Query psy12278
Match_columns 300
No_of_seqs 241 out of 1490
Neff 7.5
Searched_HMMs 46136
Date Fri Aug 16 23:12:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12278.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12278hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3002|consensus 100.0 7.1E-52 1.5E-56 379.3 13.3 248 51-298 43-294 (299)
2 PF03145 Sina: Seven in absent 100.0 3.3E-44 7.2E-49 314.3 14.5 196 100-296 1-198 (198)
3 cd03829 Sina Seven in absentia 100.0 4.6E-40 1E-44 258.0 4.5 127 173-299 1-127 (127)
4 KOG0297|consