66-138 110-185 (260)
51 KOG1785|consensus 97.7 1.7E-05 3.7E-10 64.2 1.7 48 71-118 371-420 (563)
52 smart00744 RINGv The RING-vari 97.7 3E-05 6.5E-10 45.1 2.2 40 71-110 1-49 (49)
53 COG5194 APC11 Component of SCF 97.6 3.8E-05 8.3E-10 48.5 2.2 29 86-114 53-81 (88)
54 KOG1039|consensus 97.6 3.2E-05 6.9E-10 62.2 2.0 50 67-116 159-223 (344)
55 COG5219 Uncharacterized conser 97.5 2.5E-05 5.5E-10 69.1 0.7 84 31-114 1430-1523(1525)
56 KOG1645|consensus 97.5 7.9E-05 1.7E-09 60.5 3.4 50 69-118 4-60 (463)
57 KOG4692|consensus 97.5 8.5E-05 1.8E-09 59.4 3.5 50 66-115 419-468 (489)
58 KOG0828|consensus 97.5 5.5E-05 1.2E-09 62.7 1.9 50 66-115 568-635 (636)
59 KOG0825|consensus 97.4 2.9E-05 6.4E-10 67.4 0.0 53 67-119 121-176 (1134)
60 KOG3039|consensus 97.4 0.00012 2.7E-09 55.8 3.3 52 68-119 220-275 (303)
61 KOG4367|consensus 97.4 8.3E-05 1.8E-09 61.0 2.2 36 67-102 2-37 (699)
62 KOG1493|consensus 97.4 3.4E-05 7.4E-10 48.4 -0.2 44 71-114 22-81 (84)
63 PF14447 Prok-RING_4: Prokaryo 97.3 0.00014 3E-09 42.9 1.4 47 69-117 7-53 (55)
64 KOG4185|consensus 97.2 0.00059 1.3E-08 53.9 4.6 45 69-113 3-54 (296)
65 KOG2817|consensus 97.1 0.00077 1.7E-08 54.7 4.5 64 48-111 313-382 (394)
66 KOG4275|consensus 96.9 0.00013 2.8E-09 57.0 -1.3 41 69-113 300-341 (350)
67 KOG1814|consensus 96.8 0.0017 3.8E-08 52.9 4.3 70 66-138 181-261 (445)
68 KOG1941|consensus 96.7 0.00051 1.1E-08 55.7 0.8 44 69-112 365-414 (518)
69 KOG2114|consensus 96.7 0.0027 5.9E-08 56.0 5.1 40 69-111 840-880 (933)
70 KOG2930|consensus 96.7 0.0009 2E-08 44.4 1.6 44 69-112 46-106 (114)
71 KOG1571|consensus 96.7 0.00083 1.8E-08 53.9 1.5 49 64-115 300-348 (355)
72 KOG0826|consensus 96.6 0.0015 3.2E-08 51.8 2.6 49 66-114 297-346 (357)
73 KOG1001|consensus 96.5 0.00055 1.2E-08 59.8 -0.5 48 70-118 455-504 (674)
74 KOG3002|consensus 96.5 0.0032 6.8E-08 50.0 3.6 63 64-136 43-106 (299)
75 KOG4739|consensus 96.4 0.00092 2E-08 50.9 0.4 47 70-118 4-52 (233)
76 KOG3800|consensus 96.2 0.005 1.1E-07 48.2 3.3 48 71-118 2-55 (300)
77 PF14570 zf-RING_4: RING/Ubox 96.2 0.0039 8.4E-08 35.9 2.0 42 72-113 1-47 (48)
78 COG5236 Uncharacterized conser 96.2 0.0058 1.3E-07 49.1 3.6 48 66-113 58-107 (493)
79 KOG3970|consensus 96.0 0.0092 2E-07 45.2 4.0 46 69-114 50-105 (299)
80 PF10367 Vps39_2: Vacuolar sor 95.8 0.0028 6E-08 42.2 0.4 32 66-97 75-108 (109)
81 KOG1940|consensus 95.7 0.0091 2E-07 46.7 2.8 60 69-134 158-221 (276)
82 PF05290 Baculo_IE-1: Baculovi 95.6 0.008 1.7E-07 41.9 2.0 51 68-118 79-136 (140)
83 KOG2932|consensus 95.4 0.007 1.5E-07 47.9 1.1 43 69-113 90-133 (389)
84 KOG3113|consensus 95.3 0.024 5.3E-07 43.6 3.8 70 66-137 108-181 (293)
85 KOG3268|consensus 95.3 0.012 2.6E-07 43.0 2.1 33 85-117 188-231 (234)
86 KOG0298|consensus 95.2 0.0093 2E-07 54.9 1.4 55 63-117 1147-1202(1394)
87 KOG4445|consensus 95.1 0.0072 1.6E-07 47.6 0.6 49 66-114 112-186 (368)
88 PF08746 zf-RING-like: RING-li 95.0 0.029 6.3E-07 31.5 2.7 38 72-109 1-43 (43)
89 COG5175 MOT2 Transcriptional r 94.9 0.027 5.9E-07 45.2 3.3 49 70-118 15-68 (480)
90 KOG3161|consensus 94.8 0.012 2.7E-07 50.7 1.1 40 66-107 8-51 (861)
91 COG5109 Uncharacterized conser 94.5 0.033 7.2E-07 44.3 2.8 50 62-111 329-384 (396)
92 PHA03096 p28-like protein; Pro 94.3 0.023 5.1E-07 44.8 1.7 42 70-111 179-231 (284)
93 PHA02825 LAP/PHD finger-like p 94.1 0.056 1.2E-06 38.8 3.1 45 68-113 7-58 (162)
94 PF05883 Baculo_RING: Baculovi 94.0 0.03 6.5E-07 39.2 1.5 42 69-110 26-76 (134)
95 KOG4362|consensus 93.9 0.015 3.3E-07 50.6 -0.2 52 67-118 19-73 (684)
96 KOG1100|consensus 93.6 0.025 5.5E-07 42.6 0.6 40 72-115 161-201 (207)
97 COG5220 TFB3 Cdk activating ki 93.5 0.031 6.6E-07 42.9 0.9 46 68-113 9-63 (314)
98 PF07800 DUF1644: Protein of u 93.5 0.064 1.4E-06 38.5 2.4 51 68-118 1-95 (162)
99 KOG1428|consensus 92.9 0.11 2.4E-06 49.2 3.6 50 66-115 3483-3545(3738)
100 PF03854 zf-P11: P-11 zinc fin 92.9 0.041 8.8E-07 31.4 0.6 32 84-115 15-47 (50)
101 KOG3039|consensus 92.4 0.092 2E-06 40.4 2.1 37 65-101 39-75 (303)
102 PHA02862 5L protein; Provision 92.3 0.13 2.7E-06 36.5 2.5 46 70-116 3-55 (156)
103 PF02891 zf-MIZ: MIZ/SP-RING z 92.2 0.067 1.5E-06 31.0 0.9 43 69-112 2-50 (50)
104 PF12906 RINGv: RING-variant d 92.1 0.079 1.7E-06 30.3 1.1 38 72-109 1-47 (47)
105 KOG3579|consensus 91.6 0.1 2.2E-06 41.0 1.6 36 67-102 266-305 (352)
106 COG3813 Uncharacterized protei 91.1 0.23 4.9E-06 31.0 2.4 45 72-118 8-56 (84)
107 PF10272 Tmpp129: Putative tra 89.9 0.2 4.4E-06 40.8 1.9 28 91-118 315-355 (358)
108 KOG1812|consensus 89.9 0.32 7E-06 40.0 3.1 42 69-110 146-197 (384)
109 KOG1952|consensus 89.4 0.18 4E-06 45.0 1.4 45 67-111 189-244 (950)
110 PF06906 DUF1272: Protein of u 87.8 0.59 1.3E-05 27.7 2.4 45 71-117 7-55 (57)
111 KOG0827|consensus 86.6 0.12 2.7E-06 42.2 -1.2 49 70-118 197-249 (465)
112 PF10235 Cript: Microtubule-as 86.3 0.39 8.5E-06 31.3 1.2 41 69-118 44-84 (90)
113 KOG2042|consensus 85.3 1.2 2.7E-05 40.5 4.1 72 65-140 866-938 (943)
114 KOG3899|consensus 85.1 0.42 9.2E-06 37.8 1.1 32 87-118 325-369 (381)
115 KOG4718|consensus 84.7 0.58 1.3E-05 35.3 1.6 45 69-113 181-226 (235)
116 KOG2034|consensus 84.7 0.49 1.1E-05 42.5 1.4 37 66-102 814-852 (911)
117 KOG1815|consensus 84.6 0.53 1.1E-05 39.5 1.5 36 67-102 68-104 (444)
118 KOG0309|consensus 84.6 0.64 1.4E-05 41.3 2.0 39 70-108 1029-1069(1081)
119 PF10571 UPF0547: Uncharacteri 84.1 0.47 1E-05 23.6 0.6 10 72-81 3-12 (26)
120 PF07191 zinc-ribbons_6: zinc- 83.6 0.075 1.6E-06 33.0 -2.9 41 70-115 2-42 (70)
121 KOG4642|consensus 83.0 3.2 6.9E-05 32.3 5.0 72 64-139 206-278 (284)
122 PF04216 FdhE: Protein involve 81.4 0.32 6.9E-06 38.4 -1.0 46 67-112 170-220 (290)
123 KOG2113|consensus 81.2 1.3 2.9E-05 35.4 2.4 50 64-115 338-388 (394)
124 PRK06266 transcription initiat 80.9 3.1 6.8E-05 30.6 4.2 36 68-118 116-151 (178)
125 PF07975 C1_4: TFIIH C1-like d 80.9 1.7 3.7E-05 25.3 2.3 25 86-110 26-50 (51)
126 PF14446 Prok-RING_1: Prokaryo 79.7 1.7 3.6E-05 25.6 1.9 30 69-98 5-38 (54)
127 PF14353 CpXC: CpXC protein 79.1 1.4 3E-05 30.4 1.8 45 70-114 2-49 (128)
128 PF05605 zf-Di19: Drought indu 78.8 0.97 2.1E-05 26.3 0.8 37 69-112 2-40 (54)
129 KOG1812|consensus 78.7 1 2.2E-05 37.1 1.2 41 69-109 306-351 (384)
130 TIGR00373 conserved hypothetic 78.5 3.7 8E-05 29.5 3.9 48 67-135 107-154 (158)
131 KOG0825|consensus 77.8 1.7 3.7E-05 39.0 2.2 47 67-113 94-153 (1134)
132 PF13240 zinc_ribbon_2: zinc-r 77.4 0.41 8.8E-06 23.1 -0.9 10 103-112 13-22 (23)
133 KOG2462|consensus 77.0 1.2 2.5E-05 35.0 1.0 52 67-118 159-230 (279)
134 TIGR01562 FdhE formate dehydro 76.8 0.59 1.3E-05 37.4 -0.7 44 69-112 184-233 (305)
135 KOG0289|consensus 76.1 1.8 3.8E-05 36.2 1.8 49 70-118 1-50 (506)
136 PF04710 Pellino: Pellino; In 76.0 0.85 1.9E-05 37.5 0.0 49 69-117 328-404 (416)
137 PF06844 DUF1244: Protein of u 75.5 1.6 3.5E-05 26.7 1.1 13 90-102 11-23 (68)
138 KOG2979|consensus 75.4 3.3 7.1E-05 32.2 3.0 44 69-112 176-222 (262)
139 KOG2068|consensus 74.9 2.6 5.6E-05 33.9 2.4 48 69-116 249-300 (327)
140 KOG3842|consensus 73.7 2.5 5.3E-05 34.0 2.0 48 68-115 340-415 (429)
141 smart00132 LIM Zinc-binding do 71.2 3.2 7E-05 21.5 1.6 35 72-114 2-38 (39)
142 KOG0269|consensus 70.4 4.2 9.1E-05 36.3 2.9 45 68-112 778-826 (839)
143 PF10146 zf-C4H2: Zinc finger- 70.4 3.8 8.3E-05 31.4 2.4 28 91-118 196-223 (230)
144 KOG3476|consensus 70.3 1.1 2.4E-05 28.9 -0.4 39 70-117 55-93 (100)
145 PF01363 FYVE: FYVE zinc finge 69.5 1.2 2.7E-05 27.0 -0.4 32 69-100 9-44 (69)
146 PRK03564 formate dehydrogenase 69.4 1.3 2.8E-05 35.5 -0.4 44 68-111 186-234 (309)
147 KOG4185|consensus 68.5 0.91 2E-05 35.7 -1.4 44 69-112 207-265 (296)
148 smart00734 ZnF_Rad18 Rad18-lik 68.1 2.7 5.8E-05 20.8 0.7 12 104-115 2-13 (26)
149 PF04423 Rad50_zn_hook: Rad50 67.2 2.3 4.9E-05 24.7 0.4 15 104-118 21-35 (54)
150 cd00065 FYVE FYVE domain; Zinc 67.2 3.3 7.1E-05 24.0 1.1 31 70-100 3-37 (57)
151 cd00350 rubredoxin_like Rubred 66.7 4.1 9E-05 21.2 1.4 11 102-112 16-26 (33)
152 COG1675 TFA1 Transcription ini 65.7 15 0.00031 27.1 4.5 36 68-118 112-147 (176)
153 smart00064 FYVE Protein presen 65.4 4.6 0.0001 24.3 1.6 32 70-101 11-46 (68)
154 KOG4451|consensus 65.1 5.4 0.00012 30.6 2.2 28 91-118 251-278 (286)
155 PF14569 zf-UDP: Zinc-binding 63.7 7.3 0.00016 24.7 2.2 47 69-115 9-63 (80)
156 PF13248 zf-ribbon_3: zinc-rib 62.7 1.5 3.3E-05 21.5 -0.8 9 104-112 17-25 (26)
157 KOG2169|consensus 62.5 14 0.00031 32.6 4.7 69 64-137 301-375 (636)
158 PRK11595 DNA utilization prote 62.3 6.7 0.00015 29.7 2.3 38 71-113 7-44 (227)
159 KOG3799|consensus 61.1 10 0.00022 26.7 2.8 24 67-95 63-87 (169)
160 COG5183 SSM4 Protein involved 60.5 8.3 0.00018 35.0 2.8 52 67-118 10-70 (1175)
161 PF10497 zf-4CXXC_R1: Zinc-fin 60.1 8.3 0.00018 25.8 2.2 24 88-111 37-69 (105)
162 PF09986 DUF2225: Uncharacteri 59.8 7.5 0.00016 29.3 2.2 51 68-118 4-63 (214)
163 PF00412 LIM: LIM domain; Int 58.5 4.7 0.0001 23.2 0.7 27 70-96 27-54 (58)
164 KOG2807|consensus 58.3 5.3 0.00011 32.2 1.1 40 71-110 332-374 (378)
165 COG3492 Uncharacterized protei 57.4 5.5 0.00012 26.0 0.9 13 90-102 42-54 (104)
166 COG4640 Predicted membrane pro 57.1 6.4 0.00014 32.6 1.5 22 110-131 44-65 (465)
167 TIGR00622 ssl1 transcription f 57.1 7.2 0.00016 26.5 1.5 41 70-110 56-110 (112)
168 PRK14559 putative protein seri 56.0 7.2 0.00016 34.5 1.7 38 71-116 3-40 (645)
169 smart00249 PHD PHD zinc finger 53.8 4.6 9.9E-05 21.7 0.1 28 72-99 2-32 (47)
170 KOG3053|consensus 53.7 7.1 0.00015 30.5 1.1 49 65-113 16-81 (293)
171 KOG1609|consensus 53.3 11 0.00023 29.6 2.2 48 69-116 78-136 (323)
172 smart00647 IBR In Between Ring 53.2 2.8 6.1E-05 24.6 -0.9 16 86-101 45-60 (64)
173 PRK04023 DNA polymerase II lar 50.9 15 0.00032 34.2 2.8 48 68-118 625-678 (1121)
174 PF09889 DUF2116: Uncharacteri 49.6 42 0.00091 20.1 3.8 18 103-120 3-20 (59)
175 KOG0314|consensus 49.3 13 0.00029 31.3 2.2 47 64-111 214-263 (448)
176 PF09297 zf-NADH-PPase: NADH p 49.2 2.2 4.9E-05 22.0 -1.6 23 89-111 3-29 (32)
177 COG5113 UFD2 Ubiquitin fusion 48.1 66 0.0014 28.7 6.2 75 63-141 848-923 (929)
178 KOG0824|consensus 47.5 5.7 0.00012 31.7 -0.2 50 65-114 101-151 (324)
179 PF10083 DUF2321: Uncharacteri 47.0 11 0.00023 27.2 1.1 24 89-115 28-51 (158)
180 PF13901 DUF4206: Domain of un 47.0 13 0.00027 27.9 1.6 38 68-110 151-196 (202)
181 KOG1829|consensus 46.7 7.3 0.00016 33.9 0.3 39 68-109 510-556 (580)
182 COG0068 HypF Hydrogenase matur 46.3 20 0.00043 32.1 2.8 50 66-115 98-185 (750)
183 PF09723 Zn-ribbon_8: Zinc rib 46.2 4 8.6E-05 22.5 -0.9 25 86-111 10-34 (42)
184 KOG2789|consensus 46.0 10 0.00022 31.5 0.9 33 68-100 73-107 (482)
185 PF02318 FYVE_2: FYVE-type zin 45.8 9.7 0.00021 25.9 0.8 43 69-111 54-102 (118)
186 COG4647 AcxC Acetone carboxyla 45.4 10 0.00023 26.5 0.8 21 74-94 62-82 (165)
187 KOG0801|consensus 45.4 6.5 0.00014 28.6 -0.2 23 70-92 178-203 (205)
188 smart00154 ZnF_AN1 AN1-like Zi 45.0 14 0.0003 20.0 1.2 22 72-93 1-24 (39)
189 PF15616 TerY-C: TerY-C metal 45.0 9.8 0.00021 26.6 0.7 45 63-113 71-115 (131)
190 PF14311 DUF4379: Domain of un 44.8 13 0.00028 21.5 1.1 15 68-82 27-41 (55)
191 TIGR00143 hypF [NiFe] hydrogen 43.5 14 0.0003 33.1 1.5 48 67-114 66-151 (711)
192 PF06676 DUF1178: Protein of u 42.7 10 0.00022 27.1 0.5 23 86-113 9-42 (148)
193 PF07503 zf-HYPF: HypF finger; 42.1 29 0.00063 18.4 2.1 23 92-114 2-32 (35)
194 PRK01343 zinc-binding protein; 39.4 19 0.0004 21.5 1.2 12 103-114 9-20 (57)
195 PF05502 Dynactin_p62: Dynacti 38.5 12 0.00026 31.9 0.4 11 105-115 88-98 (483)
196 PF12773 DZR: Double zinc ribb 37.7 27 0.00059 19.5 1.7 27 90-116 13-42 (50)
197 COG4306 Uncharacterized protei 37.4 19 0.00041 25.1 1.1 21 91-114 30-50 (160)
198 PLN02436 cellulose synthase A 37.0 25 0.00055 32.9 2.2 45 70-114 37-89 (1094)
199 PLN02189 cellulose synthase 36.7 27 0.00058 32.7 2.3 45 70-114 35-87 (1040)
200 KOG1701|consensus 36.6 5 0.00011 33.5 -2.1 12 104-115 361-372 (468)
201 COG1592 Rubrerythrin [Energy p 36.0 23 0.00049 25.8 1.4 10 103-112 149-158 (166)
202 PF13719 zinc_ribbon_5: zinc-r 35.7 25 0.00054 18.7 1.3 13 70-82 3-15 (37)
203 PF10186 Atg14: UV radiation r 35.4 25 0.00055 27.2 1.7 22 71-100 1-22 (302)
204 KOG2231|consensus 35.3 26 0.00057 31.1 1.9 45 71-115 2-53 (669)
205 PRK05978 hypothetical protein; 33.7 29 0.00063 24.8 1.6 34 70-118 34-67 (148)
206 PF01485 IBR: IBR domain; Int 33.7 3.8 8.3E-05 24.0 -2.5 32 70-101 19-60 (64)
207 COG3058 FdhE Uncharacterized p 33.6 21 0.00046 28.3 1.0 43 69-111 185-233 (308)
208 PF09538 FYDLN_acid: Protein o 33.4 28 0.0006 23.5 1.4 13 104-116 27-39 (108)
209 KOG1815|consensus 33.3 19 0.00041 30.3 0.7 21 81-101 178-198 (444)
210 PF06869 DUF1258: Protein of u 33.1 38 0.00081 26.5 2.3 45 88-135 17-61 (258)
211 PRK06393 rpoE DNA-directed RNA 32.3 29 0.00063 21.2 1.2 20 92-113 8-27 (64)
212 PF03119 DNA_ligase_ZBD: NAD-d 32.2 16 0.00035 18.3 0.1 10 105-114 1-10 (28)
213 KOG2593|consensus 32.0 49 0.0011 27.8 2.9 68 66-142 125-200 (436)
214 COG4357 Zinc finger domain con 32.0 24 0.00051 23.4 0.9 26 91-116 64-93 (105)
215 PRK11088 rrmA 23S rRNA methylt 31.9 26 0.00057 27.1 1.3 22 70-91 3-27 (272)
216 PF00628 PHD: PHD-finger; Int 31.5 15 0.00032 20.6 -0.1 40 71-110 1-49 (51)
217 COG5242 TFB4 RNA polymerase II 31.4 28 0.0006 26.9 1.3 16 67-82 258-273 (296)
218 COG4098 comFA Superfamily II D 30.5 19 0.00041 29.7 0.3 30 68-97 38-68 (441)
219 PF10013 DUF2256: Uncharacteri 30.2 29 0.00062 19.3 0.9 16 103-118 8-23 (42)
220 PF13717 zinc_ribbon_4: zinc-r 30.0 29 0.00064 18.3 0.9 11 70-80 3-13 (36)
221 KOG0802|consensus 29.8 36 0.00078 29.4 1.9 47 68-118 478-524 (543)
222 COG4068 Uncharacterized protei 29.7 1.3E+02 0.0028 18.0 3.7 18 103-120 8-25 (64)
223 PRK00418 DNA gyrase inhibitor; 29.5 29 0.00063 21.0 0.9 12 103-114 6-17 (62)
224 KOG2113|consensus 29.1 16 0.00035 29.5 -0.3 51 66-116 133-185 (394)
225 PLN02638 cellulose synthase A 28.1 45 0.00097 31.4 2.2 45 70-114 18-70 (1079)
226 COG3024 Uncharacterized protei 27.5 33 0.00072 20.9 0.9 14 103-116 7-20 (65)
227 PF01428 zf-AN1: AN1-like Zinc 27.3 32 0.00069 18.8 0.8 21 75-95 6-27 (43)
228 smart00531 TFIIE Transcription 27.1 42 0.0009 23.6 1.6 16 103-118 123-138 (147)
229 COG5151 SSL1 RNA polymerase II 27.0 31 0.00067 27.9 0.9 23 87-109 394-416 (421)
230 COG2816 NPY1 NTP pyrophosphohy 27.0 16 0.00036 28.8 -0.6 28 86-113 108-139 (279)
231 KOG2066|consensus 26.8 22 0.00047 32.1 0.0 41 69-110 784-831 (846)
232 PF09237 GAGA: GAGA factor; I 26.4 20 0.00043 20.9 -0.2 13 103-115 24-36 (54)
233 PF00096 zf-C2H2: Zinc finger, 26.2 22 0.00049 16.1 0.0 13 105-117 2-14 (23)
234 PF06827 zf-FPG_IleRS: Zinc fi 26.1 19 0.00042 18.0 -0.3 25 71-95 3-27 (30)
235 KOG3726|consensus 25.5 35 0.00076 30.3 1.1 38 70-110 655-696 (717)
236 PF14205 Cys_rich_KTR: Cystein 25.3 30 0.00066 20.4 0.5 9 69-77 4-12 (55)
237 PRK08351 DNA-directed RNA poly 25.2 44 0.00095 20.2 1.2 20 92-113 6-25 (61)
238 COG5627 MMS21 DNA repair prote 25.1 34 0.00074 26.5 0.8 50 69-118 189-243 (275)
239 COG2093 DNA-directed RNA polym 25.1 29 0.00063 21.1 0.3 21 92-112 7-27 (64)
240 PF13824 zf-Mss51: Zinc-finger 25.0 46 0.00099 19.6 1.2 36 103-139 14-49 (55)
241 PF13834 DUF4193: Domain of un 24.7 29 0.00062 23.1 0.3 32 64-95 65-98 (99)
242 PF13894 zf-C2H2_4: C2H2-type 24.3 30 0.00065 15.3 0.3 12 105-116 2-13 (24)
243 PLN02915 cellulose synthase A 23.9 87 0.0019 29.5 3.3 46 69-114 15-68 (1044)
244 KOG1356|consensus 23.6 32 0.00068 31.4 0.5 33 68-100 228-262 (889)
245 PLN02195 cellulose synthase A 22.5 65 0.0014 30.0 2.2 47 70-116 7-61 (977)
246 PF08882 Acetone_carb_G: Aceto 22.3 45 0.00097 22.7 0.9 12 83-94 25-36 (112)
247 PLN02248 cellulose synthase-li 22.0 75 0.0016 30.1 2.5 30 86-115 149-178 (1135)
248 smart00290 ZnF_UBP Ubiquitin C 22.0 55 0.0012 18.1 1.1 23 72-94 2-24 (50)
249 KOG4621|consensus 21.9 30 0.00065 24.3 0.0 34 65-98 77-112 (167)
250 PF03884 DUF329: Domain of unk 21.7 24 0.00053 20.9 -0.4 12 104-115 3-14 (57)
251 TIGR01206 lysW lysine biosynth 21.7 39 0.00084 19.8 0.4 12 104-115 3-14 (54)
252 PLN02400 cellulose synthase 21.6 55 0.0012 30.8 1.6 45 70-114 37-89 (1085)
253 TIGR00100 hypA hydrogenase nic 21.6 19 0.00041 24.4 -1.1 10 103-112 86-95 (115)
254 KOG4218|consensus 21.6 68 0.0015 26.4 1.9 14 68-81 14-27 (475)
255 PF06750 DiS_P_DiS: Bacterial 21.3 62 0.0013 21.0 1.4 16 103-118 58-73 (92)
256 KOG1842|consensus 21.2 31 0.00067 29.2 -0.1 33 67-99 178-214 (505)
257 PF12132 DUF3587: Protein of u 20.8 62 0.0013 24.3 1.5 23 79-101 151-177 (199)
258 PF13453 zf-TFIIB: Transcripti 20.7 39 0.00084 18.2 0.3 11 105-115 1-11 (41)
259 KOG3475|consensus 20.6 44 0.00095 21.5 0.5 28 88-115 15-43 (92)
260 KOG4080|consensus 20.5 69 0.0015 23.4 1.6 28 67-101 91-118 (176)
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=99.51 E-value=1.4e-14 Score=88.89 Aligned_cols=61 Identities=20% Similarity=0.360 Sum_probs=52.4
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHH
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINK 133 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~ 133 (156)
++.||||.+.+.+|+.++|||+||+.||.+|+.....||.|+.++...+++ .|..+++.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~----~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI----PNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce----eCHHHHHHHH
Confidence 367999999999999999999999999999998888999999999888884 4455555544
No 2
>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=99.48 E-value=3.9e-14 Score=89.71 Aligned_cols=69 Identities=20% Similarity=0.433 Sum_probs=56.8
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHHHhcC-CCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhc
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGILATTCIEKRLKAINKTFELID 139 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~ 139 (156)
.+.+.|||+.+++.+||++++||+|++.+|..|+.. ...||.|+.++...++ .+|..|++.++.|....
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l----~pn~~Lk~~I~~~~~~~ 71 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL----IPNRALKSAIEEWCAEN 71 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS----EE-HHHHHHHHHHHHHC
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc----eECHHHHHHHHHHHHHc
Confidence 468999999999999999999999999999999998 8999999999999888 67788888888887654
No 3
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.46 E-value=3.9e-14 Score=80.19 Aligned_cols=38 Identities=45% Similarity=1.078 Sum_probs=30.7
Q ss_pred cccccccccccEEcccCCcchHHhHHHHhcCC----CCCccc
Q psy2479 72 CILCRSTIWKPVTTPCGHSYCWMCLDRCLDYS----SSCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~----~~CP~C 109 (156)
|+||+++|.+|++++|||+||..||..|.... ..||.|
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 89999999999999999999999999999762 479987
No 4
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.45 E-value=7.5e-14 Score=113.21 Aligned_cols=71 Identities=25% Similarity=0.650 Sum_probs=61.1
Q ss_pred ccCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHH
Q psy2479 63 TRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFEL 137 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~ 137 (156)
...+...+.|+||.+.|.+|++++|||+||..|+..|+.....||.|+..+....+ ..|..|.+|++.|..
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L----r~N~~L~~iVe~~~~ 90 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL----RSNWLVSEIVESFKN 90 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccC----ccchHHHHHHHHHHH
Confidence 45677889999999999999999999999999999999888899999999887666 556777777777754
No 5
>KOG0287|consensus
Probab=99.39 E-value=2.4e-13 Score=106.58 Aligned_cols=71 Identities=24% Similarity=0.651 Sum_probs=64.0
Q ss_pred ccCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHH
Q psy2479 63 TRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFEL 137 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~ 137 (156)
...+..-+.|.||.++|.-|+++||||+||.-||..++.....||.|+.++..-.+ .-|+.+..|++.|..
T Consensus 17 lk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L----r~n~il~Eiv~S~~~ 87 (442)
T KOG0287|consen 17 LKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL----RNNRILDEIVKSLNF 87 (442)
T ss_pred hhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhh----hhhhHHHHHHHHHHH
Confidence 45566778999999999999999999999999999999999999999999998888 778888888887754
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.39 E-value=3.1e-13 Score=99.36 Aligned_cols=54 Identities=33% Similarity=0.989 Sum_probs=46.9
Q ss_pred CCcccccccccccccccEEcccCCcchHHhHHHHhcC----------------CCCCcccccCCcCCCcc
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY----------------SSSCPLCKTSLADVGIL 119 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~----------------~~~CP~Cr~~~~~~~~~ 119 (156)
..+.+.|+||++.+.+|++++|||.||..||..|+.. ...||.||..+....++
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 3457899999999999999999999999999999742 35899999999877764
No 7
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.33 E-value=6.6e-13 Score=73.99 Aligned_cols=38 Identities=42% Similarity=1.219 Sum_probs=33.9
Q ss_pred ccccccccccc-EEcccCCcchHHhHHHHhcCCCCCccc
Q psy2479 72 CILCRSTIWKP-VTTPCGHSYCWMCLDRCLDYSSSCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~p-v~~~CgH~fC~~Ci~~~~~~~~~CP~C 109 (156)
|+||.+.+.+| +.++|||+||..|+.+|+.....||.|
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 89999999999 678999999999999999888999987
No 8
>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=99.31 E-value=8.4e-13 Score=77.51 Aligned_cols=47 Identities=32% Similarity=0.839 Sum_probs=42.0
Q ss_pred ccccccccccccccEEcccCCc-chHHhHHHHhcCCCCCcccccCCcC
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHS-YCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
+..|.||++...+++.+||||. ||..|+..|+.....||+||.++..
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 5789999999999999999999 9999999999999999999998853
No 9
>KOG0823|consensus
Probab=99.31 E-value=1.7e-12 Score=97.20 Aligned_cols=58 Identities=36% Similarity=0.816 Sum_probs=50.4
Q ss_pred CCCcccccccccccccccEEcccCCcchHHhHHHHhcC---CCCCcccccCCcCCCccccH
Q psy2479 65 ADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY---SSSCPLCKTSLADVGILATT 122 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~~~~~~~~~ 122 (156)
.....+.|.||++.-++||++.|||.||..||.+|+.. ...||+|+..++...+++-+
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY 103 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY 103 (230)
T ss_pred CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence 34567999999999999999999999999999999976 57889999999888775433
No 10
>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=99.29 E-value=8.1e-13 Score=75.54 Aligned_cols=40 Identities=33% Similarity=0.907 Sum_probs=35.2
Q ss_pred ccccccccccc---cEEcccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 71 DCILCRSTIWK---PVTTPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 71 ~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
.|+||++.+.. .+.++|||.||..|+.+|+....+||+||
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 59999999963 46789999999999999999999999997
No 11
>KOG0317|consensus
Probab=99.28 E-value=2.8e-12 Score=98.66 Aligned_cols=53 Identities=30% Similarity=0.833 Sum_probs=48.4
Q ss_pred CCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
......|.+|++...+|.-+||||.||..||..|......||.||..+....+
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 34568999999999999999999999999999999999999999999987665
No 12
>KOG0320|consensus
Probab=99.24 E-value=2.8e-12 Score=92.43 Aligned_cols=52 Identities=27% Similarity=0.851 Sum_probs=46.2
Q ss_pred cccccccccccccc--cEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCcc
Q psy2479 68 SDFDCILCRSTIWK--PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGIL 119 (156)
Q Consensus 68 ~~~~C~IC~~~~~~--pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 119 (156)
..+.||||++.+.. |+.+.|||+||..||...+.....||.|++.+..+..+
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence 45899999999987 45689999999999999999999999999998887763
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=7.3e-12 Score=95.48 Aligned_cols=51 Identities=27% Similarity=0.822 Sum_probs=42.9
Q ss_pred CCccccccccccccccc--------EEcccCCcchHHhHHHHhcCCCCCcccccCCcCC
Q psy2479 66 DSSDFDCILCRSTIWKP--------VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~p--------v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~ 116 (156)
...+..|+||++.+.++ +.++|||.||..||.+|+....+||+||.++...
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v 229 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISV 229 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEE
Confidence 34568999999987653 4568999999999999999999999999987643
No 14
>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=99.16 E-value=1.7e-11 Score=68.88 Aligned_cols=38 Identities=47% Similarity=1.124 Sum_probs=35.3
Q ss_pred cccccccccccE-EcccCCcchHHhHHHHhc--CCCCCccc
Q psy2479 72 CILCRSTIWKPV-TTPCGHSYCWMCLDRCLD--YSSSCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~pv-~~~CgH~fC~~Ci~~~~~--~~~~CP~C 109 (156)
|+||.+.+.+++ .++|||.||..|+.+|+. ....||.|
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 899999999998 889999999999999998 47889987
No 15
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.13 E-value=2.7e-11 Score=93.45 Aligned_cols=56 Identities=29% Similarity=0.758 Sum_probs=49.4
Q ss_pred ccCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 63 TRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.+-+...+.|-||...+..|+.++|||+||.-||..++..+..||.||.......+
T Consensus 19 L~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl 74 (391)
T COG5432 19 LKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL 74 (391)
T ss_pred hhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence 44556678999999999999999999999999999999999999999998755444
No 16
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.13 E-value=2e-11 Score=74.02 Aligned_cols=60 Identities=28% Similarity=0.701 Sum_probs=33.9
Q ss_pred CcccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHH
Q psy2479 67 SSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAIN 132 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 132 (156)
.+-+.|++|...+..||.+ .|.|.||..|+...+. ..||+|+.+....+. ..|+.+++|+
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~----~~NrqLd~~i 65 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDI----QINRQLDSMI 65 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--------HHHHHHH
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHH----HhhhhhhccC
Confidence 3457899999999999865 8999999999977554 469999999988888 8899988875
No 17
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.09 E-value=4.1e-11 Score=67.89 Aligned_cols=35 Identities=34% Similarity=0.977 Sum_probs=22.5
Q ss_pred cccccccccc----cEEcccCCcchHHhHHHHhcC----CCCCc
Q psy2479 72 CILCRSTIWK----PVTTPCGHSYCWMCLDRCLDY----SSSCP 107 (156)
Q Consensus 72 C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~----~~~CP 107 (156)
||||.+ +.+ |+.|+|||+||..|++++... .++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 888 899999999999999999874 45666
No 18
>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=99.07 E-value=1.1e-10 Score=65.98 Aligned_cols=43 Identities=37% Similarity=1.063 Sum_probs=37.2
Q ss_pred ccccccccccccEEcc-cCCcchHHhHHHHhcC-CCCCcccccCC
Q psy2479 71 DCILCRSTIWKPVTTP-CGHSYCWMCLDRCLDY-SSSCPLCKTSL 113 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~ 113 (156)
.|+||.+.+.+++.++ |||.||..|+..|+.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999997776664 9999999999999987 78899998753
No 19
>KOG0978|consensus
Probab=99.05 E-value=4.2e-11 Score=102.38 Aligned_cols=85 Identities=20% Similarity=0.473 Sum_probs=62.8
Q ss_pred hHHHHHHHHHHHhhccCcCCC--CCcccccccCCCcccccccccccccccEEcccCCcchHHhHHHHhcC-CCCCccccc
Q psy2479 35 PVLLTRILTEVDKLKNTEFQP--SSLKIDLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-SSSCPLCKT 111 (156)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~ 111 (156)
.+.++.+...+...+...... ..........+..-+.||+|...+.+.|++.|||.||..|+++.+.. .+.||.|+.
T Consensus 607 eEE~e~L~~kle~~k~~~~~~s~d~~L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~ 686 (698)
T KOG0978|consen 607 EEELERLKRKLERLKKEESGASADEVLAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNA 686 (698)
T ss_pred HHHHHHHHHHHHHhccccccccccHHHHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCC
Confidence 333444444444444444321 22333445667788999999999999999999999999999999865 799999999
Q ss_pred CCcCCCcc
Q psy2479 112 SLADVGIL 119 (156)
Q Consensus 112 ~~~~~~~~ 119 (156)
+|+..+++
T Consensus 687 aFganDv~ 694 (698)
T KOG0978|consen 687 AFGANDVH 694 (698)
T ss_pred CCCccccc
Confidence 99998874
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.01 E-value=2.3e-10 Score=65.29 Aligned_cols=41 Identities=34% Similarity=0.909 Sum_probs=35.3
Q ss_pred ccccccccc---cccEEcccCCcchHHhHHHHhcCCCCCccccc
Q psy2479 71 DCILCRSTI---WKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 71 ~C~IC~~~~---~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~ 111 (156)
.|++|.+.+ ..+.+++|||+||..|+..+......||+||+
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 489999999 24678899999999999998866789999974
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.95 E-value=6e-10 Score=60.79 Aligned_cols=38 Identities=37% Similarity=1.142 Sum_probs=34.5
Q ss_pred cccccccccccEEcccCCcchHHhHHHHhc-CCCCCccc
Q psy2479 72 CILCRSTIWKPVTTPCGHSYCWMCLDRCLD-YSSSCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~-~~~~CP~C 109 (156)
|+||.+....++.++|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988899999999999999999998 56789987
No 22
>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=98.93 E-value=6.7e-10 Score=70.22 Aligned_cols=40 Identities=38% Similarity=1.101 Sum_probs=33.5
Q ss_pred cccccccccccc-------------EEcccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 71 DCILCRSTIWKP-------------VTTPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 71 ~C~IC~~~~~~p-------------v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
.|+||++.+.++ +..+|||.||..||.+|+....+||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 499999998432 3348999999999999999999999997
No 23
>PHA02926 zinc finger-like protein; Provisional
Probab=98.92 E-value=4.3e-10 Score=83.99 Aligned_cols=51 Identities=24% Similarity=0.707 Sum_probs=40.8
Q ss_pred cCCCcccccccccccccc---------cEEcccCCcchHHhHHHHhcC------CCCCcccccCCc
Q psy2479 64 RADSSDFDCILCRSTIWK---------PVTTPCGHSYCWMCLDRCLDY------SSSCPLCKTSLA 114 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~---------pv~~~CgH~fC~~Ci~~~~~~------~~~CP~Cr~~~~ 114 (156)
...+.+..|+||++...+ ++..+|+|.||..||..|... ...||.||..+.
T Consensus 165 ~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 165 YRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred HhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 345567899999998643 345699999999999999974 256999999875
No 24
>KOG2177|consensus
Probab=98.88 E-value=1.4e-09 Score=84.21 Aligned_cols=72 Identities=25% Similarity=0.618 Sum_probs=58.5
Q ss_pred cCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhccc
Q psy2479 64 RADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFELIDQS 141 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~~~ 141 (156)
....+.+.|+||++.|.+|++++|||+||..|+..++.....||.||. ... .. ..|..+.++++.+......
T Consensus 8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~----~~n~~l~~~~~~~~~~~~~ 79 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-NL----RPNVLLANLVERLRQLRLS 79 (386)
T ss_pred hhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-chh-cc----CccHHHHHHHHHHHhcCCc
Confidence 345567899999999999988999999999999998876689999995 322 33 4688888888888776544
No 25
>KOG4628|consensus
Probab=98.86 E-value=1.1e-09 Score=87.36 Aligned_cols=47 Identities=28% Similarity=0.643 Sum_probs=40.4
Q ss_pred ccccccccccccc---EEcccCCcchHHhHHHHhcCC-CCCcccccCCcCC
Q psy2479 70 FDCILCRSTIWKP---VTTPCGHSYCWMCLDRCLDYS-SSCPLCKTSLADV 116 (156)
Q Consensus 70 ~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~-~~CP~Cr~~~~~~ 116 (156)
..|+||++.|... ..|||+|.||..||++|+... ..||+|+..+...
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 5899999999986 568999999999999999886 4599998876443
No 26
>KOG2660|consensus
Probab=98.83 E-value=1.2e-09 Score=85.65 Aligned_cols=72 Identities=22% Similarity=0.490 Sum_probs=59.2
Q ss_pred cCCCcccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHH
Q psy2479 64 RADSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTF 135 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~ 135 (156)
..+...+.|.+|..+|.++.++ -|-|+||.+||.+++.....||.|+..+.....+.+....+.|+.|+..+
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKL 82 (331)
T ss_pred hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHH
Confidence 3455678999999999999766 69999999999999999999999999987776555556666666666655
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2.4e-09 Score=81.76 Aligned_cols=52 Identities=33% Similarity=0.770 Sum_probs=44.6
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHH-HhcCCCC-CcccccCCcCCCc
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDR-CLDYSSS-CPLCKTSLADVGI 118 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~-~~~~~~~-CP~Cr~~~~~~~~ 118 (156)
..+..|+||.+....|..++|||.||..||.. |-..... ||.||+.+.....
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 34788999999999999999999999999998 7766554 9999998766554
No 28
>KOG2164|consensus
Probab=98.79 E-value=2.5e-09 Score=88.17 Aligned_cols=52 Identities=33% Similarity=0.853 Sum_probs=46.1
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcC-----CCCCcccccCCcCCCccc
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-----SSSCPLCKTSLADVGILA 120 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-----~~~CP~Cr~~~~~~~~~~ 120 (156)
+..||||++...-|+.+.|||.||..||..++.. ...||+|+..+..+++++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 7899999999999999999999999999988865 369999999998876643
No 29
>KOG4159|consensus
Probab=98.76 E-value=8.6e-09 Score=83.99 Aligned_cols=74 Identities=36% Similarity=0.855 Sum_probs=59.9
Q ss_pred cCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHH-HHHHHHHHHHHHHH
Q psy2479 64 RADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTC-IEKRLKAINKTFEL 137 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~-~n~~l~~l~~~~~~ 137 (156)
..+..++.|.||...+..|+++||||+||..||...+.....||.||..+.......... +|+.+..++..|..
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~ 153 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLE 153 (398)
T ss_pred ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhh
Confidence 445788999999999999999999999999999998888899999999998755532222 26666677776644
No 30
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=1.5e-08 Score=80.79 Aligned_cols=48 Identities=31% Similarity=0.877 Sum_probs=41.4
Q ss_pred CCcccccccccccccc-------------cEEcccCCcchHHhHHHHhcCCCCCcccccCC
Q psy2479 66 DSSDFDCILCRSTIWK-------------PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~-------------pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
-.++..|.||.+.+.. |-.+||||.||..|++.|...+.+||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4457899999998543 25789999999999999999999999999985
No 31
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=1.8e-08 Score=78.39 Aligned_cols=48 Identities=31% Similarity=0.763 Sum_probs=41.5
Q ss_pred ccccccccccccccc---EEcccCCcchHHhHHHHhcC-CCCCcccccCCcC
Q psy2479 68 SDFDCILCRSTIWKP---VTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLAD 115 (156)
Q Consensus 68 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~ 115 (156)
....|+||+..|... +.+||.|.||..|+.+|+.. +..||+||.++..
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 347899999999764 67899999999999999984 7899999998754
No 32
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.63 E-value=4e-08 Score=77.36 Aligned_cols=58 Identities=34% Similarity=0.726 Sum_probs=42.8
Q ss_pred cccccccccc-ccccE----EcccCCcchHHhHHHHhcC-CCCCcccccCCcCCC----ccccHHHHH
Q psy2479 69 DFDCILCRST-IWKPV----TTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVG----ILATTCIEK 126 (156)
Q Consensus 69 ~~~C~IC~~~-~~~pv----~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~----~~~~~~~n~ 126 (156)
+..||+|... +.+|. +.+|||.||..|+...+.. ...||.|+.++.... .+.+..+.+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D~~vek 70 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFEDPTVEK 70 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccccccccHHHHH
Confidence 4579999874 44442 2279999999999997644 679999999987776 455555443
No 33
>KOG0802|consensus
Probab=98.60 E-value=1.7e-08 Score=85.93 Aligned_cols=52 Identities=35% Similarity=0.720 Sum_probs=45.1
Q ss_pred CCcccccccccccccc-----cEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCC
Q psy2479 66 DSSDFDCILCRSTIWK-----PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVG 117 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~ 117 (156)
...+..|+||.+.+.. |..++|||.||..|+..|+....+||.||..+....
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYV 344 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence 3457899999999998 788999999999999999999999999999554433
No 34
>KOG0311|consensus
Probab=98.58 E-value=1.2e-08 Score=80.73 Aligned_cols=68 Identities=24% Similarity=0.497 Sum_probs=51.8
Q ss_pred CCCcccccccccccccccEEc-ccCCcchHHhHHHHhcC-CCCCcccccCCcCCCc-cccHHHHHHHHHHH
Q psy2479 65 ADSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGI-LATTCIEKRLKAIN 132 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~-~~~~~~n~~l~~l~ 132 (156)
.+..++.|+||+.++...+++ .|+|.||..||...+.. ...||.||+.+.++-- ..++.+..++.+|.
T Consensus 39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~ 109 (381)
T KOG0311|consen 39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIY 109 (381)
T ss_pred HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHh
Confidence 455689999999999999887 49999999999888866 6899999999865443 33444444444443
No 35
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.58 E-value=4.6e-08 Score=62.91 Aligned_cols=47 Identities=26% Similarity=0.666 Sum_probs=37.5
Q ss_pred cccccccccccccc------------cEEc-ccCCcchHHhHHHHhcC---CCCCcccccCCc
Q psy2479 68 SDFDCILCRSTIWK------------PVTT-PCGHSYCWMCLDRCLDY---SSSCPLCKTSLA 114 (156)
Q Consensus 68 ~~~~C~IC~~~~~~------------pv~~-~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~ 114 (156)
.+-.|.||+..|.. |+.. .|+|.||..||.+|+.. ...||+||.++.
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 36678888887762 3333 79999999999999985 479999998764
No 36
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.53 E-value=1.2e-07 Score=73.86 Aligned_cols=73 Identities=22% Similarity=0.453 Sum_probs=55.1
Q ss_pred cccccccccccccEEc-ccCCcchHHhHHHHhcC-CCCCccccc-CCcCCCccccHHHHHHHHHHHHHHHHhcccc
Q psy2479 70 FDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDY-SSSCPLCKT-SLADVGILATTCIEKRLKAINKTFELIDQSE 142 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~-~~~CP~Cr~-~~~~~~~~~~~~~n~~l~~l~~~~~~~~~~~ 142 (156)
+.|+.|..++.+|+.+ .|||+||..||...+.. .+.||.|.. .+.-..+.++......+++.++..+...+.+
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lkkq~~~~gts 350 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALKKQRKKVGTS 350 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHHHHHHHHhcCCC
Confidence 8999999999999999 59999999999988865 699999944 3444455556666666766666555444433
No 37
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.51 E-value=8.6e-08 Score=70.57 Aligned_cols=50 Identities=30% Similarity=0.641 Sum_probs=44.4
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.+.|.||.+.|..||.+.|||.||..|..........|-+|.+......-
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~ 245 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFW 245 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhcccee
Confidence 47899999999999999999999999999888889999999887654443
No 38
>KOG1813|consensus
Probab=98.36 E-value=2.4e-07 Score=71.97 Aligned_cols=50 Identities=28% Similarity=0.731 Sum_probs=44.4
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.+.|-||...|.+||++.|||+||..|....+.....|++|.+......-
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~ 290 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFN 290 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCCcceecccccccccc
Confidence 46799999999999999999999999999888888999999887755444
No 39
>KOG0824|consensus
Probab=98.30 E-value=2.5e-07 Score=72.02 Aligned_cols=49 Identities=22% Similarity=0.659 Sum_probs=43.6
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcC-CCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~ 118 (156)
-.|+||+....-|+.++|+|.||.-||...... ..+|++||.+|.+.-.
T Consensus 8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 469999999999999999999999999888766 5679999999977665
No 40
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.21 E-value=6.6e-07 Score=53.72 Aligned_cols=42 Identities=21% Similarity=0.545 Sum_probs=30.2
Q ss_pred CcccccccccccccccEEc-ccCCcchHHhHHHHhcC--CCCCcc
Q psy2479 67 SSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDY--SSSCPL 108 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~--~~~CP~ 108 (156)
...+.|||....|.+||.. .|||+|.+..|.+++.. ...||.
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 3468999999999999875 89999999999999943 679998
No 41
>KOG4265|consensus
Probab=98.16 E-value=1e-06 Score=70.16 Aligned_cols=52 Identities=25% Similarity=0.636 Sum_probs=45.3
Q ss_pred CcccccccccccccccEEcccCCc-chHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHS-YCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
...-.|-||+....+-+++||.|. .|..|.+....++.+||+||.++.....
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE 340 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence 346789999999999999999997 9999998888778999999999865443
No 42
>KOG2879|consensus
Probab=98.14 E-value=2e-06 Score=66.29 Aligned_cols=51 Identities=31% Similarity=0.793 Sum_probs=43.0
Q ss_pred cCCCcccccccccccccccEEc-ccCCcchHHhHHHHhcC--CCCCcccccCCc
Q psy2479 64 RADSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDY--SSSCPLCKTSLA 114 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~ 114 (156)
+....+.+|++|.+.-..|.+. +|||.||..|+...... +++||.|+.+..
T Consensus 234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3445678999999999999765 69999999999988865 699999988765
No 43
>KOG0297|consensus
Probab=98.10 E-value=2.6e-06 Score=69.86 Aligned_cols=56 Identities=32% Similarity=0.753 Sum_probs=49.2
Q ss_pred CCCcccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCCcCCCccc
Q psy2479 65 ADSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILA 120 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~ 120 (156)
...+.+.|++|...+.+|+.+ .|||.||..|+..|+.....||.|+..+.....++
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 367789999999999999984 99999999999999998999999988876666643
No 44
>KOG1002|consensus
Probab=97.98 E-value=3.8e-06 Score=70.06 Aligned_cols=54 Identities=20% Similarity=0.660 Sum_probs=45.3
Q ss_pred CCCcccccccccccccccEEcccCCcchHHhHHHHhcC-----CCCCcccccCCcCCCc
Q psy2479 65 ADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-----SSSCPLCKTSLADVGI 118 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-----~~~CP~Cr~~~~~~~~ 118 (156)
+......|.+|.+.-.+++.+.|.|+||+.|+.++... ..+||.|...++-...
T Consensus 532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 34456789999999999999999999999999888764 5799999887755433
No 45
>KOG4172|consensus
Probab=97.97 E-value=1.4e-06 Score=51.07 Aligned_cols=46 Identities=26% Similarity=0.708 Sum_probs=39.4
Q ss_pred ccccccccccccccEEcccCCc-chHHhHHHHhcC-CCCCcccccCCc
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHS-YCWMCLDRCLDY-SSSCPLCKTSLA 114 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~-~~~CP~Cr~~~~ 114 (156)
+.+|.||.+...+.|.-.|||- +|..|-.+.++. ...||+||+++.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3679999999999888899996 899998877764 789999998763
No 46
>KOG0827|consensus
Probab=97.91 E-value=5.9e-06 Score=66.49 Aligned_cols=50 Identities=22% Similarity=0.604 Sum_probs=37.8
Q ss_pred cccccccccccccE---Ec-ccCCcchHHhHHHHhcC---CCCCcccccCCcCCCcc
Q psy2479 70 FDCILCRSTIWKPV---TT-PCGHSYCWMCLDRCLDY---SSSCPLCKTSLADVGIL 119 (156)
Q Consensus 70 ~~C~IC~~~~~~pv---~~-~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~~~~~~ 119 (156)
..|.||.+.+.... .+ .|||+|+..|+..|+.. .++||.|+..+..+..+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 46999965554432 23 59999999999999976 36999999777666664
No 47
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.91 E-value=1.4e-06 Score=54.59 Aligned_cols=47 Identities=23% Similarity=0.675 Sum_probs=24.3
Q ss_pred cccccccccccc-c---cEE----cccCCcchHHhHHHHhcC-----------CCCCcccccCCcC
Q psy2479 69 DFDCILCRSTIW-K---PVT----TPCGHSYCWMCLDRCLDY-----------SSSCPLCKTSLAD 115 (156)
Q Consensus 69 ~~~C~IC~~~~~-~---pv~----~~CgH~fC~~Ci~~~~~~-----------~~~CP~Cr~~~~~ 115 (156)
+..|+||...+. + |+. ..|++.||..|+.+|+.. ...||.|+.++..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999998765 2 322 279999999999999974 1379999988754
No 48
>KOG1734|consensus
Probab=97.85 E-value=4.5e-06 Score=64.25 Aligned_cols=48 Identities=25% Similarity=0.533 Sum_probs=38.8
Q ss_pred ccccccccccccccc----------EEcccCCcchHHhHHHHhcC--CCCCcccccCCcC
Q psy2479 68 SDFDCILCRSTIWKP----------VTTPCGHSYCWMCLDRCLDY--SSSCPLCKTSLAD 115 (156)
Q Consensus 68 ~~~~C~IC~~~~~~p----------v~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~ 115 (156)
++..|+||...+... ..++|+|+|+..||..|..- ..+||.|+..+..
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 467899998776543 46799999999999999754 6899999887644
No 49
>KOG0804|consensus
Probab=97.76 E-value=9.8e-06 Score=66.30 Aligned_cols=47 Identities=30% Similarity=0.598 Sum_probs=39.0
Q ss_pred CCcccccccccccccccE----EcccCCcchHHhHHHHhcCCCCCcccccCCc
Q psy2479 66 DSSDFDCILCRSTIWKPV----TTPCGHSYCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv----~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
..+--+||||++.+...+ ++.|.|+|+-.|+..|.. .+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 344568999999998763 568999999999999986 68999987655
No 50
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.75 E-value=3.7e-05 Score=59.86 Aligned_cols=72 Identities=21% Similarity=0.398 Sum_probs=53.7
Q ss_pred CCccccccccccccccc---E-EcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHh
Q psy2479 66 DSSDFDCILCRSTIWKP---V-TTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFELI 138 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~p---v-~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~ 138 (156)
....+.|||....|..- + ..+|||+|+..++.+.- ....||.|..+|...++++-...+..+..+.+.+...
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~ee~~~l~~~~~~~ 185 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPEEELEKLRERMEER 185 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCccHHHHHHHHHHHH
Confidence 45678999999998543 2 34999999999998874 4568999999999888865444445566666555443
No 51
>KOG1785|consensus
Probab=97.69 E-value=1.7e-05 Score=64.20 Aligned_cols=48 Identities=27% Similarity=0.667 Sum_probs=41.3
Q ss_pred ccccccccccccEEcccCCcchHHhHHHHhcC--CCCCcccccCCcCCCc
Q psy2479 71 DCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY--SSSCPLCKTSLADVGI 118 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~ 118 (156)
.|.||.+.-.+--+-||||..|..|+..|-.. ..+||.||..+.....
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 69999998888777899999999999999855 6899999988765544
No 52
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.68 E-value=3e-05 Score=45.06 Aligned_cols=40 Identities=28% Similarity=0.752 Sum_probs=31.4
Q ss_pred ccccccc--cccccEEcccC-----CcchHHhHHHHhcC--CCCCcccc
Q psy2479 71 DCILCRS--TIWKPVTTPCG-----HSYCWMCLDRCLDY--SSSCPLCK 110 (156)
Q Consensus 71 ~C~IC~~--~~~~pv~~~Cg-----H~fC~~Ci~~~~~~--~~~CP~Cr 110 (156)
.|.||+. .-.++.+.||. |.+|..|+.+|+.. ..+||+|+
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 33456778985 78999999999965 46899995
No 53
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.62 E-value=3.8e-05 Score=48.54 Aligned_cols=29 Identities=31% Similarity=0.684 Sum_probs=27.0
Q ss_pred ccCCcchHHhHHHHhcCCCCCcccccCCc
Q psy2479 86 PCGHSYCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
.|.|.|+..||.+|+.....||++|+.+.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 69999999999999999999999998764
No 54
>KOG1039|consensus
Probab=97.60 E-value=3.2e-05 Score=62.20 Aligned_cols=50 Identities=34% Similarity=0.737 Sum_probs=40.7
Q ss_pred CcccccccccccccccE-----E---cccCCcchHHhHHHHh--cC-----CCCCcccccCCcCC
Q psy2479 67 SSDFDCILCRSTIWKPV-----T---TPCGHSYCWMCLDRCL--DY-----SSSCPLCKTSLADV 116 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv-----~---~~CgH~fC~~Ci~~~~--~~-----~~~CP~Cr~~~~~~ 116 (156)
..+..|.||++...+.. . .+|.|.||..||..|- .+ .+.||.||......
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 45789999999988765 3 4699999999999999 33 58999999776443
No 55
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.53 E-value=2.5e-05 Score=69.10 Aligned_cols=84 Identities=19% Similarity=0.353 Sum_probs=52.6
Q ss_pred cCChhHHHHHHHHHHHhhccCcCCCCCccc-ccccCCCcccccccccccccc-----cEEc--ccCCcchHHhHHHHhcC
Q psy2479 31 ARKIPVLLTRILTEVDKLKNTEFQPSSLKI-DLTRADSSDFDCILCRSTIWK-----PVTT--PCGHSYCWMCLDRCLDY 102 (156)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~C~IC~~~~~~-----pv~~--~CgH~fC~~Ci~~~~~~ 102 (156)
..++++++...+....+.+..-........ .........-.|+||...+.. |-.+ .|.|-||..|+.+|++.
T Consensus 1430 E~~wkswI~~~q~~~~~~ngs~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~S 1509 (1525)
T COG5219 1430 EIGWKSWINLRQNEMIKKNGSFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS 1509 (1525)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHh
Confidence 456777776665555443332221111000 112234456689999988762 3222 59999999999999987
Q ss_pred --CCCCcccccCCc
Q psy2479 103 --SSSCPLCKTSLA 114 (156)
Q Consensus 103 --~~~CP~Cr~~~~ 114 (156)
..+||.||..++
T Consensus 1510 s~~s~CPlCRseit 1523 (1525)
T COG5219 1510 SARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCCCCCccccccc
Confidence 589999997765
No 56
>KOG1645|consensus
Probab=97.53 E-value=7.9e-05 Score=60.47 Aligned_cols=50 Identities=26% Similarity=0.637 Sum_probs=41.7
Q ss_pred cccccccccccccc-----EEcccCCcchHHhHHHHhcC--CCCCcccccCCcCCCc
Q psy2479 69 DFDCILCRSTIWKP-----VTTPCGHSYCWMCLDRCLDY--SSSCPLCKTSLADVGI 118 (156)
Q Consensus 69 ~~~C~IC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~ 118 (156)
...||||++-+.-| +.+.|||.|-..||..|+.. ...||.|.-.-..+.+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i 60 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI 60 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence 56899999999876 56789999999999999965 4799999766655555
No 57
>KOG4692|consensus
Probab=97.53 E-value=8.5e-05 Score=59.43 Aligned_cols=50 Identities=34% Similarity=0.722 Sum_probs=44.9
Q ss_pred CCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
..++..||||.---.+.|+.||+|.-|..||.+.+-+.+.|-.|+..+..
T Consensus 419 ~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 35678899999999999999999999999999999999999999887654
No 58
>KOG0828|consensus
Probab=97.47 E-value=5.5e-05 Score=62.75 Aligned_cols=50 Identities=30% Similarity=0.660 Sum_probs=39.2
Q ss_pred CCcccccccccccccc-----------------cEEcccCCcchHHhHHHHhcC-CCCCcccccCCcC
Q psy2479 66 DSSDFDCILCRSTIWK-----------------PVTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLAD 115 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~-----------------pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~ 115 (156)
.+....|+||.....- -+.+||.|.|+..|+.+|... .-.||.||.++..
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4456789999875421 244699999999999999985 4599999998854
No 59
>KOG0825|consensus
Probab=97.45 E-value=2.9e-05 Score=67.44 Aligned_cols=53 Identities=17% Similarity=0.460 Sum_probs=44.2
Q ss_pred CcccccccccccccccE---EcccCCcchHHhHHHHhcCCCCCcccccCCcCCCcc
Q psy2479 67 SSDFDCILCRSTIWKPV---TTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGIL 119 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv---~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 119 (156)
...-.|++|+.-+.+-. ..+|+|.||..|+..|.....+||+||..|....++
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 34568999988887753 348999999999999999999999999998776663
No 60
>KOG3039|consensus
Probab=97.44 E-value=0.00012 Score=55.82 Aligned_cols=52 Identities=23% Similarity=0.443 Sum_probs=46.4
Q ss_pred ccccccccccccccc----EEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCcc
Q psy2479 68 SDFDCILCRSTIWKP----VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGIL 119 (156)
Q Consensus 68 ~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 119 (156)
..+.||+|.+.+.+. +..||||+||..|+.+.......||+|..++..++++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 568999999999985 3459999999999999999899999999999998883
No 61
>KOG4367|consensus
Probab=97.41 E-value=8.3e-05 Score=61.00 Aligned_cols=36 Identities=28% Similarity=0.719 Sum_probs=32.7
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHHHhcC
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY 102 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~ 102 (156)
.+++.|+||...|.+|+++||+|..|+.|....+.+
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 457899999999999999999999999999877765
No 62
>KOG1493|consensus
Probab=97.39 E-value=3.4e-05 Score=48.36 Aligned_cols=44 Identities=25% Similarity=0.675 Sum_probs=34.8
Q ss_pred ccccccccccc------------cEEc-ccCCcchHHhHHHHhcC---CCCCcccccCCc
Q psy2479 71 DCILCRSTIWK------------PVTT-PCGHSYCWMCLDRCLDY---SSSCPLCKTSLA 114 (156)
Q Consensus 71 ~C~IC~~~~~~------------pv~~-~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~ 114 (156)
.|.||+-.|.. |.++ -|.|.|+..||.+|+.. ...||+||+.+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 78888877653 3333 59999999999999975 579999998753
No 63
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.26 E-value=0.00014 Score=42.89 Aligned_cols=47 Identities=28% Similarity=0.600 Sum_probs=36.5
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCC
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVG 117 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~ 117 (156)
...|-.|...-...+++||||..|..|..-+ ....||.|..++...+
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 4567777777777889999999999997533 3478999999886544
No 64
>KOG4185|consensus
Probab=97.17 E-value=0.00059 Score=53.85 Aligned_cols=45 Identities=27% Similarity=0.706 Sum_probs=37.6
Q ss_pred ccccccccccccc------cEEcccCCcchHHhHHHHhcC-CCCCcccccCC
Q psy2479 69 DFDCILCRSTIWK------PVTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSL 113 (156)
Q Consensus 69 ~~~C~IC~~~~~~------pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~ 113 (156)
.+.|-||.+.|.. |..+.|||+||..|+.+.+.. .-.||.||.+.
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 4679999988864 567789999999999988866 46889999984
No 65
>KOG2817|consensus
Probab=97.09 E-value=0.00077 Score=54.68 Aligned_cols=64 Identities=22% Similarity=0.368 Sum_probs=47.3
Q ss_pred hccCcCCCCCcccccccCCCcccccccccccccc---cEEcccCCcchHHhHHHHhcC---CCCCccccc
Q psy2479 48 LKNTEFQPSSLKIDLTRADSSDFDCILCRSTIWK---PVTTPCGHSYCWMCLDRCLDY---SSSCPLCKT 111 (156)
Q Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~ 111 (156)
|+..+..+.+............|.|||=.+.-.+ |+.+.|||+.+..-+.+..++ ++.||+|-.
T Consensus 313 W~~~deLPveIeL~~~~~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 313 WNTKDELPVEIELGKEYHFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ccccccCccceeccccccccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 4444444444444445566788999998776553 799999999999999988876 489999944
No 66
>KOG4275|consensus
Probab=96.91 E-value=0.00013 Score=56.95 Aligned_cols=41 Identities=29% Similarity=0.699 Sum_probs=34.6
Q ss_pred ccccccccccccccEEcccCCc-chHHhHHHHhcCCCCCcccccCC
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHS-YCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
...|.||.+...+-++|+|||- -|..|-.. ...||+||+.+
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHH
Confidence 6789999999999999999995 78888543 34899998765
No 67
>KOG1814|consensus
Probab=96.80 E-value=0.0017 Score=52.92 Aligned_cols=70 Identities=23% Similarity=0.372 Sum_probs=45.3
Q ss_pred CCccccccccccccccc---EEcccCCcchHHhHHHHhcC--------CCCCcccccCCcCCCccccHHHHHHHHHHHHH
Q psy2479 66 DSSDFDCILCRSTIWKP---VTTPCGHSYCWMCLDRCLDY--------SSSCPLCKTSLADVGILATTCIEKRLKAINKT 134 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~--------~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~ 134 (156)
...-+.|.||.+..... +.+||+|+||..|+..++.. .-+||-+...-..... .....+-..|.++
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g---~vKelvg~EL~ar 257 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPG---QVKELVGDELFAR 257 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCch---HHHHHHHHHHHHH
Confidence 34467899999987663 67899999999999988864 3478777654333322 1223333444555
Q ss_pred HHHh
Q psy2479 135 FELI 138 (156)
Q Consensus 135 ~~~~ 138 (156)
+..+
T Consensus 258 Ye~l 261 (445)
T KOG1814|consen 258 YEKL 261 (445)
T ss_pred HHHH
Confidence 4443
No 68
>KOG1941|consensus
Probab=96.73 E-value=0.00051 Score=55.73 Aligned_cols=44 Identities=32% Similarity=0.743 Sum_probs=36.2
Q ss_pred cccccccccccccc----EEcccCCcchHHhHHHHhcC--CCCCcccccC
Q psy2479 69 DFDCILCRSTIWKP----VTTPCGHSYCWMCLDRCLDY--SSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~ 112 (156)
.+.|..|.+.+--. -.+||.|.||..|+.+++.+ ..+||.||+-
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 57899999887532 34799999999999999966 5899999943
No 69
>KOG2114|consensus
Probab=96.72 E-value=0.0027 Score=55.98 Aligned_cols=40 Identities=40% Similarity=0.806 Sum_probs=34.5
Q ss_pred cccccccccccccc-EEcccCCcchHHhHHHHhcCCCCCccccc
Q psy2479 69 DFDCILCRSTIWKP-VTTPCGHSYCWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 69 ~~~C~IC~~~~~~p-v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~ 111 (156)
...|..|.-.+.-| |...|||.||..|+. .....||.|+.
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccch
Confidence 36899999999999 567999999999997 44689999966
No 70
>KOG2930|consensus
Probab=96.70 E-value=0.0009 Score=44.42 Aligned_cols=44 Identities=27% Similarity=0.697 Sum_probs=34.7
Q ss_pred cccccccccccccc---------------EEc--ccCCcchHHhHHHHhcCCCCCcccccC
Q psy2479 69 DFDCILCRSTIWKP---------------VTT--PCGHSYCWMCLDRCLDYSSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~p---------------v~~--~CgH~fC~~Ci~~~~~~~~~CP~Cr~~ 112 (156)
...|+||+..+.++ ++. .|.|.|+.-||..|++....||+|++.
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 35789998765431 111 699999999999999999999999765
No 71
>KOG1571|consensus
Probab=96.66 E-value=0.00083 Score=53.85 Aligned_cols=49 Identities=27% Similarity=0.609 Sum_probs=37.0
Q ss_pred cCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 64 RADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
.+......|.||.+...+.+.+||||.-| |..-... ...||+||..+..
T Consensus 300 ~~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIRL 348 (355)
T ss_pred cccCCCCceEEecCCccceeeecCCcEEE--chHHHhh-CCCCchhHHHHHH
Confidence 34555678999999999999999999865 6543333 3459999987643
No 72
>KOG0826|consensus
Probab=96.61 E-value=0.0015 Score=51.85 Aligned_cols=49 Identities=16% Similarity=0.395 Sum_probs=41.4
Q ss_pred CCcccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCCc
Q psy2479 66 DSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
..+...||+|..-..+|..+ .-|-+||..|+-.++.....||+-+.+..
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 34567899999999999766 46999999999999999999998866553
No 73
>KOG1001|consensus
Probab=96.50 E-value=0.00055 Score=59.79 Aligned_cols=48 Identities=29% Similarity=0.795 Sum_probs=41.0
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcC--CCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY--SSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~ 118 (156)
..|.+|.+ ...++.++|||.||..|+...+.. ...||.||..+....+
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 777899999999999999988876 3479999987765555
No 74
>KOG3002|consensus
Probab=96.47 E-value=0.0032 Score=50.00 Aligned_cols=63 Identities=22% Similarity=0.523 Sum_probs=47.9
Q ss_pred cCCCcccccccccccccccEE-cccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHH
Q psy2479 64 RADSSDFDCILCRSTIWKPVT-TPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFE 136 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~ 136 (156)
....+-+.||||.+.+..|+. -+=||.-|..|-.+ ....||.||.+++. . .++.++.+++...
T Consensus 43 ~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~--~-----R~~amEkV~e~~~ 106 (299)
T KOG3002|consen 43 LLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN--I-----RCRAMEKVAEAVL 106 (299)
T ss_pred ccchhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCcccccccc--H-----HHHHHHHHHHhce
Confidence 345567899999999999964 36799999999753 35689999999872 2 4677777776653
No 75
>KOG4739|consensus
Probab=96.44 E-value=0.00092 Score=50.91 Aligned_cols=47 Identities=32% Similarity=0.701 Sum_probs=32.2
Q ss_pred ccccccccccc-cc-EEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIW-KP-VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~-~p-v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.-|-.|...-. +| ..+.|+|+||..|..... ...||.|++++....+
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~l 52 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQL 52 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceeeeeec
Confidence 45766655433 34 346899999999975333 2389999999755544
No 76
>KOG3800|consensus
Probab=96.20 E-value=0.005 Score=48.17 Aligned_cols=48 Identities=29% Similarity=0.786 Sum_probs=35.8
Q ss_pred ccccccc-ccccc----EEcccCCcchHHhHHHHhcC-CCCCcccccCCcCCCc
Q psy2479 71 DCILCRS-TIWKP----VTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGI 118 (156)
Q Consensus 71 ~C~IC~~-~~~~p----v~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~ 118 (156)
.||+|.. .+.+| .+-+|||..|.+|+...+.. ...||-|...+.....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 4899864 34555 22399999999999988854 6899999877655444
No 77
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.17 E-value=0.0039 Score=35.90 Aligned_cols=42 Identities=26% Similarity=0.716 Sum_probs=21.3
Q ss_pred ccccccccccc--EEc--ccCCcchHHhHHHHhcC-CCCCcccccCC
Q psy2479 72 CILCRSTIWKP--VTT--PCGHSYCWMCLDRCLDY-SSSCPLCKTSL 113 (156)
Q Consensus 72 C~IC~~~~~~p--v~~--~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~ 113 (156)
||+|.+.+... .+. +||+-+|..|....+.. ...||-||.+.
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 67888777332 233 68999999999988864 79999999763
No 78
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.17 E-value=0.0058 Score=49.08 Aligned_cols=48 Identities=33% Similarity=0.852 Sum_probs=39.5
Q ss_pred CCcccccccccccccccEEcccCCcchHHhHHH--HhcCCCCCcccccCC
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDR--CLDYSSSCPLCKTSL 113 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~--~~~~~~~CP~Cr~~~ 113 (156)
..+...|.||..-+.-...+||+|..|..|... .+...+.||+||..-
T Consensus 58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 445678999999888888899999999999854 345689999998653
No 79
>KOG3970|consensus
Probab=96.04 E-value=0.0092 Score=45.22 Aligned_cols=46 Identities=24% Similarity=0.660 Sum_probs=38.0
Q ss_pred cccccccccccccc--EEcccCCcchHHhHHHHhcC--------CCCCcccccCCc
Q psy2479 69 DFDCILCRSTIWKP--VTTPCGHSYCWMCLDRCLDY--------SSSCPLCKTSLA 114 (156)
Q Consensus 69 ~~~C~IC~~~~~~p--v~~~CgH~fC~~Ci~~~~~~--------~~~CP~Cr~~~~ 114 (156)
.-.|.+|...+... +.+.|-|.|+..|+.+|-.+ .-.||.|...+-
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 45699999888764 67899999999999999875 358999987763
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=95.84 E-value=0.0028 Score=42.24 Aligned_cols=32 Identities=25% Similarity=0.687 Sum_probs=26.3
Q ss_pred CCcccccccccccccccE--EcccCCcchHHhHH
Q psy2479 66 DSSDFDCILCRSTIWKPV--TTPCGHSYCWMCLD 97 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv--~~~CgH~fC~~Ci~ 97 (156)
+.+...|++|...+.+.+ +.||||.||..|+.
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 455678999999998874 45999999999974
No 81
>KOG1940|consensus
Probab=95.70 E-value=0.0091 Score=46.74 Aligned_cols=60 Identities=20% Similarity=0.544 Sum_probs=43.4
Q ss_pred ccccccccccccc----cEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHH
Q psy2479 69 DFDCILCRSTIWK----PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKT 134 (156)
Q Consensus 69 ~~~C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~ 134 (156)
...||||.+.+.. +..++|||..+..|+.......-+||.|.+ +..... ..+.++.+++.
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~-----~~~~~d~~l~~ 221 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDMSH-----YFRKLDKELAG 221 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHHHHH-----HHHHHHHHHhc
Confidence 3449999987654 567899999999999998877799999977 433222 34555555554
No 82
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.64 E-value=0.008 Score=41.86 Aligned_cols=51 Identities=27% Similarity=0.628 Sum_probs=42.2
Q ss_pred cccccccccccccccEEc----ccCCcchHHhHHHHhcC---CCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTT----PCGHSYCWMCLDRCLDY---SSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~----~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~~~~~ 118 (156)
.-.+|.||.+...+..++ -||-..|..|-...++. ...||.|+.++.+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 457899999999998877 49999999999877765 5899999998866543
No 83
>KOG2932|consensus
Probab=95.36 E-value=0.007 Score=47.88 Aligned_cols=43 Identities=30% Similarity=0.644 Sum_probs=30.7
Q ss_pred ccccccccccccc-cEEcccCCcchHHhHHHHhcCCCCCcccccCC
Q psy2479 69 DFDCILCRSTIWK-PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 69 ~~~C~IC~~~~~~-pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
...|.-|...+.- ...+||.|+||..|.. ....+.||.|.-.+
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECAR--SDSDKICPLCDDRV 133 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhh--cCccccCcCcccHH
Confidence 4567777654433 3567999999999974 44468999996544
No 84
>KOG3113|consensus
Probab=95.28 E-value=0.024 Score=43.64 Aligned_cols=70 Identities=14% Similarity=0.297 Sum_probs=51.8
Q ss_pred CCccccccccccccccc----EEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHH
Q psy2479 66 DSSDFDCILCRSTIWKP----VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFEL 137 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~ 137 (156)
....+.|||-...|..- +..+|||+|-..-+.+.- ...|+.|++.+...+.++-+.-...++-+-.++..
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIvlNg~~E~~dllk~rme~ 181 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIVLNGTEEDVDLLKTRMEE 181 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEeeCCCHHHHHHHHHHHHH
Confidence 35568999998888765 345999999988876655 57999999999988886555545566655555533
No 85
>KOG3268|consensus
Probab=95.27 E-value=0.012 Score=43.02 Aligned_cols=33 Identities=27% Similarity=0.613 Sum_probs=27.3
Q ss_pred cccCCcchHHhHHHHhcC-----------CCCCcccccCCcCCC
Q psy2479 85 TPCGHSYCWMCLDRCLDY-----------SSSCPLCKTSLADVG 117 (156)
Q Consensus 85 ~~CgH~fC~~Ci~~~~~~-----------~~~CP~Cr~~~~~~~ 117 (156)
+.||..|+.-|+..|+.. -..||.|..++.-+.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 489999999999999985 148999998876543
No 86
>KOG0298|consensus
Probab=95.15 E-value=0.0093 Score=54.89 Aligned_cols=55 Identities=33% Similarity=0.625 Sum_probs=45.5
Q ss_pred ccCCCccccccccccccc-ccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCC
Q psy2479 63 TRADSSDFDCILCRSTIW-KPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVG 117 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~ 117 (156)
.........|+||.+.+. ...+..|||-+|..|...|+..+..||.|.....+..
T Consensus 1147 ~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~dfg 1202 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIKGDFG 1202 (1394)
T ss_pred HHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhhhhhc
Confidence 345566789999999999 5678899999999999999999999999975444433
No 87
>KOG4445|consensus
Probab=95.12 E-value=0.0072 Score=47.60 Aligned_cols=49 Identities=24% Similarity=0.680 Sum_probs=38.3
Q ss_pred CCccccccccccccccc---EEcccCCcchHHhHHHHhcC-----------------------CCCCcccccCCc
Q psy2479 66 DSSDFDCILCRSTIWKP---VTTPCGHSYCWMCLDRCLDY-----------------------SSSCPLCKTSLA 114 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~-----------------------~~~CP~Cr~~~~ 114 (156)
......|.||+.-|.+. +.++|-|.|+..|+..++.. ...||+||..+.
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 34467899999998874 45799999999999777652 237999998764
No 88
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.00 E-value=0.029 Score=31.50 Aligned_cols=38 Identities=21% Similarity=0.559 Sum_probs=23.6
Q ss_pred cccccccccccEEc---ccCCcchHHhHHHHhcCCC--CCccc
Q psy2479 72 CILCRSTIWKPVTT---PCGHSYCWMCLDRCLDYSS--SCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~~~--~CP~C 109 (156)
|.+|.++....+.= .|+-.++..|+..++.... .||.|
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 67888888887664 4998999999999998743 79987
No 89
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.93 E-value=0.027 Score=45.19 Aligned_cols=49 Identities=24% Similarity=0.588 Sum_probs=36.0
Q ss_pred ccccccccccccc--EEc--ccCCcchHHhHHHHhcC-CCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKP--VTT--PCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~p--v~~--~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~ 118 (156)
..||+|.+.+... -+. +||-..|+-|....... ...||.||.......+
T Consensus 15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 3499999977543 333 78888899998666555 6899999987665544
No 90
>KOG3161|consensus
Probab=94.77 E-value=0.012 Score=50.65 Aligned_cols=40 Identities=30% Similarity=0.683 Sum_probs=31.5
Q ss_pred CCccccccccccccc----ccEEcccCCcchHHhHHHHhcCCCCCc
Q psy2479 66 DSSDFDCILCRSTIW----KPVTTPCGHSYCWMCLDRCLDYSSSCP 107 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~----~pv~~~CgH~fC~~Ci~~~~~~~~~CP 107 (156)
+.+-+.|+||...|. .|+.+-|||+.|..|++.... .+||
T Consensus 8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 345678999977775 488999999999999986665 4566
No 91
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.48 E-value=0.033 Score=44.26 Aligned_cols=50 Identities=28% Similarity=0.388 Sum_probs=39.2
Q ss_pred cccCCCcccccccccccccc---cEEcccCCcchHHhHHHHhcC---CCCCccccc
Q psy2479 62 LTRADSSDFDCILCRSTIWK---PVTTPCGHSYCWMCLDRCLDY---SSSCPLCKT 111 (156)
Q Consensus 62 ~~~~~~~~~~C~IC~~~~~~---pv~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~ 111 (156)
.......-+.||+-.+.-.+ |+.+.|||+.-..-+....++ ++.||.|..
T Consensus 329 ~~~hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 329 KGRHFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred CcccccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 34466778999987766543 799999999999888777665 689999943
No 92
>PHA03096 p28-like protein; Provisional
Probab=94.34 E-value=0.023 Score=44.80 Aligned_cols=42 Identities=14% Similarity=0.302 Sum_probs=31.2
Q ss_pred ccccccccccccc--------EEcccCCcchHHhHHHHhcC---CCCCccccc
Q psy2479 70 FDCILCRSTIWKP--------VTTPCGHSYCWMCLDRCLDY---SSSCPLCKT 111 (156)
Q Consensus 70 ~~C~IC~~~~~~p--------v~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~ 111 (156)
-.|.||++....- +...|.|.||..|+..|... ...||.||.
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 5799999876542 23479999999999999865 456666654
No 93
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.15 E-value=0.056 Score=38.85 Aligned_cols=45 Identities=24% Similarity=0.530 Sum_probs=33.7
Q ss_pred cccccccccccccccEEcccCCc-----chHHhHHHHhcC--CCCCcccccCC
Q psy2479 68 SDFDCILCRSTIWKPVTTPCGHS-----YCWMCLDRCLDY--SSSCPLCKTSL 113 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~CgH~-----fC~~Ci~~~~~~--~~~CP~Cr~~~ 113 (156)
.+..|-||.+... +...||.-. .|..|++.|+.. ...|+.|+.++
T Consensus 7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 4568999988754 334566542 399999999976 57999998765
No 94
>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=94.01 E-value=0.03 Score=39.15 Aligned_cols=42 Identities=21% Similarity=0.400 Sum_probs=31.9
Q ss_pred ccccccccccccc--c-EEcccC------CcchHHhHHHHhcCCCCCcccc
Q psy2479 69 DFDCILCRSTIWK--P-VTTPCG------HSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 69 ~~~C~IC~~~~~~--p-v~~~Cg------H~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
...|.||.+.+.+ . |.++|| |.||..|+.+|-.....-|.=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR 76 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR 76 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence 6789999999887 5 446777 6699999999965555555544
No 95
>KOG4362|consensus
Probab=93.89 E-value=0.015 Score=50.58 Aligned_cols=52 Identities=21% Similarity=0.662 Sum_probs=42.5
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHHHhcC---CCCCcccccCCcCCCc
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY---SSSCPLCKTSLADVGI 118 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~~~~~ 118 (156)
...+.|+||...+..|+.+.|-|.||..|+...+.. ...||+|+..+.....
T Consensus 19 ~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 19 QKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 346789999999999999999999999999777654 4689999866644444
No 96
>KOG1100|consensus
Probab=93.60 E-value=0.025 Score=42.61 Aligned_cols=40 Identities=25% Similarity=0.697 Sum_probs=32.3
Q ss_pred cccccccccccEEcccCCc-chHHhHHHHhcCCCCCcccccCCcC
Q psy2479 72 CILCRSTIWKPVTTPCGHS-YCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 72 C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
|-.|.+.-...+.+||-|. +|..|-.. ...||+|+.+...
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence 9999998888778899997 99999653 3569999876543
No 97
>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=93.52 E-value=0.031 Score=42.85 Aligned_cols=46 Identities=35% Similarity=0.847 Sum_probs=34.1
Q ss_pred cccccccccc-ccccc-EE---cc-cCCcchHHhHHHHhcC-CCCCc--ccccCC
Q psy2479 68 SDFDCILCRS-TIWKP-VT---TP-CGHSYCWMCLDRCLDY-SSSCP--LCKTSL 113 (156)
Q Consensus 68 ~~~~C~IC~~-~~~~p-v~---~~-CgH~fC~~Ci~~~~~~-~~~CP--~Cr~~~ 113 (156)
.+-.||||.. .+-+| +. -| |-|.+|.+|+...+.. ...|| -|++-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 3568999965 45556 22 26 9999999999999865 57899 786544
No 98
>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=93.50 E-value=0.064 Score=38.54 Aligned_cols=51 Identities=27% Similarity=0.595 Sum_probs=36.1
Q ss_pred cccccccccccccccEEcccC------------Ccc-hHHhHHHHhcC-------------------------------C
Q psy2479 68 SDFDCILCRSTIWKPVTTPCG------------HSY-CWMCLDRCLDY-------------------------------S 103 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~Cg------------H~f-C~~Ci~~~~~~-------------------------------~ 103 (156)
++..||||++.-.++|.|-|. ..| +..|+.++.+. .
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 357899999999999987443 222 56788766542 1
Q ss_pred CCCcccccCCcCCCc
Q psy2479 104 SSCPLCKTSLADVGI 118 (156)
Q Consensus 104 ~~CP~Cr~~~~~~~~ 118 (156)
-.||+||-.+..-.+
T Consensus 81 L~CPLCRG~V~GWtv 95 (162)
T PF07800_consen 81 LACPLCRGEVKGWTV 95 (162)
T ss_pred ccCccccCceeceEE
Confidence 279999988866555
No 99
>KOG1428|consensus
Probab=92.94 E-value=0.11 Score=49.18 Aligned_cols=50 Identities=28% Similarity=0.724 Sum_probs=36.6
Q ss_pred CCccccccccccccc--cc-EEcccCCcchHHhHHHHhcC----------CCCCcccccCCcC
Q psy2479 66 DSSDFDCILCRSTIW--KP-VTTPCGHSYCWMCLDRCLDY----------SSSCPLCKTSLAD 115 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~--~p-v~~~CgH~fC~~Ci~~~~~~----------~~~CP~Cr~~~~~ 115 (156)
...+..|-||+..-- .| +.+.|+|.|+..|....+.+ --.||+|..++.+
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 345678999975432 23 67899999999999877654 1389999887754
No 100
>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=92.91 E-value=0.041 Score=31.45 Aligned_cols=32 Identities=34% Similarity=0.800 Sum_probs=22.6
Q ss_pred EcccC-CcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 84 TTPCG-HSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 84 ~~~Cg-H~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
.+.|. |-.|..|+...+..+..||+|..++..
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 45666 557999999999999999999988754
No 101
>KOG3039|consensus
Probab=92.44 E-value=0.092 Score=40.44 Aligned_cols=37 Identities=19% Similarity=0.098 Sum_probs=31.9
Q ss_pred CCCcccccccccccccccEEcccCCcchHHhHHHHhc
Q psy2479 65 ADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLD 101 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~ 101 (156)
.+.....|++|+..+.+||++|=||.||+.||.+++.
T Consensus 39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 3444567899999999999999999999999988774
No 102
>PHA02862 5L protein; Provisional
Probab=92.33 E-value=0.13 Score=36.52 Aligned_cols=46 Identities=24% Similarity=0.502 Sum_probs=34.5
Q ss_pred cccccccccccccEEcccCC-----cchHHhHHHHhcC--CCCCcccccCCcCC
Q psy2479 70 FDCILCRSTIWKPVTTPCGH-----SYCWMCLDRCLDY--SSSCPLCKTSLADV 116 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH-----~fC~~Ci~~~~~~--~~~CP~Cr~~~~~~ 116 (156)
..|-||.+.-.+. .-||.- .-|+.|+++|+.. ...|+.|+.+..-+
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 4689999876544 467664 2589999999976 57999999876433
No 103
>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=92.19 E-value=0.067 Score=31.00 Aligned_cols=43 Identities=28% Similarity=0.639 Sum_probs=22.0
Q ss_pred ccccccccccccccEEc-ccCCcchHHhHHHHhcC-----CCCCcccccC
Q psy2479 69 DFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDY-----SSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~-----~~~CP~Cr~~ 112 (156)
.+.||+....+..|+.. .|.|.-|.+= ..|+.. .-.||.|+++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 46899999999999875 7999866542 223322 4589999764
No 104
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=92.14 E-value=0.079 Score=30.29 Aligned_cols=38 Identities=26% Similarity=0.720 Sum_probs=24.1
Q ss_pred cccccccccc--cEEcccCC-----cchHHhHHHHhcC--CCCCccc
Q psy2479 72 CILCRSTIWK--PVTTPCGH-----SYCWMCLDRCLDY--SSSCPLC 109 (156)
Q Consensus 72 C~IC~~~~~~--pv~~~CgH-----~fC~~Ci~~~~~~--~~~CP~C 109 (156)
|-||++...+ +.+.||+- ..|..|+..|+.. ...|++|
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 6678776553 46777763 3589999999974 5778877
No 105
>KOG3579|consensus
Probab=91.59 E-value=0.1 Score=40.96 Aligned_cols=36 Identities=22% Similarity=0.649 Sum_probs=30.5
Q ss_pred CcccccccccccccccEEccc----CCcchHHhHHHHhcC
Q psy2479 67 SSDFDCILCRSTIWKPVTTPC----GHSYCWMCLDRCLDY 102 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~C----gH~fC~~Ci~~~~~~ 102 (156)
..-+.|.+|.+.+.|..+..| .|-||..|-.+.++.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 445899999999999887766 588999999888875
No 106
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=91.14 E-value=0.23 Score=30.99 Aligned_cols=45 Identities=22% Similarity=0.482 Sum_probs=31.5
Q ss_pred cccccccccc----cEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 72 CILCRSTIWK----PVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 72 C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
|--|...+.. ..+-.=.|+||..|....+. ..||.|+-.+..+..
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~--g~CPnCGGelv~RP~ 56 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRLH--GLCPNCGGELVARPI 56 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc--CcCCCCCchhhcCcC
Confidence 5555554432 22223347899999987774 789999999988888
No 107
>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=89.88 E-value=0.2 Score=40.78 Aligned_cols=28 Identities=18% Similarity=0.783 Sum_probs=22.5
Q ss_pred chHHhHHHHhcC-------------CCCCcccccCCcCCCc
Q psy2479 91 YCWMCLDRCLDY-------------SSSCPLCKTSLADVGI 118 (156)
Q Consensus 91 fC~~Ci~~~~~~-------------~~~CP~Cr~~~~~~~~ 118 (156)
.|..|+-+|+.. +-.||.||+.|.-.+.
T Consensus 315 WC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 315 WCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred HHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 478999999864 3599999999876654
No 108
>KOG1812|consensus
Probab=89.86 E-value=0.32 Score=40.05 Aligned_cols=42 Identities=21% Similarity=0.544 Sum_probs=29.4
Q ss_pred cccccccccccccc----EEcccCCcchHHhHHHHhcC------CCCCcccc
Q psy2479 69 DFDCILCRSTIWKP----VTTPCGHSYCWMCLDRCLDY------SSSCPLCK 110 (156)
Q Consensus 69 ~~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~------~~~CP~Cr 110 (156)
...|.||......+ .+..|+|-||..|+.+++.. ...||.-+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~ 197 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDG 197 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCC
Confidence 56899999333332 24579999999999988864 34665433
No 109
>KOG1952|consensus
Probab=89.45 E-value=0.18 Score=44.96 Aligned_cols=45 Identities=24% Similarity=0.771 Sum_probs=35.2
Q ss_pred Ccccccccccccccc--cEE--cccCCcchHHhHHHHhcC-------CCCCccccc
Q psy2479 67 SSDFDCILCRSTIWK--PVT--TPCGHSYCWMCLDRCLDY-------SSSCPLCKT 111 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~--pv~--~~CgH~fC~~Ci~~~~~~-------~~~CP~Cr~ 111 (156)
...+.|.||.+.+.. |+- ..|-|+|+..||.+|-.. .-.||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 345789999998764 443 269999999999999865 348999973
No 110
>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=87.77 E-value=0.59 Score=27.67 Aligned_cols=45 Identities=22% Similarity=0.567 Sum_probs=29.7
Q ss_pred ccccccccccccE--EcccC--CcchHHhHHHHhcCCCCCcccccCCcCCC
Q psy2479 71 DCILCRSTIWKPV--TTPCG--HSYCWMCLDRCLDYSSSCPLCKTSLADVG 117 (156)
Q Consensus 71 ~C~IC~~~~~~pv--~~~Cg--H~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~ 117 (156)
.|-.|...+.... ..=|. .+||..|....+ ...||.|+-.|..+.
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 4556665554321 12233 379999999887 478999998876654
No 111
>KOG0827|consensus
Probab=86.58 E-value=0.12 Score=42.16 Aligned_cols=49 Identities=22% Similarity=0.409 Sum_probs=39.8
Q ss_pred ccccccccccccc----EEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKP----VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~p----v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
-.|+||...+..- -.+.|||.++..|+.+|+.....||.|+..+.....
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGF 249 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhH
Confidence 4688998877654 346899999999999999988999999887755444
No 112
>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=86.30 E-value=0.39 Score=31.34 Aligned_cols=41 Identities=24% Similarity=0.780 Sum_probs=31.1
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.-.|.||..-+..+ ||.||..|... ...|.+|++.+.....
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk----kGiCamCGKki~dtk~ 84 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAYK----KGICAMCGKKILDTKN 84 (90)
T ss_pred CccccccccccccC-----CCccChhhhcc----cCcccccCCeeccccc
Confidence 34799998866664 88999999642 5689999998855443
No 113
>KOG2042|consensus
Probab=85.27 E-value=1.2 Score=40.52 Aligned_cols=72 Identities=17% Similarity=0.160 Sum_probs=59.0
Q ss_pred CCCcccccccccccccccEEcc-cCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhcc
Q psy2479 65 ADSSDFDCILCRSTIWKPVTTP-CGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFELIDQ 140 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~~ 140 (156)
...+++.=|+-...+.+||.+| -|++.++.=+...+....+-|.||.+++.... .+|-.++.-+..|...+.
T Consensus 866 dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~v----~pn~eLK~kI~~~~~ek~ 938 (943)
T KOG2042|consen 866 DVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDMV----SPNEELKAKIRCWIKEKR 938 (943)
T ss_pred cCchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhhc----CCCHHHHHHHHHHHHHhh
Confidence 3667788899999999999998 99999999999999988999999999999999 555555555555544433
No 114
>KOG3899|consensus
Probab=85.12 E-value=0.42 Score=37.78 Aligned_cols=32 Identities=25% Similarity=0.689 Sum_probs=24.2
Q ss_pred cCCcchHHhHHHHhcC-------------CCCCcccccCCcCCCc
Q psy2479 87 CGHSYCWMCLDRCLDY-------------SSSCPLCKTSLADVGI 118 (156)
Q Consensus 87 CgH~fC~~Ci~~~~~~-------------~~~CP~Cr~~~~~~~~ 118 (156)
|....|.+|+.+|+.. +-.||+||+.+.-++.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 3344588999888753 4599999999877665
No 115
>KOG4718|consensus
Probab=84.73 E-value=0.58 Score=35.28 Aligned_cols=45 Identities=22% Similarity=0.554 Sum_probs=37.5
Q ss_pred ccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCC
Q psy2479 69 DFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
--.|.+|..+....+.- .||-.++..|+++++.....||.|+--.
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhccc
Confidence 35799999998887654 6777899999999999999999996443
No 116
>KOG2034|consensus
Probab=84.71 E-value=0.49 Score=42.54 Aligned_cols=37 Identities=30% Similarity=0.553 Sum_probs=27.7
Q ss_pred CCccccccccccccc-cc-EEcccCCcchHHhHHHHhcC
Q psy2479 66 DSSDFDCILCRSTIW-KP-VTTPCGHSYCWMCLDRCLDY 102 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~-~p-v~~~CgH~fC~~Ci~~~~~~ 102 (156)
+...-.|.+|...+. .| +..||||.||..|+.+....
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence 344567999977554 56 45699999999999876653
No 117
>KOG1815|consensus
Probab=84.60 E-value=0.53 Score=39.47 Aligned_cols=36 Identities=25% Similarity=0.574 Sum_probs=30.3
Q ss_pred Ccccccccccccccc-cEEcccCCcchHHhHHHHhcC
Q psy2479 67 SSDFDCILCRSTIWK-PVTTPCGHSYCWMCLDRCLDY 102 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~-pv~~~CgH~fC~~Ci~~~~~~ 102 (156)
.....|.||...+.. .+.+.|||.||..|...++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 445789999998886 566799999999999988865
No 118
>KOG0309|consensus
Probab=84.58 E-value=0.64 Score=41.33 Aligned_cols=39 Identities=23% Similarity=0.612 Sum_probs=29.3
Q ss_pred cccccccccccccEE--cccCCcchHHhHHHHhcCCCCCcc
Q psy2479 70 FDCILCRSTIWKPVT--TPCGHSYCWMCLDRCLDYSSSCPL 108 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~--~~CgH~fC~~Ci~~~~~~~~~CP~ 108 (156)
+.|.+|.-.+...-. ..|||+.+.+|...|+.....||.
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 456666555544322 379999999999999998888875
No 119
>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=84.15 E-value=0.47 Score=23.62 Aligned_cols=10 Identities=20% Similarity=0.564 Sum_probs=4.9
Q ss_pred cccccccccc
Q psy2479 72 CILCRSTIWK 81 (156)
Q Consensus 72 C~IC~~~~~~ 81 (156)
||-|...+..
T Consensus 3 CP~C~~~V~~ 12 (26)
T PF10571_consen 3 CPECGAEVPE 12 (26)
T ss_pred CCCCcCCchh
Confidence 5555554433
No 120
>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=83.62 E-value=0.075 Score=33.00 Aligned_cols=41 Identities=24% Similarity=0.467 Sum_probs=21.9
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
+.||.|...+.--- ||.+|..|-.. +.....||-|+.++..
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC----CEEECcccccc-ceecccCCCcccHHHH
Confidence 57899987644321 77788888653 3335689999887743
No 121
>KOG4642|consensus
Probab=82.96 E-value=3.2 Score=32.32 Aligned_cols=72 Identities=18% Similarity=0.203 Sum_probs=58.0
Q ss_pred cCCCcccccccccccccccEEcccCCcchHHhHHHHhcC-CCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhc
Q psy2479 64 RADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY-SSSCPLCKTSLADVGILATTCIEKRLKAINKTFELID 139 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~ 139 (156)
.+..+.+.|.|-++++.+|+++|-|=+|=+.=|.+.+.. ..--|+-|.+++.... .+|..+...+..|....
T Consensus 206 rEvpd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q~----ipN~alkevIa~fl~~n 278 (284)
T KOG4642|consen 206 REVPDYLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLTEYQL----IPNLALKEVIAAFLKEN 278 (284)
T ss_pred ccccchhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCCHHhh----ccchHHHHHHHHHHHhc
Confidence 346667888999999999999999999999999998876 5667999999999999 45555555566666543
No 122
>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=81.35 E-value=0.32 Score=38.41 Aligned_cols=46 Identities=22% Similarity=0.312 Sum_probs=23.5
Q ss_pred CcccccccccccccccEEccc---C--CcchHHhHHHHhcCCCCCcccccC
Q psy2479 67 SSDFDCILCRSTIWKPVTTPC---G--HSYCWMCLDRCLDYSSSCPLCKTS 112 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~C---g--H~fC~~Ci~~~~~~~~~CP~Cr~~ 112 (156)
+..-.||||...-.-.+...= | |.+|..|-..|......||.|...
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 345789999987665554433 3 457999999999888999999764
No 123
>KOG2113|consensus
Probab=81.20 E-value=1.3 Score=35.42 Aligned_cols=50 Identities=6% Similarity=-0.084 Sum_probs=39.8
Q ss_pred cCCCcccccccccccccccEEcccCCc-chHHhHHHHhcCCCCCcccccCCcC
Q psy2479 64 RADSSDFDCILCRSTIWKPVTTPCGHS-YCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
..+...+.|-.|...+...+-.+|+|. ||..|.. +....+||.|......
T Consensus 338 ~~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~~~ 388 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHNDHT 388 (394)
T ss_pred ccchhhcccccccCceeeeEeecCCcccChhhhhh--cccCCcccccccccee
Confidence 345567889999998888778899997 9999986 5557899999775543
No 124
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.94 E-value=3.1 Score=30.57 Aligned_cols=36 Identities=22% Similarity=0.436 Sum_probs=23.8
Q ss_pred cccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
..+.||.|...|.-- ......|.||.|+..+...+-
T Consensus 116 ~~Y~Cp~C~~rytf~---------------eA~~~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 116 MFFFCPNCHIRFTFD---------------EAMEYGFRCPQCGEMLEEYDN 151 (178)
T ss_pred CEEECCCCCcEEeHH---------------HHhhcCCcCCCCCCCCeeccc
Confidence 456787776544321 123347999999999877655
No 125
>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=80.89 E-value=1.7 Score=25.26 Aligned_cols=25 Identities=24% Similarity=0.638 Sum_probs=14.4
Q ss_pred ccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 86 PCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
.|++.||.+|=.-......+||-|.
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 6999999999543334468999883
No 126
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=79.67 E-value=1.7 Score=25.62 Aligned_cols=30 Identities=20% Similarity=0.627 Sum_probs=23.1
Q ss_pred ccccccccccc--cccEEc--ccCCcchHHhHHH
Q psy2479 69 DFDCILCRSTI--WKPVTT--PCGHSYCWMCLDR 98 (156)
Q Consensus 69 ~~~C~IC~~~~--~~pv~~--~CgH~fC~~Ci~~ 98 (156)
.-.|++|.+.| .+.++. .||-.+++.|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 35799999999 455443 5999999999643
No 127
>PF14353 CpXC: CpXC protein
Probab=79.10 E-value=1.4 Score=30.35 Aligned_cols=45 Identities=22% Similarity=0.260 Sum_probs=25.5
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcC---CCCCcccccCCc
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY---SSSCPLCKTSLA 114 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~---~~~CP~Cr~~~~ 114 (156)
++||-|...+.-.+-+.---..-..=....+.. ..+||.|+..+.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 579988888776543322211112223333332 579999998763
No 128
>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=78.81 E-value=0.97 Score=26.31 Aligned_cols=37 Identities=24% Similarity=0.574 Sum_probs=22.1
Q ss_pred ccccccccccccccEEcccCCcchHHhHHHHhcC--CCCCcccccC
Q psy2479 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDY--SSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~ 112 (156)
.+.||.|.+.+... .+..-|....... ...||+|...
T Consensus 2 ~f~CP~C~~~~~~~-------~L~~H~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSES-------SLVEHCEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHH-------HHHHHHHhHCcCCCCCccCCCchhh
Confidence 57899999854432 1333344333322 4689999763
No 129
>KOG1812|consensus
Probab=78.71 E-value=1 Score=37.13 Aligned_cols=41 Identities=29% Similarity=0.653 Sum_probs=30.4
Q ss_pred cccccccccccccc-----EEcccCCcchHHhHHHHhcCCCCCccc
Q psy2479 69 DFDCILCRSTIWKP-----VTTPCGHSYCWMCLDRCLDYSSSCPLC 109 (156)
Q Consensus 69 ~~~C~IC~~~~~~p-----v~~~CgH~fC~~Ci~~~~~~~~~CP~C 109 (156)
...||.|...+.-. ++-.|||-||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 56799998765432 444699999999999998776666444
No 130
>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=78.49 E-value=3.7 Score=29.54 Aligned_cols=48 Identities=13% Similarity=0.272 Sum_probs=29.2
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHH
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTF 135 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~ 135 (156)
.....||.|...|.- .......+.||.|+..+...+- ...+..|.+.+
T Consensus 107 ~~~Y~Cp~c~~r~tf---------------~eA~~~~F~Cp~Cg~~L~~~dn------~~~i~~l~~~i 154 (158)
T TIGR00373 107 NMFFICPNMCVRFTF---------------NEAMELNFTCPRCGAMLDYLDN------SEAIEKLEEQI 154 (158)
T ss_pred CCeEECCCCCcEeeH---------------HHHHHcCCcCCCCCCEeeeccC------HHHHHHHHHHH
Confidence 345678877654432 1222347999999999877776 44444444443
No 131
>KOG0825|consensus
Probab=77.76 E-value=1.7 Score=38.97 Aligned_cols=47 Identities=19% Similarity=0.375 Sum_probs=34.6
Q ss_pred CcccccccccccccccE----Ecc---cCCcchHHhHHHHhcC------CCCCcccccCC
Q psy2479 67 SSDFDCILCRSTIWKPV----TTP---CGHSYCWMCLDRCLDY------SSSCPLCKTSL 113 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv----~~~---CgH~fC~~Ci~~~~~~------~~~CP~Cr~~~ 113 (156)
.+...|.+|-..+.+++ +.| |+|.||..||..|..+ .-.|++|..-|
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 34567888877777642 234 9999999999999876 35778886655
No 132
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=77.44 E-value=0.41 Score=23.07 Aligned_cols=10 Identities=40% Similarity=0.926 Sum_probs=4.6
Q ss_pred CCCCcccccC
Q psy2479 103 SSSCPLCKTS 112 (156)
Q Consensus 103 ~~~CP~Cr~~ 112 (156)
..-||.|+.+
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3445555443
No 133
>KOG2462|consensus
Probab=77.02 E-value=1.2 Score=34.97 Aligned_cols=52 Identities=27% Similarity=0.486 Sum_probs=35.1
Q ss_pred Cccccccccccccccc---------EEcccCCcchHHhH-HHHhcC----------CCCCcccccCCcCCCc
Q psy2479 67 SSDFDCILCRSTIWKP---------VTTPCGHSYCWMCL-DRCLDY----------SSSCPLCKTSLADVGI 118 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~p---------v~~~CgH~fC~~Ci-~~~~~~----------~~~CP~Cr~~~~~~~~ 118 (156)
...+.|.+|...|..- -.++|.-.+|..=. ..|+.+ .+.||.|++.|.++.-
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHH
Confidence 4568899999987652 12466655665433 356543 4799999999876654
No 134
>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=76.78 E-value=0.59 Score=37.36 Aligned_cols=44 Identities=20% Similarity=0.366 Sum_probs=32.4
Q ss_pred ccccccccccccccEEc----ccC--CcchHHhHHHHhcCCCCCcccccC
Q psy2479 69 DFDCILCRSTIWKPVTT----PCG--HSYCWMCLDRCLDYSSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~----~Cg--H~fC~~Ci~~~~~~~~~CP~Cr~~ 112 (156)
.-.||||...-.-.++. .=| +.+|..|-..|......||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 45899999876544332 234 447899999999888999999764
No 135
>KOG0289|consensus
Probab=76.13 E-value=1.8 Score=36.21 Aligned_cols=49 Identities=16% Similarity=0.345 Sum_probs=42.9
Q ss_pred cccccccccccccEEcc-cCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKPVTTP-CGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
+.|+|-.+...+||+.| -||.|-+.-|.+++....+||+-+.+++...+
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eel 50 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEEL 50 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHe
Confidence 36999999999998875 99999999999999999999999988765444
No 136
>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=76.03 E-value=0.85 Score=37.52 Aligned_cols=49 Identities=29% Similarity=0.589 Sum_probs=0.0
Q ss_pred cccccccccc--------------ccc---c--EEcccCCcchHHhHHHHhcC---------CCCCcccccCCcCCC
Q psy2479 69 DFDCILCRST--------------IWK---P--VTTPCGHSYCWMCLDRCLDY---------SSSCPLCKTSLADVG 117 (156)
Q Consensus 69 ~~~C~IC~~~--------------~~~---p--v~~~CgH~fC~~Ci~~~~~~---------~~~CP~Cr~~~~~~~ 117 (156)
.-.||+|+.. +.+ | ++.||||.--.....-|..- ...||.|-.++....
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~ 404 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQ 404 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCC
Confidence 6789999964 122 2 45699998777777777653 358999988886543
No 137
>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=75.54 E-value=1.6 Score=26.68 Aligned_cols=13 Identities=23% Similarity=0.715 Sum_probs=9.4
Q ss_pred cchHHhHHHHhcC
Q psy2479 90 SYCWMCLDRCLDY 102 (156)
Q Consensus 90 ~fC~~Ci~~~~~~ 102 (156)
.||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999864
No 138
>KOG2979|consensus
Probab=75.41 E-value=3.3 Score=32.22 Aligned_cols=44 Identities=23% Similarity=0.366 Sum_probs=37.1
Q ss_pred ccccccccccccccEE-cccCCcchHHhHHHHhcC--CCCCcccccC
Q psy2479 69 DFDCILCRSTIWKPVT-TPCGHSYCWMCLDRCLDY--SSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~--~~~CP~Cr~~ 112 (156)
.+.||+-...+.+|++ ..|||+|=+.-+...+.. .-.||+-+++
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 4789999999999975 479999999999988866 5688887766
No 139
>KOG2068|consensus
Probab=74.93 E-value=2.6 Score=33.91 Aligned_cols=48 Identities=23% Similarity=0.566 Sum_probs=37.1
Q ss_pred ccccccccccccc--cEE--cccCCcchHHhHHHHhcCCCCCcccccCCcCC
Q psy2479 69 DFDCILCRSTIWK--PVT--TPCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116 (156)
Q Consensus 69 ~~~C~IC~~~~~~--pv~--~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~ 116 (156)
.-.|+||.+.... ... .|||+..|..|+.........||.||++....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 3679999997633 223 37899999999998888899999999765433
No 140
>KOG3842|consensus
Probab=73.73 E-value=2.5 Score=33.99 Aligned_cols=48 Identities=29% Similarity=0.675 Sum_probs=31.7
Q ss_pred ccccccccccc--------------ccc---c--EEcccCCcchHHhHHHHhcC---------CCCCcccccCCcC
Q psy2479 68 SDFDCILCRST--------------IWK---P--VTTPCGHSYCWMCLDRCLDY---------SSSCPLCKTSLAD 115 (156)
Q Consensus 68 ~~~~C~IC~~~--------------~~~---p--v~~~CgH~fC~~Ci~~~~~~---------~~~CP~Cr~~~~~ 115 (156)
.+-.||+|+.+ +.+ | .+.||||.--..=..-|... +..||.|-..+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 46789999864 112 1 35699997555555556543 4589999877644
No 141
>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=71.18 E-value=3.2 Score=21.49 Aligned_cols=35 Identities=26% Similarity=0.509 Sum_probs=22.1
Q ss_pred ccccccccccc--EEcccCCcchHHhHHHHhcCCCCCcccccCCc
Q psy2479 72 CILCRSTIWKP--VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 72 C~IC~~~~~~p--v~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
|..|...+... +...=+..|+..| +.|..|+.+|.
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcCc
Confidence 66777766653 3334456677776 46888877663
No 142
>KOG0269|consensus
Probab=70.44 E-value=4.2 Score=36.27 Aligned_cols=45 Identities=22% Similarity=0.333 Sum_probs=34.3
Q ss_pred cccccccccccccccEEc--ccCCcchHHhHHHHhcCCCCCcc--cccC
Q psy2479 68 SDFDCILCRSTIWKPVTT--PCGHSYCWMCLDRCLDYSSSCPL--CKTS 112 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~--~CgH~fC~~Ci~~~~~~~~~CP~--Cr~~ 112 (156)
....|.+|...+..-..- -|||.-|..|+.+|+.....||. |...
T Consensus 778 a~~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 778 ASAKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred hhcCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 345788888776664332 59999999999999999888877 6553
No 143
>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=70.42 E-value=3.8 Score=31.43 Aligned_cols=28 Identities=25% Similarity=0.532 Sum_probs=23.7
Q ss_pred chHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 91 YCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 91 fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
-|.+|.+....+...||+|.+.-.++..
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNP 223 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCC
Confidence 3999999999999999999887766554
No 144
>KOG3476|consensus
Probab=70.34 E-value=1.1 Score=28.89 Aligned_cols=39 Identities=23% Similarity=0.800 Sum_probs=30.6
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCC
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVG 117 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~ 117 (156)
..|.||...+.+| |-+||..|..+ ...|.+|++.+....
T Consensus 55 ~kC~iCk~~vHQ~-----GshYC~tCAY~----KgiCAMCGKki~nTK 93 (100)
T KOG3476|consen 55 AKCRICKQLVHQP-----GSHYCQTCAYK----KGICAMCGKKILNTK 93 (100)
T ss_pred chhHHHHHHhcCC-----cchhHhHhhhh----hhHHHHhhhHhhccc
Confidence 5799999998887 66799999864 356999988775543
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=69.54 E-value=1.2 Score=27.03 Aligned_cols=32 Identities=19% Similarity=0.527 Sum_probs=16.2
Q ss_pred ccccccccccccccEE----cccCCcchHHhHHHHh
Q psy2479 69 DFDCILCRSTIWKPVT----TPCGHSYCWMCLDRCL 100 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~----~~CgH~fC~~Ci~~~~ 100 (156)
...|.+|...|.--.. ..||+.||..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4679999999843211 2799999999975443
No 146
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=69.41 E-value=1.3 Score=35.45 Aligned_cols=44 Identities=20% Similarity=0.345 Sum_probs=32.8
Q ss_pred cccccccccccccccEE-c--ccC--CcchHHhHHHHhcCCCCCccccc
Q psy2479 68 SDFDCILCRSTIWKPVT-T--PCG--HSYCWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~-~--~Cg--H~fC~~Ci~~~~~~~~~CP~Cr~ 111 (156)
..-.||||...-.-.++ + .=| +.+|..|-..|......||.|..
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 46789999987654433 2 234 34699999999988899999975
No 147
>KOG4185|consensus
Probab=68.50 E-value=0.91 Score=35.72 Aligned_cols=44 Identities=30% Similarity=0.659 Sum_probs=34.8
Q ss_pred ccccccccccccc------cEEcc--------cCCcchHHhHHHHhcC-CCCCcccccC
Q psy2479 69 DFDCILCRSTIWK------PVTTP--------CGHSYCWMCLDRCLDY-SSSCPLCKTS 112 (156)
Q Consensus 69 ~~~C~IC~~~~~~------pv~~~--------CgH~fC~~Ci~~~~~~-~~~CP~Cr~~ 112 (156)
...|.||...+.. |.++. |||+.|..|+...+.. ...||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 4569999888772 34455 9999999999988766 4699999864
No 148
>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=68.06 E-value=2.7 Score=20.77 Aligned_cols=12 Identities=25% Similarity=0.919 Sum_probs=8.7
Q ss_pred CCCcccccCCcC
Q psy2479 104 SSCPLCKTSLAD 115 (156)
Q Consensus 104 ~~CP~Cr~~~~~ 115 (156)
..||+|...+..
T Consensus 2 v~CPiC~~~v~~ 13 (26)
T smart00734 2 VQCPVCFREVPE 13 (26)
T ss_pred CcCCCCcCcccH
Confidence 469999887733
No 149
>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=67.22 E-value=2.3 Score=24.73 Aligned_cols=15 Identities=33% Similarity=0.775 Sum_probs=7.7
Q ss_pred CCCcccccCCcCCCc
Q psy2479 104 SSCPLCKTSLADVGI 118 (156)
Q Consensus 104 ~~CP~Cr~~~~~~~~ 118 (156)
..||+|+.+|.....
T Consensus 21 ~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 21 GCCPLCGRPLDEEHR 35 (54)
T ss_dssp EE-TTT--EE-HHHH
T ss_pred CcCCCCCCCCCHHHH
Confidence 389999887765544
No 150
>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=67.18 E-value=3.3 Score=23.98 Aligned_cols=31 Identities=19% Similarity=0.533 Sum_probs=21.5
Q ss_pred cccccccccccccE----EcccCCcchHHhHHHHh
Q psy2479 70 FDCILCRSTIWKPV----TTPCGHSYCWMCLDRCL 100 (156)
Q Consensus 70 ~~C~IC~~~~~~pv----~~~CgH~fC~~Ci~~~~ 100 (156)
..|.+|...|.--. =..||+.||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 35888877665422 13799999999986544
No 151
>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=66.67 E-value=4.1 Score=21.16 Aligned_cols=11 Identities=27% Similarity=0.794 Sum_probs=7.7
Q ss_pred CCCCCcccccC
Q psy2479 102 YSSSCPLCKTS 112 (156)
Q Consensus 102 ~~~~CP~Cr~~ 112 (156)
....||.|+.+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 35689999763
No 152
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=65.73 E-value=15 Score=27.11 Aligned_cols=36 Identities=19% Similarity=0.531 Sum_probs=23.4
Q ss_pred cccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
..+.||.|...+. ........++||.|+..+...+.
T Consensus 112 ~~y~C~~~~~r~s---------------fdeA~~~~F~Cp~Cg~~L~~~d~ 147 (176)
T COG1675 112 NYYVCPNCHVKYS---------------FDEAMELGFTCPKCGEDLEEYDS 147 (176)
T ss_pred CceeCCCCCCccc---------------HHHHHHhCCCCCCCCchhhhccc
Confidence 3567776665332 12333346999999999877666
No 153
>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 KOG4451|consensus
Probab=65.07 E-value=5.4 Score=30.58 Aligned_cols=28 Identities=25% Similarity=0.565 Sum_probs=23.5
Q ss_pred chHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 91 YCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 91 fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
.|.+|.++...+...||+|.....++..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCCC
Confidence 4899999999999999999887766554
No 155
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=63.70 E-value=7.3 Score=24.70 Aligned_cols=47 Identities=23% Similarity=0.511 Sum_probs=19.2
Q ss_pred ccccccccccccc----cEEc---ccCCcchHHhHHHHhcC-CCCCcccccCCcC
Q psy2479 69 DFDCILCRSTIWK----PVTT---PCGHSYCWMCLDRCLDY-SSSCPLCKTSLAD 115 (156)
Q Consensus 69 ~~~C~IC~~~~~~----pv~~---~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~ 115 (156)
.-.|.||.+.+-- -++. .|+-..|+.|..--.+. +..||.|+.....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 4569999987542 1333 57777899998655544 7899999876643
No 156
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=62.69 E-value=1.5 Score=21.54 Aligned_cols=9 Identities=33% Similarity=0.907 Sum_probs=4.2
Q ss_pred CCCcccccC
Q psy2479 104 SSCPLCKTS 112 (156)
Q Consensus 104 ~~CP~Cr~~ 112 (156)
.-||.|+.+
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 445555443
No 157
>KOG2169|consensus
Probab=62.50 E-value=14 Score=32.56 Aligned_cols=69 Identities=20% Similarity=0.455 Sum_probs=46.3
Q ss_pred cCCCcccccccccccccccEE-cccCCcchHHhHHHHhcC-----CCCCcccccCCcCCCccccHHHHHHHHHHHHHHHH
Q psy2479 64 RADSSDFDCILCRSTIWKPVT-TPCGHSYCWMCLDRCLDY-----SSSCPLCKTSLADVGILATTCIEKRLKAINKTFEL 137 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~-----~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~ 137 (156)
..+...+.|+|+...+.-|.. ..|+|.-|.+=.. ++.. .-.||+|.+...-..+ .....+..+......
T Consensus 301 t~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~-~lq~n~~~pTW~CPVC~~~~~~e~l----~iD~~~~~iL~~~~~ 375 (636)
T KOG2169|consen 301 TSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALS-YLQMNEQKPTWRCPVCQKAAPFEGL----IIDGYFLNILQSCQA 375 (636)
T ss_pred ccceeEecCCcccceeecCCcccccccceecchhh-hHHhccCCCeeeCccCCccccccch----hhhHHHHHHHhhccC
Confidence 355667999999988887754 4788876665432 1111 4589999988877777 555555666555544
No 158
>PRK11595 DNA utilization protein GntX; Provisional
Probab=62.26 E-value=6.7 Score=29.73 Aligned_cols=38 Identities=24% Similarity=0.542 Sum_probs=20.8
Q ss_pred ccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCC
Q psy2479 71 DCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
.|.+|...+... ...+|..|...+......||.|..++
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 477777654321 12367777665433234577776554
No 159
>KOG3799|consensus
Probab=61.10 E-value=10 Score=26.67 Aligned_cols=24 Identities=38% Similarity=0.952 Sum_probs=15.7
Q ss_pred Cccccccccccc-ccccEEcccCCcchHHh
Q psy2479 67 SSDFDCILCRST-IWKPVTTPCGHSYCWMC 95 (156)
Q Consensus 67 ~~~~~C~IC~~~-~~~pv~~~CgH~fC~~C 95 (156)
.++..|.||... |.+ -|||. |..|
T Consensus 63 ~ddatC~IC~KTKFAD----G~GH~-C~YC 87 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD----GCGHN-CSYC 87 (169)
T ss_pred CcCcchhhhhhccccc----ccCcc-cchh
Confidence 456789999874 333 48884 4555
No 160
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=60.47 E-value=8.3 Score=34.97 Aligned_cols=52 Identities=23% Similarity=0.521 Sum_probs=38.7
Q ss_pred Cccccccccccc--ccccEEcccCCc-----chHHhHHHHhcC--CCCCcccccCCcCCCc
Q psy2479 67 SSDFDCILCRST--IWKPVTTPCGHS-----YCWMCLDRCLDY--SSSCPLCKTSLADVGI 118 (156)
Q Consensus 67 ~~~~~C~IC~~~--~~~pv~~~CgH~-----fC~~Ci~~~~~~--~~~CP~Cr~~~~~~~~ 118 (156)
.++-.|.||... -.+|..-||..+ .|+.|+-+|... ...|-.|..++.-++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 345789999754 345667788754 599999999976 5899999987755544
No 161
>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=60.10 E-value=8.3 Score=25.83 Aligned_cols=24 Identities=25% Similarity=0.629 Sum_probs=17.7
Q ss_pred CCcchHHhHHHHhcC---------CCCCccccc
Q psy2479 88 GHSYCWMCLDRCLDY---------SSSCPLCKT 111 (156)
Q Consensus 88 gH~fC~~Ci~~~~~~---------~~~CP~Cr~ 111 (156)
.-.||..||..+... .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 566999999777653 357888864
No 162
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=59.78 E-value=7.5 Score=29.35 Aligned_cols=51 Identities=12% Similarity=0.255 Sum_probs=30.0
Q ss_pred cccccccccccccccEEcc-cC------CcchHHh--HHHHhcCCCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTTP-CG------HSYCWMC--LDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~-Cg------H~fC~~C--i~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
....||+|...|....+.+ =+ --||..- +.+.+..-..||.|+-.....+.
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~~F 63 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEEDF 63 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccccc
Confidence 4678999999998753221 11 0122111 33333445699999988776544
No 163
>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=58.53 E-value=4.7 Score=23.19 Aligned_cols=27 Identities=26% Similarity=0.619 Sum_probs=10.7
Q ss_pred ccccccccccccc-EEcccCCcchHHhH
Q psy2479 70 FDCILCRSTIWKP-VTTPCGHSYCWMCL 96 (156)
Q Consensus 70 ~~C~IC~~~~~~p-v~~~CgH~fC~~Ci 96 (156)
+.|..|...+.+. ....=|..||..|.
T Consensus 27 f~C~~C~~~l~~~~~~~~~~~~~C~~c~ 54 (58)
T PF00412_consen 27 FKCSKCGKPLNDGDFYEKDGKPYCKDCY 54 (58)
T ss_dssp SBETTTTCBTTTSSEEEETTEEEEHHHH
T ss_pred cccCCCCCccCCCeeEeECCEEECHHHH
Confidence 4444444444433 22233334444443
No 164
>KOG2807|consensus
Probab=58.30 E-value=5.3 Score=32.24 Aligned_cols=40 Identities=20% Similarity=0.549 Sum_probs=23.3
Q ss_pred cccccccccc-ccEE--cccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 71 DCILCRSTIW-KPVT--TPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 71 ~C~IC~~~~~-~pv~--~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
.|-.|..... .+.. -.|.++||.+|=.-....-..||.|.
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 3666633332 2322 26888888888543334457788885
No 165
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.45 E-value=5.5 Score=26.04 Aligned_cols=13 Identities=23% Similarity=0.654 Sum_probs=11.4
Q ss_pred cchHHhHHHHhcC
Q psy2479 90 SYCWMCLDRCLDY 102 (156)
Q Consensus 90 ~fC~~Ci~~~~~~ 102 (156)
.||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999975
No 166
>COG4640 Predicted membrane protein [Function unknown]
Probab=57.14 E-value=6.4 Score=32.61 Aligned_cols=22 Identities=14% Similarity=0.064 Sum_probs=9.5
Q ss_pred ccCCcCCCccccHHHHHHHHHH
Q psy2479 110 KTSLADVGILATTCIEKRLKAI 131 (156)
Q Consensus 110 r~~~~~~~~~~~~~~n~~l~~l 131 (156)
|++++.+..+++..+...+.-+
T Consensus 44 rkniskK~ii~was~a~~lIli 65 (465)
T COG4640 44 RKNISKKKIIPWASGAFILILI 65 (465)
T ss_pred ccCCccceeehhHHHHHHHHHH
Confidence 4444444444444444333333
No 167
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.06 E-value=7.2 Score=26.52 Aligned_cols=41 Identities=24% Similarity=0.497 Sum_probs=30.6
Q ss_pred cccccccccccccE--------------EcccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 70 FDCILCRSTIWKPV--------------TTPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 70 ~~C~IC~~~~~~pv--------------~~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
..|--|+..|..+. =..|++.||.+|=.-+...-.+||-|.
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 35888888776541 136999999999766666678899995
No 168
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=56.01 E-value=7.2 Score=34.48 Aligned_cols=38 Identities=24% Similarity=0.538 Sum_probs=18.8
Q ss_pred ccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCC
Q psy2479 71 DCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~ 116 (156)
.||-|.... +=++.||..|-... ....||.|+..+...
T Consensus 3 ~Cp~Cg~~n------~~~akFC~~CG~~l--~~~~Cp~CG~~~~~~ 40 (645)
T PRK14559 3 ICPQCQFEN------PNNNRFCQKCGTSL--THKPCPQCGTEVPVD 40 (645)
T ss_pred cCCCCCCcC------CCCCccccccCCCC--CCCcCCCCCCCCCcc
Confidence 577776542 33455666663221 124566666554443
No 169
>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 KOG3053|consensus
Probab=53.72 E-value=7.1 Score=30.50 Aligned_cols=49 Identities=29% Similarity=0.522 Sum_probs=34.5
Q ss_pred CCCcccccccccccccccEE----cccC-----CcchHHhHHHHhcC--------CCCCcccccCC
Q psy2479 65 ADSSDFDCILCRSTIWKPVT----TPCG-----HSYCWMCLDRCLDY--------SSSCPLCKTSL 113 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~----~~Cg-----H~fC~~Ci~~~~~~--------~~~CP~Cr~~~ 113 (156)
....+-.|=||+..-.+... -||. |-.|.+|+..|+.. ...||.|+...
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 34446789999987666422 2554 33689999999964 35899998764
No 171
>KOG1609|consensus
Probab=53.33 E-value=11 Score=29.62 Aligned_cols=48 Identities=21% Similarity=0.515 Sum_probs=35.1
Q ss_pred ccccccccccccc----cEEcccCC-----cchHHhHHHHhc--CCCCCcccccCCcCC
Q psy2479 69 DFDCILCRSTIWK----PVTTPCGH-----SYCWMCLDRCLD--YSSSCPLCKTSLADV 116 (156)
Q Consensus 69 ~~~C~IC~~~~~~----pv~~~CgH-----~fC~~Ci~~~~~--~~~~CP~Cr~~~~~~ 116 (156)
...|-||...... +...||.- ..|+.|+..|+. ....|..|...+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4789999986543 45666652 358999999997 478999998765443
No 172
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=53.24 E-value=2.8 Score=24.64 Aligned_cols=16 Identities=31% Similarity=0.860 Sum_probs=13.5
Q ss_pred ccCCcchHHhHHHHhc
Q psy2479 86 PCGHSYCWMCLDRCLD 101 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~ 101 (156)
.||+.||..|...|..
T Consensus 45 ~C~~~fC~~C~~~~H~ 60 (64)
T smart00647 45 KCGFSFCFRCKVPWHS 60 (64)
T ss_pred CCCCeECCCCCCcCCC
Confidence 6899999999888754
No 173
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.88 E-value=15 Score=34.18 Aligned_cols=48 Identities=17% Similarity=0.291 Sum_probs=31.8
Q ss_pred cccccccccccccccEEc-ccCC-----cchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTT-PCGH-----SYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~-~CgH-----~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
....|+-|....... .- .||. .||..|- +......||.|+..+.....
T Consensus 625 g~RfCpsCG~~t~~f-rCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~s~ 678 (1121)
T PRK04023 625 GRRKCPSCGKETFYR-RCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPYSK 678 (1121)
T ss_pred cCccCCCCCCcCCcc-cCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCccce
Confidence 456899898875221 22 3885 4999993 33335679999988766554
No 174
>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=49.64 E-value=42 Score=20.06 Aligned_cols=18 Identities=17% Similarity=0.573 Sum_probs=10.8
Q ss_pred CCCCcccccCCcCCCccc
Q psy2479 103 SSSCPLCKTSLADVGILA 120 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~~~ 120 (156)
++.||.|++++.....+.
T Consensus 3 HkHC~~CG~~Ip~~~~fC 20 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFC 20 (59)
T ss_pred CCcCCcCCCcCCcchhhh
Confidence 456777766666555544
No 175
>KOG0314|consensus
Probab=49.27 E-value=13 Score=31.30 Aligned_cols=47 Identities=21% Similarity=0.472 Sum_probs=35.0
Q ss_pred cCCCcccccccc-cccccccEEc--ccCCcchHHhHHHHhcCCCCCccccc
Q psy2479 64 RADSSDFDCILC-RSTIWKPVTT--PCGHSYCWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 64 ~~~~~~~~C~IC-~~~~~~pv~~--~CgH~fC~~Ci~~~~~~~~~CP~Cr~ 111 (156)
-...+...|++| ...|.+...+ -|...||..|+...+.. ..|+.|.+
T Consensus 214 ~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~-~~~~~c~~ 263 (448)
T KOG0314|consen 214 GELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALIS-KSMCVCGA 263 (448)
T ss_pred ccCCccccCceecchhhHHHHHhhhhhcccCCcccccccccc-ccCCcchh
Confidence 456778999999 7778877665 58889999999877754 44555543
No 176
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=49.19 E-value=2.2 Score=21.97 Aligned_cols=23 Identities=26% Similarity=0.651 Sum_probs=9.8
Q ss_pred CcchHHhHHHHhcC----CCCCccccc
Q psy2479 89 HSYCWMCLDRCLDY----SSSCPLCKT 111 (156)
Q Consensus 89 H~fC~~Ci~~~~~~----~~~CP~Cr~ 111 (156)
|.||..|-.+.... ...||.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 55666665444332 356777754
No 177
>COG5113 UFD2 Ubiquitin fusion degradation protein 2 [Posttranslational modification, protein turnover, chaperones]
Probab=48.13 E-value=66 Score=28.75 Aligned_cols=75 Identities=13% Similarity=0.072 Sum_probs=59.7
Q ss_pred ccCCCcccccccccccccccEEcc-cCCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhccc
Q psy2479 63 TRADSSDFDCILCRSTIWKPVTTP-CGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTFELIDQS 141 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~pv~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~~~ 141 (156)
...+.+++.=|.-...+.+||.+| -+-+.=++=+...+-...+-|.=|.+++..++ .+|..++.-+-.|...+.+
T Consensus 848 ~GDvPDeFlDPLmftimkdPV~Lp~S~i~IDRSTikahllsd~tDPFNRmPLtlddV----tpn~eLrekIn~f~k~k~~ 923 (929)
T COG5113 848 MGDVPDEFLDPLMFTIMKDPVKLPTSRITIDRSTIKAHLLSDGTDPFNRMPLTLDDV----TPNAELREKINRFYKCKGQ 923 (929)
T ss_pred ccCCchhhhCchhhhcccCCeecccccccccHHHHHHHHhcCCCCccccCCCchhhc----CCCHHHHHHHHHHHhcccc
Confidence 445777888899999999999997 56678888888888888999999999999999 5666666666666555544
No 178
>KOG0824|consensus
Probab=47.52 E-value=5.7 Score=31.67 Aligned_cols=50 Identities=20% Similarity=0.648 Sum_probs=40.9
Q ss_pred CCCcccccccccccccccEEc-ccCCcchHHhHHHHhcCCCCCcccccCCc
Q psy2479 65 ADSSDFDCILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
.......|-+|...+.-|... .|+|-||..|...|......||.|+....
T Consensus 101 ~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 344566789999999888766 59999999999999998889999876543
No 179
>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=47.01 E-value=11 Score=27.21 Aligned_cols=24 Identities=29% Similarity=0.823 Sum_probs=15.9
Q ss_pred CcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 89 HSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 89 H~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
+.||..|-.+... .||.|..++..
T Consensus 28 ~~fC~kCG~~tI~---~Cp~C~~~IrG 51 (158)
T PF10083_consen 28 EKFCSKCGAKTIT---SCPNCSTPIRG 51 (158)
T ss_pred HHHHHHhhHHHHH---HCcCCCCCCCC
Confidence 4588888766553 57777766643
No 180
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=47.00 E-value=13 Score=27.87 Aligned_cols=38 Identities=26% Similarity=0.670 Sum_probs=25.5
Q ss_pred ccccccccccc-----ccc-cEEc--ccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 68 SDFDCILCRST-----IWK-PVTT--PCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 68 ~~~~C~IC~~~-----~~~-pv~~--~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
..+.|-+|... |.. .+.. .|+.+||..|.. ...||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 35678888753 222 1222 699999999975 26799993
No 181
>KOG1829|consensus
Probab=46.74 E-value=7.3 Score=33.90 Aligned_cols=39 Identities=31% Similarity=0.712 Sum_probs=24.7
Q ss_pred ccccccccccc-----c-cccEE--cccCCcchHHhHHHHhcCCCCCccc
Q psy2479 68 SDFDCILCRST-----I-WKPVT--TPCGHSYCWMCLDRCLDYSSSCPLC 109 (156)
Q Consensus 68 ~~~~C~IC~~~-----~-~~pv~--~~CgH~fC~~Ci~~~~~~~~~CP~C 109 (156)
..+.|.+|... | .+.+. ..||+.||..|+.. ....||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 35677788432 2 12222 27999999999643 34459999
No 182
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.31 E-value=20 Score=32.09 Aligned_cols=50 Identities=28% Similarity=0.590 Sum_probs=37.6
Q ss_pred CCcccccccccccccccE----------EcccCCcc--------------------hHHhHHHHhcC--------CCCCc
Q psy2479 66 DSSDFDCILCRSTIWKPV----------TTPCGHSY--------------------CWMCLDRCLDY--------SSSCP 107 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv----------~~~CgH~f--------------------C~~Ci~~~~~~--------~~~CP 107 (156)
..+.-.|+-|++.+.+|- =+.||..| |..|..++... ...||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 456679999999988872 14788776 99999877654 46899
Q ss_pred ccccCCcC
Q psy2479 108 LCKTSLAD 115 (156)
Q Consensus 108 ~Cr~~~~~ 115 (156)
.|+-.+..
T Consensus 178 ~CGP~~~l 185 (750)
T COG0068 178 KCGPHLFL 185 (750)
T ss_pred ccCCCeEE
Confidence 99876543
No 183
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=46.18 E-value=4 Score=22.50 Aligned_cols=25 Identities=28% Similarity=0.594 Sum_probs=13.4
Q ss_pred ccCCcchHHhHHHHhcCCCCCccccc
Q psy2479 86 PCGHSYCWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~~~~CP~Cr~ 111 (156)
.|||.|-...-..- .....||.|+.
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 46666533321111 23578999987
No 184
>KOG2789|consensus
Probab=45.98 E-value=10 Score=31.53 Aligned_cols=33 Identities=15% Similarity=0.327 Sum_probs=25.9
Q ss_pred cccccccccccccccE--EcccCCcchHHhHHHHh
Q psy2479 68 SDFDCILCRSTIWKPV--TTPCGHSYCWMCLDRCL 100 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv--~~~CgH~fC~~Ci~~~~ 100 (156)
-...|+||+-++.... +.-|..+.|..|+.+..
T Consensus 73 r~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAKNLVRCCSETICGECFAPFG 107 (482)
T ss_pred ccccCceeeeecccccchhhhhccchhhhheeccc
Confidence 4578999998887753 34799999999986654
No 185
>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=45.82 E-value=9.7 Score=25.87 Aligned_cols=43 Identities=19% Similarity=0.394 Sum_probs=24.3
Q ss_pred cccccccccccc---c-cEE-cccCCcchHHhHHHHhc-CCCCCccccc
Q psy2479 69 DFDCILCRSTIW---K-PVT-TPCGHSYCWMCLDRCLD-YSSSCPLCKT 111 (156)
Q Consensus 69 ~~~C~IC~~~~~---~-pv~-~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~ 111 (156)
...|.+|...|. + +.. ..|+|.+|..|-..... ..-.|-+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 458999987643 2 222 47999999999543111 1235777743
No 186
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=45.44 E-value=10 Score=26.47 Aligned_cols=21 Identities=29% Similarity=0.635 Sum_probs=13.9
Q ss_pred cccccccccEEcccCCcchHH
Q psy2479 74 LCRSTIWKPVTTPCGHSYCWM 94 (156)
Q Consensus 74 IC~~~~~~pv~~~CgH~fC~~ 94 (156)
||...-..-+.-.|||.||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 555544444455899999874
No 187
>KOG0801|consensus
Probab=45.43 E-value=6.5 Score=28.60 Aligned_cols=23 Identities=22% Similarity=0.546 Sum_probs=12.8
Q ss_pred ccccccccccccc---EEcccCCcch
Q psy2479 70 FDCILCRSTIWKP---VTTPCGHSYC 92 (156)
Q Consensus 70 ~~C~IC~~~~~~p---v~~~CgH~fC 92 (156)
-+|.||++.+... ..|||...|+
T Consensus 178 GECvICLEdL~~GdtIARLPCLCIYH 203 (205)
T KOG0801|consen 178 GECVICLEDLEAGDTIARLPCLCIYH 203 (205)
T ss_pred CcEEEEhhhccCCCceeccceEEEee
Confidence 4566666666543 2356655544
No 188
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=45.02 E-value=14 Score=20.02 Aligned_cols=22 Identities=27% Similarity=0.783 Sum_probs=11.4
Q ss_pred cccccccccc-cEEcc-cCCcchH
Q psy2479 72 CILCRSTIWK-PVTTP-CGHSYCW 93 (156)
Q Consensus 72 C~IC~~~~~~-pv~~~-CgH~fC~ 93 (156)
|.+|.....- |..=. |+.+||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 4455544433 54444 6666664
No 189
>PF15616 TerY-C: TerY-C metal binding domain
Probab=44.99 E-value=9.8 Score=26.62 Aligned_cols=45 Identities=22% Similarity=0.417 Sum_probs=31.7
Q ss_pred ccCCCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCC
Q psy2479 63 TRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
.+++...-.||-|...+--.+= .||+.||..= ....+||-|....
T Consensus 71 tseL~g~PgCP~CGn~~~fa~C-~CGkl~Ci~g-----~~~~~CPwCg~~g 115 (131)
T PF15616_consen 71 TSELIGAPGCPHCGNQYAFAVC-GCGKLFCIDG-----EGEVTCPWCGNEG 115 (131)
T ss_pred hHHhcCCCCCCCCcChhcEEEe-cCCCEEEeCC-----CCCEECCCCCCee
Confidence 4455666889999986554433 7999988541 2368999998765
No 190
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=44.83 E-value=13 Score=21.55 Aligned_cols=15 Identities=13% Similarity=0.216 Sum_probs=8.6
Q ss_pred ccccccccccccccc
Q psy2479 68 SDFDCILCRSTIWKP 82 (156)
Q Consensus 68 ~~~~C~IC~~~~~~p 82 (156)
..-.|+.|...+...
T Consensus 27 v~W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 27 VWWKCPKCGHEWKAS 41 (55)
T ss_pred EEEECCCCCCeeEcc
Confidence 345677665555554
No 191
>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=43.51 E-value=14 Score=33.11 Aligned_cols=48 Identities=25% Similarity=0.534 Sum_probs=36.3
Q ss_pred CcccccccccccccccE-------E---cccCCcc--------------------hHHhHHHHhcC--------CCCCcc
Q psy2479 67 SSDFDCILCRSTIWKPV-------T---TPCGHSY--------------------CWMCLDRCLDY--------SSSCPL 108 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv-------~---~~CgH~f--------------------C~~Ci~~~~~~--------~~~CP~ 108 (156)
.+.-.|.-|+..+.+|. + +.||..| |..|..++... ...||.
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 46678999999988872 1 4677666 99999998653 359999
Q ss_pred cccCCc
Q psy2479 109 CKTSLA 114 (156)
Q Consensus 109 Cr~~~~ 114 (156)
|+-.+.
T Consensus 146 Cgp~l~ 151 (711)
T TIGR00143 146 CGPQLN 151 (711)
T ss_pred CCcEEE
Confidence 987764
No 192
>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=42.70 E-value=10 Score=27.13 Aligned_cols=23 Identities=26% Similarity=0.677 Sum_probs=15.8
Q ss_pred ccCCcchHHhHHHHhcC-----------CCCCcccccCC
Q psy2479 86 PCGHSYCWMCLDRCLDY-----------SSSCPLCKTSL 113 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~-----------~~~CP~Cr~~~ 113 (156)
.+||.| ..||.. .-+||+|+..-
T Consensus 9 ~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 9 ENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 478888 446654 46999998543
No 193
>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=42.11 E-value=29 Score=18.40 Aligned_cols=23 Identities=30% Similarity=0.586 Sum_probs=11.6
Q ss_pred hHHhHHHHhcC--------CCCCcccccCCc
Q psy2479 92 CWMCLDRCLDY--------SSSCPLCKTSLA 114 (156)
Q Consensus 92 C~~Ci~~~~~~--------~~~CP~Cr~~~~ 114 (156)
|..|+.++... ...|+.|+-.++
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 56666665532 347888876543
No 194
>PRK01343 zinc-binding protein; Provisional
Probab=39.37 E-value=19 Score=21.45 Aligned_cols=12 Identities=25% Similarity=0.761 Sum_probs=8.5
Q ss_pred CCCCcccccCCc
Q psy2479 103 SSSCPLCKTSLA 114 (156)
Q Consensus 103 ~~~CP~Cr~~~~ 114 (156)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 467888877764
No 195
>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=38.55 E-value=12 Score=31.89 Aligned_cols=11 Identities=45% Similarity=0.878 Sum_probs=6.7
Q ss_pred CCcccccCCcC
Q psy2479 105 SCPLCKTSLAD 115 (156)
Q Consensus 105 ~CP~Cr~~~~~ 115 (156)
.|+.|+=....
T Consensus 88 ~C~~C~Wss~~ 98 (483)
T PF05502_consen 88 SCSYCRWSSRD 98 (483)
T ss_pred ECCCceeeccc
Confidence 67777655433
No 196
>PF12773 DZR: Double zinc ribbon
Probab=37.70 E-value=27 Score=19.46 Aligned_cols=27 Identities=19% Similarity=0.395 Sum_probs=14.0
Q ss_pred cchHHhHHHHh---cCCCCCcccccCCcCC
Q psy2479 90 SYCWMCLDRCL---DYSSSCPLCKTSLADV 116 (156)
Q Consensus 90 ~fC~~Ci~~~~---~~~~~CP~Cr~~~~~~ 116 (156)
.||..|-.... .....||.|+..+...
T Consensus 13 ~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 13 KFCPHCGTPLPPPDQSKKICPNCGAENPPN 42 (50)
T ss_pred cCChhhcCChhhccCCCCCCcCCcCCCcCC
Confidence 35555543333 1245677777765443
No 197
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.36 E-value=19 Score=25.10 Aligned_cols=21 Identities=29% Similarity=1.008 Sum_probs=12.0
Q ss_pred chHHhHHHHhcCCCCCcccccCCc
Q psy2479 91 YCWMCLDRCLDYSSSCPLCKTSLA 114 (156)
Q Consensus 91 fC~~Ci~~~~~~~~~CP~Cr~~~~ 114 (156)
||..|-.... ..||.|..++.
T Consensus 30 fcskcgeati---~qcp~csasir 50 (160)
T COG4306 30 FCSKCGEATI---TQCPICSASIR 50 (160)
T ss_pred HHhhhchHHH---hcCCccCCccc
Confidence 6666654433 24666666653
No 198
>PLN02436 cellulose synthase A
Probab=37.03 E-value=25 Score=32.90 Aligned_cols=45 Identities=24% Similarity=0.542 Sum_probs=31.7
Q ss_pred ccccccccccccc----EEc---ccCCcchHHhHHHHhcC-CCCCcccccCCc
Q psy2479 70 FDCILCRSTIWKP----VTT---PCGHSYCWMCLDRCLDY-SSSCPLCKTSLA 114 (156)
Q Consensus 70 ~~C~IC~~~~~~p----v~~---~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~ 114 (156)
-.|.||.+.+-.. .+. .||-..|+.|.+--.+. +..||.|+....
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4799999986321 333 47777899998433333 789999987765
No 199
>PLN02189 cellulose synthase
Probab=36.73 E-value=27 Score=32.65 Aligned_cols=45 Identities=27% Similarity=0.586 Sum_probs=31.7
Q ss_pred cccccccccccc----cEEc---ccCCcchHHhHHHHhcC-CCCCcccccCCc
Q psy2479 70 FDCILCRSTIWK----PVTT---PCGHSYCWMCLDRCLDY-SSSCPLCKTSLA 114 (156)
Q Consensus 70 ~~C~IC~~~~~~----pv~~---~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~ 114 (156)
-.|.||.+.+-. -... .||-..|+.|.+--.+. +..||.|+....
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 479999998642 1333 47777899998433333 789999987765
No 200
>KOG1701|consensus
Probab=36.58 E-value=5 Score=33.47 Aligned_cols=12 Identities=25% Similarity=0.695 Sum_probs=6.3
Q ss_pred CCCcccccCCcC
Q psy2479 104 SSCPLCKTSLAD 115 (156)
Q Consensus 104 ~~CP~Cr~~~~~ 115 (156)
++|-+|...+..
T Consensus 361 F~Cv~C~r~ldg 372 (468)
T KOG1701|consen 361 FTCVVCARCLDG 372 (468)
T ss_pred eEEEEeccccCC
Confidence 355666555433
No 201
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=35.98 E-value=23 Score=25.84 Aligned_cols=10 Identities=30% Similarity=1.095 Sum_probs=7.5
Q ss_pred CCCCcccccC
Q psy2479 103 SSSCPLCKTS 112 (156)
Q Consensus 103 ~~~CP~Cr~~ 112 (156)
...||+|+.+
T Consensus 149 P~~CPiCga~ 158 (166)
T COG1592 149 PEVCPICGAP 158 (166)
T ss_pred CCcCCCCCCh
Confidence 5689999764
No 202
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=35.71 E-value=25 Score=18.66 Aligned_cols=13 Identities=23% Similarity=0.680 Sum_probs=8.3
Q ss_pred ccccccccccccc
Q psy2479 70 FDCILCRSTIWKP 82 (156)
Q Consensus 70 ~~C~IC~~~~~~p 82 (156)
+.||-|...|.-+
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 4677777766544
No 203
>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=35.44 E-value=25 Score=27.18 Aligned_cols=22 Identities=27% Similarity=0.777 Sum_probs=16.7
Q ss_pred ccccccccccccEEcccCCcchHHhHHHHh
Q psy2479 71 DCILCRSTIWKPVTTPCGHSYCWMCLDRCL 100 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~ 100 (156)
.|+||. .+-.+.||..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 499998 4456678999997754
No 204
>KOG2231|consensus
Probab=35.27 E-value=26 Score=31.10 Aligned_cols=45 Identities=27% Similarity=0.603 Sum_probs=33.3
Q ss_pred ccccccccccccEEcccCC-cchHHhHHHHhcC------CCCCcccccCCcC
Q psy2479 71 DCILCRSTIWKPVTTPCGH-SYCWMCLDRCLDY------SSSCPLCKTSLAD 115 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH-~fC~~Ci~~~~~~------~~~CP~Cr~~~~~ 115 (156)
.|+||..-..-...=.||| ..|..|....... ...||.|+..+..
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 4889987776666678999 7999998765532 3567999876533
No 205
>PRK05978 hypothetical protein; Provisional
Probab=33.72 E-value=29 Score=24.80 Aligned_cols=34 Identities=18% Similarity=0.420 Sum_probs=24.2
Q ss_pred cccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 70 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
..||-|.+ |+.| ..+++....||.|+..+.....
T Consensus 34 grCP~CG~----------G~LF-----~g~Lkv~~~C~~CG~~~~~~~a 67 (148)
T PRK05978 34 GRCPACGE----------GKLF-----RAFLKPVDHCAACGEDFTHHRA 67 (148)
T ss_pred CcCCCCCC----------Cccc-----ccccccCCCccccCCccccCCc
Confidence 46787776 4445 2567778999999998866544
No 206
>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=33.70 E-value=3.8 Score=23.99 Aligned_cols=32 Identities=34% Similarity=0.704 Sum_probs=17.5
Q ss_pred ccccc--cccccccc-------EEcc-cCCcchHHhHHHHhc
Q psy2479 70 FDCIL--CRSTIWKP-------VTTP-CGHSYCWMCLDRCLD 101 (156)
Q Consensus 70 ~~C~I--C~~~~~~p-------v~~~-CgH~fC~~Ci~~~~~ 101 (156)
..||- |...+... +.=+ |++.||..|-..|..
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~ 60 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHE 60 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCT
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCC
Confidence 36766 77665432 2225 999999999877643
No 207
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=33.62 E-value=21 Score=28.28 Aligned_cols=43 Identities=21% Similarity=0.440 Sum_probs=28.4
Q ss_pred ccccccccccccccEEc----ccCCcc--hHHhHHHHhcCCCCCccccc
Q psy2479 69 DFDCILCRSTIWKPVTT----PCGHSY--CWMCLDRCLDYSSSCPLCKT 111 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~~----~CgH~f--C~~Ci~~~~~~~~~CP~Cr~ 111 (156)
-..||+|...-...++. .=|-.| |.-|...|.....+|-.|..
T Consensus 185 ~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~ 233 (308)
T COG3058 185 RQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQ 233 (308)
T ss_pred cccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccc
Confidence 35899999876555332 233333 89999999887666666643
No 208
>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=33.37 E-value=28 Score=23.49 Aligned_cols=13 Identities=31% Similarity=0.692 Sum_probs=8.6
Q ss_pred CCCcccccCCcCC
Q psy2479 104 SSCPLCKTSLADV 116 (156)
Q Consensus 104 ~~CP~Cr~~~~~~ 116 (156)
-.||.|+..+...
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 4688887766544
No 209
>KOG1815|consensus
Probab=33.30 E-value=19 Score=30.25 Aligned_cols=21 Identities=29% Similarity=0.822 Sum_probs=16.2
Q ss_pred ccEEcccCCcchHHhHHHHhc
Q psy2479 81 KPVTTPCGHSYCWMCLDRCLD 101 (156)
Q Consensus 81 ~pv~~~CgH~fC~~Ci~~~~~ 101 (156)
.+|.=.|||.||..|...|..
T Consensus 178 ~~v~C~~g~~FC~~C~~~~H~ 198 (444)
T KOG1815|consen 178 VEVDCGCGHEFCFACGEESHS 198 (444)
T ss_pred cceeCCCCchhHhhccccccC
Confidence 345668999999999877664
No 210
>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=33.15 E-value=38 Score=26.48 Aligned_cols=45 Identities=13% Similarity=0.270 Sum_probs=24.6
Q ss_pred CCcchHHhHHHHhcCCCCCcccccCCcCCCccccHHHHHHHHHHHHHH
Q psy2479 88 GHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAINKTF 135 (156)
Q Consensus 88 gH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~ 135 (156)
.|.||..|.. .......|-.|......+.. -......+..|++.+
T Consensus 17 ~h~~CN~CG~-~~~~~~kC~~c~~~~vakfv--Rig~~~QL~dLV~~y 61 (258)
T PF06869_consen 17 THFICNSCGK-VVESNEKCSCCGCGPVAKFV--RIGGFSQLQDLVEQY 61 (258)
T ss_pred eehhhhhhhh-hhccCceeeccCCCccEEEE--EEcHHHHHHHHHHHH
Confidence 5889999987 55556678666222222222 113345555565555
No 211
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=32.33 E-value=29 Score=21.16 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=13.1
Q ss_pred hHHhHHHHhcCCCCCcccccCC
Q psy2479 92 CWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 92 C~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
|..|- .+.....||.|+..-
T Consensus 8 C~~C~--~i~~~~~Cp~Cgs~~ 27 (64)
T PRK06393 8 CKKCK--RLTPEKTCPVHGDEK 27 (64)
T ss_pred HhhCC--cccCCCcCCCCCCCc
Confidence 55663 334456899998764
No 212
>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=32.16 E-value=16 Score=18.26 Aligned_cols=10 Identities=40% Similarity=1.281 Sum_probs=5.3
Q ss_pred CCcccccCCc
Q psy2479 105 SCPLCKTSLA 114 (156)
Q Consensus 105 ~CP~Cr~~~~ 114 (156)
.||.|+..+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4899988775
No 213
>KOG2593|consensus
Probab=31.99 E-value=49 Score=27.83 Aligned_cols=68 Identities=13% Similarity=0.144 Sum_probs=38.7
Q ss_pred CCcccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc--------cccHHHHHHHHHHHHHHHH
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI--------LATTCIEKRLKAINKTFEL 137 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~--------~~~~~~n~~l~~l~~~~~~ 137 (156)
....+.||+|..-|..- =..||...-...+.|-.|+..+..... .....++..+..|+..++.
T Consensus 125 ~~~~Y~Cp~C~kkyt~L---------ea~~L~~~~~~~F~C~~C~gelveDe~~~~~~e~~~~l~~~~~Q~~pi~d~Lk~ 195 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSL---------EALQLLDNETGEFHCENCGGELVEDENKLPSKESRTALNRLMEQLEPIIDLLKE 195 (436)
T ss_pred ccccccCCccccchhhh---------HHHHhhcccCceEEEecCCCchhcccccCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567899988877652 122322222235778888766633222 1122455667777788877
Q ss_pred hcccc
Q psy2479 138 IDQSE 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
+...+
T Consensus 196 ~e~i~ 200 (436)
T KOG2593|consen 196 LEGIK 200 (436)
T ss_pred hhccc
Confidence 77644
No 214
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=31.97 E-value=24 Score=23.37 Aligned_cols=26 Identities=23% Similarity=0.579 Sum_probs=15.9
Q ss_pred chHHhHHHHhcC----CCCCcccccCCcCC
Q psy2479 91 YCWMCLDRCLDY----SSSCPLCKTSLADV 116 (156)
Q Consensus 91 fC~~Ci~~~~~~----~~~CP~Cr~~~~~~ 116 (156)
.|..|....-.. ...||.|+.+|...
T Consensus 64 iCGvC~~~LT~~EY~~~~~Cp~C~spFNp~ 93 (105)
T COG4357 64 ICGVCRKLLTRAEYGMCGSCPYCQSPFNPG 93 (105)
T ss_pred EhhhhhhhhhHHHHhhcCCCCCcCCCCCcc
Confidence 455565433221 46799999988543
No 215
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.88 E-value=26 Score=27.06 Aligned_cols=22 Identities=23% Similarity=0.638 Sum_probs=15.8
Q ss_pred cccccccccccc---cEEcccCCcc
Q psy2479 70 FDCILCRSTIWK---PVTTPCGHSY 91 (156)
Q Consensus 70 ~~C~IC~~~~~~---pv~~~CgH~f 91 (156)
+.||+|...+.. ...-+.||+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 689999998852 2333678887
No 216
>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=31.47 E-value=15 Score=20.59 Aligned_cols=40 Identities=20% Similarity=0.399 Sum_probs=23.5
Q ss_pred ccccccccccccEEc---ccCCcchHHhHHHHhcC------CCCCcccc
Q psy2479 71 DCILCRSTIWKPVTT---PCGHSYCWMCLDRCLDY------SSSCPLCK 110 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~---~CgH~fC~~Ci~~~~~~------~~~CP~Cr 110 (156)
.|.||.....+...+ .|+..||..|+...... ...||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 377787733333232 67778888887544331 35677664
No 217
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=31.44 E-value=28 Score=26.87 Aligned_cols=16 Identities=31% Similarity=0.694 Sum_probs=9.7
Q ss_pred Cccccccccccccccc
Q psy2479 67 SSDFDCILCRSTIWKP 82 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~p 82 (156)
.-.+.|+||+..|-.|
T Consensus 258 ~~GfvCsVCLsvfc~p 273 (296)
T COG5242 258 LLGFVCSVCLSVFCRP 273 (296)
T ss_pred EEeeehhhhheeecCC
Confidence 3456677777666444
No 218
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=30.53 E-value=19 Score=29.72 Aligned_cols=30 Identities=33% Similarity=0.743 Sum_probs=23.7
Q ss_pred ccccccccc-ccccccEEcccCCcchHHhHH
Q psy2479 68 SDFDCILCR-STIWKPVTTPCGHSYCWMCLD 97 (156)
Q Consensus 68 ~~~~C~IC~-~~~~~pv~~~CgH~fC~~Ci~ 97 (156)
....|.-|. .....-..+|||-.||+.|+.
T Consensus 38 gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 38 GKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred CcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 356898887 445556789999999999984
No 219
>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=30.24 E-value=29 Score=19.30 Aligned_cols=16 Identities=25% Similarity=0.505 Sum_probs=12.4
Q ss_pred CCCCcccccCCcCCCc
Q psy2479 103 SSSCPLCKTSLADVGI 118 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~ 118 (156)
.+.||.|+.+|+.+..
T Consensus 8 ~K~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 8 SKICPVCGRPFTWRKK 23 (42)
T ss_pred CCcCcccCCcchHHHH
Confidence 5789999988876544
No 220
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=29.97 E-value=29 Score=18.33 Aligned_cols=11 Identities=18% Similarity=0.489 Sum_probs=6.1
Q ss_pred ccccccccccc
Q psy2479 70 FDCILCRSTIW 80 (156)
Q Consensus 70 ~~C~IC~~~~~ 80 (156)
+.|+-|...|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 35666665554
No 221
>KOG0802|consensus
Probab=29.76 E-value=36 Score=29.38 Aligned_cols=47 Identities=28% Similarity=0.668 Sum_probs=36.1
Q ss_pred cccccccccccccccEEcccCCcchHHhHHHHhcCCCCCcccccCCcCCCc
Q psy2479 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGI 118 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 118 (156)
..-.|.+|.... ...+++|. +..|+..|+.....||.|+..+.....
T Consensus 478 ~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 346788998888 55667887 578888899988999999877654444
No 222
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=29.75 E-value=1.3e+02 Score=18.03 Aligned_cols=18 Identities=11% Similarity=0.401 Sum_probs=13.5
Q ss_pred CCCCcccccCCcCCCccc
Q psy2479 103 SSSCPLCKTSLADVGILA 120 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~~~ 120 (156)
++.|++|.+++.....+.
T Consensus 8 H~HC~VCg~aIp~de~~C 25 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVC 25 (64)
T ss_pred CccccccCCcCCCccchH
Confidence 577899988887776643
No 223
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=29.53 E-value=29 Score=21.00 Aligned_cols=12 Identities=25% Similarity=0.886 Sum_probs=9.8
Q ss_pred CCCCcccccCCc
Q psy2479 103 SSSCPLCKTSLA 114 (156)
Q Consensus 103 ~~~CP~Cr~~~~ 114 (156)
...||.|++++.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 368999999874
No 224
>KOG2113|consensus
Probab=29.15 E-value=16 Score=29.46 Aligned_cols=51 Identities=14% Similarity=0.341 Sum_probs=35.9
Q ss_pred CCcccccccccccccccEEcccCCc-chHHhHHHH-hcCCCCCcccccCCcCC
Q psy2479 66 DSSDFDCILCRSTIWKPVTTPCGHS-YCWMCLDRC-LDYSSSCPLCKTSLADV 116 (156)
Q Consensus 66 ~~~~~~C~IC~~~~~~pv~~~CgH~-fC~~Ci~~~-~~~~~~CP~Cr~~~~~~ 116 (156)
......|.+|...-.-....+|||. ||-.|.-+- ++....|++|...+...
T Consensus 133 ~~~ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ra 185 (394)
T KOG2113|consen 133 KGATIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVTRA 185 (394)
T ss_pred ccCccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhhhh
Confidence 3456678888776655556689995 999997655 44567799997665443
No 225
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=28.07 E-value=45 Score=31.38 Aligned_cols=45 Identities=29% Similarity=0.588 Sum_probs=31.4
Q ss_pred ccccccccccccc----EEc---ccCCcchHHhHHHHh-cCCCCCcccccCCc
Q psy2479 70 FDCILCRSTIWKP----VTT---PCGHSYCWMCLDRCL-DYSSSCPLCKTSLA 114 (156)
Q Consensus 70 ~~C~IC~~~~~~p----v~~---~CgH~fC~~Ci~~~~-~~~~~CP~Cr~~~~ 114 (156)
-.|.||.+.+--. .+. .||-..|+.|.+-=. ..+..||.|+....
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4799999875421 233 577778999984222 23789999987765
No 226
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.54 E-value=33 Score=20.88 Aligned_cols=14 Identities=21% Similarity=0.548 Sum_probs=11.5
Q ss_pred CCCCcccccCCcCC
Q psy2479 103 SSSCPLCKTSLADV 116 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~ 116 (156)
...||.|++++...
T Consensus 7 ~v~CP~Cgkpv~w~ 20 (65)
T COG3024 7 TVPCPTCGKPVVWG 20 (65)
T ss_pred cccCCCCCCccccc
Confidence 57899999998763
No 227
>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=27.29 E-value=32 Score=18.84 Aligned_cols=21 Identities=29% Similarity=0.839 Sum_probs=9.8
Q ss_pred ccccccccEEcc-cCCcchHHh
Q psy2479 75 CRSTIWKPVTTP-CGHSYCWMC 95 (156)
Q Consensus 75 C~~~~~~pv~~~-CgH~fC~~C 95 (156)
|.....-|+.=+ |+..||..=
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTT
T ss_pred CcCccCCCeECCCCCcccCccc
Confidence 555555555544 888887653
No 228
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=27.13 E-value=42 Score=23.64 Aligned_cols=16 Identities=25% Similarity=0.598 Sum_probs=12.7
Q ss_pred CCCCcccccCCcCCCc
Q psy2479 103 SSSCPLCKTSLADVGI 118 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~ 118 (156)
.+.||.|+..+...+-
T Consensus 123 ~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 123 TFTCPRCGEELEEDDN 138 (147)
T ss_pred cEECCCCCCEEEEcCc
Confidence 3899999998866555
No 229
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.97 E-value=31 Score=27.86 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=10.4
Q ss_pred cCCcchHHhHHHHhcCCCCCccc
Q psy2479 87 CGHSYCWMCLDRCLDYSSSCPLC 109 (156)
Q Consensus 87 CgH~fC~~Ci~~~~~~~~~CP~C 109 (156)
|..+||.+|=.-.......|+.|
T Consensus 394 CK~~FC~dCdvfiHe~Lh~C~gC 416 (421)
T COG5151 394 CKSTFCSDCDVFIHETLHFCIGC 416 (421)
T ss_pred hhhhhhhhhHHHHHHHHhhCCCC
Confidence 55555555533222223445555
No 230
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=26.96 E-value=16 Score=28.82 Aligned_cols=28 Identities=21% Similarity=0.523 Sum_probs=18.7
Q ss_pred ccCCcchHHhHHHHhcC----CCCCcccccCC
Q psy2479 86 PCGHSYCWMCLDRCLDY----SSSCPLCKTSL 113 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~----~~~CP~Cr~~~ 113 (156)
.-.|.||..|-.+.... ...||.|+..+
T Consensus 108 ~~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 108 YRSHRFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred HhhCcCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 34577888887655543 46888887654
No 231
>KOG2066|consensus
Probab=26.76 E-value=22 Score=32.15 Aligned_cols=41 Identities=24% Similarity=0.373 Sum_probs=27.5
Q ss_pred cccccccccccc-------ccEEcccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 69 DFDCILCRSTIW-------KPVTTPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 69 ~~~C~IC~~~~~-------~pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
+-.|..|.+... .-+...|||.|+..|+......+. |-.|.
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 347888887544 235679999999999865443322 55553
No 232
>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=26.39 E-value=20 Score=20.95 Aligned_cols=13 Identities=23% Similarity=0.974 Sum_probs=6.0
Q ss_pred CCCCcccccCCcC
Q psy2479 103 SSSCPLCKTSLAD 115 (156)
Q Consensus 103 ~~~CP~Cr~~~~~ 115 (156)
..+||.|+..+.+
T Consensus 24 PatCP~C~a~~~~ 36 (54)
T PF09237_consen 24 PATCPICGAVIRQ 36 (54)
T ss_dssp -EE-TTT--EESS
T ss_pred CCCCCcchhhccc
Confidence 3588888776643
No 233
>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=26.18 E-value=22 Score=16.09 Aligned_cols=13 Identities=31% Similarity=0.948 Sum_probs=6.7
Q ss_pred CCcccccCCcCCC
Q psy2479 105 SCPLCKTSLADVG 117 (156)
Q Consensus 105 ~CP~Cr~~~~~~~ 117 (156)
.||.|+..+....
T Consensus 2 ~C~~C~~~f~~~~ 14 (23)
T PF00096_consen 2 KCPICGKSFSSKS 14 (23)
T ss_dssp EETTTTEEESSHH
T ss_pred CCCCCCCccCCHH
Confidence 3566655554433
No 234
>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=26.09 E-value=19 Score=17.96 Aligned_cols=25 Identities=20% Similarity=0.282 Sum_probs=9.6
Q ss_pred ccccccccccccEEcccCCcchHHh
Q psy2479 71 DCILCRSTIWKPVTTPCGHSYCWMC 95 (156)
Q Consensus 71 ~C~IC~~~~~~pv~~~CgH~fC~~C 95 (156)
.|+.|-..+.+...-.=...||..|
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rC 27 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRC 27 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTT
T ss_pred cCccCCCcceEeEecCCCCeECcCC
Confidence 4666666655443333333344444
No 235
>KOG3726|consensus
Probab=25.49 E-value=35 Score=30.34 Aligned_cols=38 Identities=32% Similarity=0.545 Sum_probs=25.2
Q ss_pred cccccccccccc----cEEcccCCcchHHhHHHHhcCCCCCcccc
Q psy2479 70 FDCILCRSTIWK----PVTTPCGHSYCWMCLDRCLDYSSSCPLCK 110 (156)
Q Consensus 70 ~~C~IC~~~~~~----pv~~~CgH~fC~~Ci~~~~~~~~~CP~Cr 110 (156)
-.|-+|...-.. +.++.|+.+||..|.. .-...||.|.
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~---~~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSL---DYASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhh---hhhccCcccC
Confidence 367777653221 2345899999999954 3346799995
No 236
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=25.33 E-value=30 Score=20.35 Aligned_cols=9 Identities=22% Similarity=0.553 Sum_probs=7.0
Q ss_pred ccccccccc
Q psy2479 69 DFDCILCRS 77 (156)
Q Consensus 69 ~~~C~IC~~ 77 (156)
.+.||+|..
T Consensus 4 Wi~CP~Cgn 12 (55)
T PF14205_consen 4 WILCPICGN 12 (55)
T ss_pred EEECCCCCC
Confidence 578999984
No 237
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=25.19 E-value=44 Score=20.15 Aligned_cols=20 Identities=25% Similarity=0.795 Sum_probs=12.2
Q ss_pred hHHhHHHHhcCCCCCcccccCC
Q psy2479 92 CWMCLDRCLDYSSSCPLCKTSL 113 (156)
Q Consensus 92 C~~Ci~~~~~~~~~CP~Cr~~~ 113 (156)
|..|- .+.....||.|+..-
T Consensus 6 C~~C~--~i~~~~~CP~Cgs~~ 25 (61)
T PRK08351 6 CRHCH--YITTEDRCPVCGSRD 25 (61)
T ss_pred hhhCC--cccCCCcCCCCcCCc
Confidence 55553 233456799997654
No 238
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=25.14 E-value=34 Score=26.48 Aligned_cols=50 Identities=16% Similarity=0.323 Sum_probs=36.8
Q ss_pred ccccccccccccccEE-cccCCcchHHhHHHHhcC--CCCCcc--cccCCcCCCc
Q psy2479 69 DFDCILCRSTIWKPVT-TPCGHSYCWMCLDRCLDY--SSSCPL--CKTSLADVGI 118 (156)
Q Consensus 69 ~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~--~~~CP~--Cr~~~~~~~~ 118 (156)
+..|||-......|+. ..|.|.|-++=|...+.. ...||. |.+.+.-.+.
T Consensus 189 ~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~ 243 (275)
T COG5627 189 SNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPY 243 (275)
T ss_pred cccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheeccch
Confidence 5789998877777754 589999999999999874 677875 5444444444
No 239
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=25.06 E-value=29 Score=21.06 Aligned_cols=21 Identities=24% Similarity=0.699 Sum_probs=12.3
Q ss_pred hHHhHHHHhcCCCCCcccccC
Q psy2479 92 CWMCLDRCLDYSSSCPLCKTS 112 (156)
Q Consensus 92 C~~Ci~~~~~~~~~CP~Cr~~ 112 (156)
|..|..-.-.....||.|+..
T Consensus 7 C~~Ck~l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 7 CKNCKRLTPEDTEICPVCGST 27 (64)
T ss_pred HhhccccCCCCCccCCCCCCc
Confidence 666642222224569999876
No 240
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=24.97 E-value=46 Score=19.65 Aligned_cols=36 Identities=8% Similarity=0.095 Sum_probs=18.8
Q ss_pred CCCCcccccCCcCCCccccHHHHHHHHHHHHHHHHhc
Q psy2479 103 SSSCPLCKTSLADVGILATTCIEKRLKAINKTFELID 139 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~ 139 (156)
.+.||.|+.+..--.. .+..=...-..+.+.++.+.
T Consensus 14 ~~~Cp~cGipthcS~e-hw~~D~e~H~~~c~~LRqvN 49 (55)
T PF13824_consen 14 NFECPDCGIPTHCSEE-HWEDDYEEHRQLCERLRQVN 49 (55)
T ss_pred CCcCCCCCCcCccCHH-HHHHhHHHHHHHHHHHHHhc
Confidence 6889999887643222 01111122334666666644
No 241
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=24.67 E-value=29 Score=23.07 Aligned_cols=32 Identities=19% Similarity=0.459 Sum_probs=21.8
Q ss_pred cCCCcccccccccccccccEE--cccCCcchHHh
Q psy2479 64 RADSSDFDCILCRSTIWKPVT--TPCGHSYCWMC 95 (156)
Q Consensus 64 ~~~~~~~~C~IC~~~~~~pv~--~~CgH~fC~~C 95 (156)
....++|+|.-|+-+....-. -.=|+.+|..|
T Consensus 65 P~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 65 PKQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred cCCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 345678999999876655422 23477788877
No 242
>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=24.33 E-value=30 Score=15.35 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=5.2
Q ss_pred CCcccccCCcCC
Q psy2479 105 SCPLCKTSLADV 116 (156)
Q Consensus 105 ~CP~Cr~~~~~~ 116 (156)
.|+.|+..+...
T Consensus 2 ~C~~C~~~~~~~ 13 (24)
T PF13894_consen 2 QCPICGKSFRSK 13 (24)
T ss_dssp E-SSTS-EESSH
T ss_pred CCcCCCCcCCcH
Confidence 366665555443
No 243
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.95 E-value=87 Score=29.47 Aligned_cols=46 Identities=22% Similarity=0.508 Sum_probs=32.2
Q ss_pred cccccccccccccc----EEc---ccCCcchHHhHHHHhcC-CCCCcccccCCc
Q psy2479 69 DFDCILCRSTIWKP----VTT---PCGHSYCWMCLDRCLDY-SSSCPLCKTSLA 114 (156)
Q Consensus 69 ~~~C~IC~~~~~~p----v~~---~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~ 114 (156)
.-.|.||.+.+-.. ... .|+-..|+.|.+--.+. +..||.|+....
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45799999875431 222 57777999998433332 789999987765
No 244
>KOG1356|consensus
Probab=23.61 E-value=32 Score=31.38 Aligned_cols=33 Identities=21% Similarity=0.493 Sum_probs=26.3
Q ss_pred cccccccccccccccEE--cccCCcchHHhHHHHh
Q psy2479 68 SDFDCILCRSTIWKPVT--TPCGHSYCWMCLDRCL 100 (156)
Q Consensus 68 ~~~~C~IC~~~~~~pv~--~~CgH~fC~~Ci~~~~ 100 (156)
..-.|..|.....+-.- ..||+.+|..|+..|.
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 34579999888776433 3799999999999995
No 245
>PLN02195 cellulose synthase A
Probab=22.49 E-value=65 Score=30.01 Aligned_cols=47 Identities=17% Similarity=0.354 Sum_probs=32.5
Q ss_pred ccccccccccccc----EEc---ccCCcchHHhHHHHhc-CCCCCcccccCCcCC
Q psy2479 70 FDCILCRSTIWKP----VTT---PCGHSYCWMCLDRCLD-YSSSCPLCKTSLADV 116 (156)
Q Consensus 70 ~~C~IC~~~~~~p----v~~---~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~ 116 (156)
-.|.||.+.+--. ... .||-..|+.|.+-=.+ .+..||.|+......
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~~ 61 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDAE 61 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccccc
Confidence 4699999865421 222 6888899999843222 378999999888733
No 246
>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=22.26 E-value=45 Score=22.65 Aligned_cols=12 Identities=42% Similarity=1.035 Sum_probs=8.9
Q ss_pred EEcccCCcchHH
Q psy2479 83 VTTPCGHSYCWM 94 (156)
Q Consensus 83 v~~~CgH~fC~~ 94 (156)
+.-.|||.||..
T Consensus 25 vkc~CGh~f~d~ 36 (112)
T PF08882_consen 25 VKCDCGHEFCDA 36 (112)
T ss_pred eeccCCCeecCh
Confidence 344799999864
No 247
>PLN02248 cellulose synthase-like protein
Probab=22.03 E-value=75 Score=30.10 Aligned_cols=30 Identities=27% Similarity=0.639 Sum_probs=25.3
Q ss_pred ccCCcchHHhHHHHhcCCCCCcccccCCcC
Q psy2479 86 PCGHSYCWMCLDRCLDYSSSCPLCKTSLAD 115 (156)
Q Consensus 86 ~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 115 (156)
.|++..|++|....+.....||-|+.+...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 467778999999999889999999887644
No 248
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=22.02 E-value=55 Score=18.09 Aligned_cols=23 Identities=22% Similarity=0.431 Sum_probs=11.8
Q ss_pred cccccccccccEEcccCCcchHH
Q psy2479 72 CILCRSTIWKPVTTPCGHSYCWM 94 (156)
Q Consensus 72 C~IC~~~~~~pv~~~CgH~fC~~ 94 (156)
|..|...-.--+=+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55555332212335688877743
No 249
>KOG4621|consensus
Probab=21.91 E-value=30 Score=24.26 Aligned_cols=34 Identities=26% Similarity=0.705 Sum_probs=25.5
Q ss_pred CCCcccccccccccccccEEcccCCc-chHH-hHHH
Q psy2479 65 ADSSDFDCILCRSTIWKPVTTPCGHS-YCWM-CLDR 98 (156)
Q Consensus 65 ~~~~~~~C~IC~~~~~~pv~~~CgH~-fC~~-Ci~~ 98 (156)
...+.+.|..|.+.+.....+|-||+ ||+. |.+.
T Consensus 77 Vdq~~Lhcdlceeplk~ccfspnghhcfcrtp~YqG 112 (167)
T KOG4621|consen 77 VDQDKLHCDLCEEPLKSCCFSPNGHHCFCRTPCYQG 112 (167)
T ss_pred ecCCceehHHHHhHHHHhccCCCCccccccCCcccc
Confidence 34567889999999988888888875 8875 4433
No 250
>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=21.68 E-value=24 Score=20.95 Aligned_cols=12 Identities=25% Similarity=0.792 Sum_probs=6.3
Q ss_pred CCCcccccCCcC
Q psy2479 104 SSCPLCKTSLAD 115 (156)
Q Consensus 104 ~~CP~Cr~~~~~ 115 (156)
..||.|++++..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 469999988765
No 251
>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=21.67 E-value=39 Score=19.80 Aligned_cols=12 Identities=25% Similarity=0.625 Sum_probs=8.4
Q ss_pred CCCcccccCCcC
Q psy2479 104 SSCPLCKTSLAD 115 (156)
Q Consensus 104 ~~CP~Cr~~~~~ 115 (156)
+.||.|...+.-
T Consensus 3 ~~CP~CG~~iev 14 (54)
T TIGR01206 3 FECPDCGAEIEL 14 (54)
T ss_pred cCCCCCCCEEec
Confidence 578888876643
No 252
>PLN02400 cellulose synthase
Probab=21.64 E-value=55 Score=30.84 Aligned_cols=45 Identities=24% Similarity=0.544 Sum_probs=31.2
Q ss_pred ccccccccccccc----EEc---ccCCcchHHhHHHHhc-CCCCCcccccCCc
Q psy2479 70 FDCILCRSTIWKP----VTT---PCGHSYCWMCLDRCLD-YSSSCPLCKTSLA 114 (156)
Q Consensus 70 ~~C~IC~~~~~~p----v~~---~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~ 114 (156)
-.|.||.+.+--. .+. .|+-..|+.|.+--.+ .+..||.|+....
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 4799999875421 233 5777789999842222 2789999987765
No 253
>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=21.63 E-value=19 Score=24.41 Aligned_cols=10 Identities=30% Similarity=0.733 Sum_probs=7.5
Q ss_pred CCCCcccccC
Q psy2479 103 SSSCPLCKTS 112 (156)
Q Consensus 103 ~~~CP~Cr~~ 112 (156)
...||.|+..
T Consensus 86 ~~~CP~Cgs~ 95 (115)
T TIGR00100 86 LYRCPKCHGI 95 (115)
T ss_pred CccCcCCcCC
Confidence 4679999764
No 254
>KOG4218|consensus
Probab=21.59 E-value=68 Score=26.38 Aligned_cols=14 Identities=14% Similarity=0.254 Sum_probs=10.4
Q ss_pred cccccccccccccc
Q psy2479 68 SDFDCILCRSTIWK 81 (156)
Q Consensus 68 ~~~~C~IC~~~~~~ 81 (156)
.+-.||+|.+-...
T Consensus 14 l~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG 27 (475)
T ss_pred cccccccccCcccc
Confidence 34579999987665
No 255
>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=21.27 E-value=62 Score=20.99 Aligned_cols=16 Identities=13% Similarity=0.331 Sum_probs=11.6
Q ss_pred CCCCcccccCCcCCCc
Q psy2479 103 SSSCPLCKTSLADVGI 118 (156)
Q Consensus 103 ~~~CP~Cr~~~~~~~~ 118 (156)
...|..|++++.....
T Consensus 58 rGrCr~C~~~I~~~y~ 73 (92)
T PF06750_consen 58 RGRCRYCGAPIPPRYP 73 (92)
T ss_pred CCCCcccCCCCChHHH
Confidence 5688888887765554
No 256
>KOG1842|consensus
Probab=21.18 E-value=31 Score=29.17 Aligned_cols=33 Identities=24% Similarity=0.346 Sum_probs=25.2
Q ss_pred CcccccccccccccccEE----cccCCcchHHhHHHH
Q psy2479 67 SSDFDCILCRSTIWKPVT----TPCGHSYCWMCLDRC 99 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~----~~CgH~fC~~Ci~~~ 99 (156)
.+...||+|..-|.-... .-||.+.|..|....
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~i 214 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFI 214 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHHHHHHHHhc
Confidence 456789999998876433 259999999997543
No 257
>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=20.82 E-value=62 Score=24.33 Aligned_cols=23 Identities=30% Similarity=0.680 Sum_probs=16.2
Q ss_pred ccccEEcccC----CcchHHhHHHHhc
Q psy2479 79 IWKPVTTPCG----HSYCWMCLDRCLD 101 (156)
Q Consensus 79 ~~~pv~~~Cg----H~fC~~Ci~~~~~ 101 (156)
+..|....|. |+||..++..|+.
T Consensus 151 f~~p~~~~C~~gHfHHyCs~HV~~WL~ 177 (199)
T PF12132_consen 151 FVKPSVDECEYGHFHHYCSQHVNSWLN 177 (199)
T ss_pred ccCCCCCCCCCCCcChhhHHHHHHHHH
Confidence 4445445555 6789999999986
No 258
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=20.68 E-value=39 Score=18.20 Aligned_cols=11 Identities=45% Similarity=1.011 Sum_probs=7.1
Q ss_pred CCcccccCCcC
Q psy2479 105 SCPLCKTSLAD 115 (156)
Q Consensus 105 ~CP~Cr~~~~~ 115 (156)
.||.|+..+..
T Consensus 1 ~CP~C~~~l~~ 11 (41)
T PF13453_consen 1 KCPRCGTELEP 11 (41)
T ss_pred CcCCCCcccce
Confidence 48888775543
No 259
>KOG3475|consensus
Probab=20.57 E-value=44 Score=21.52 Aligned_cols=28 Identities=29% Similarity=0.603 Sum_probs=21.2
Q ss_pred CCcchHHhHHHHhc-CCCCCcccccCCcC
Q psy2479 88 GHSYCWMCLDRCLD-YSSSCPLCKTSLAD 115 (156)
Q Consensus 88 gH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~ 115 (156)
.|+.|..|-...+. +..+|..|.-+-..
T Consensus 15 shtlC~RCG~~syH~QKstC~~CGYpaak 43 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQKSTCSSCGYPAAK 43 (92)
T ss_pred chHHHHHhCchhhhhhcccccccCCcchh
Confidence 58899999877664 46899999876533
No 260
>KOG4080|consensus
Probab=20.48 E-value=69 Score=23.37 Aligned_cols=28 Identities=18% Similarity=0.395 Sum_probs=17.5
Q ss_pred CcccccccccccccccEEcccCCcchHHhHHHHhc
Q psy2479 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLD 101 (156)
Q Consensus 67 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~ 101 (156)
..-..||+|.++- =.|+.|..|..+..+
T Consensus 91 ~nl~~CP~CGh~k-------~a~~LC~~Cy~kV~k 118 (176)
T KOG4080|consen 91 DNLNTCPACGHIK-------PAHTLCDYCYAKVHK 118 (176)
T ss_pred hccccCcccCccc-------cccccHHHHHHHHHH
Confidence 3345677777632 236788888765543
Done!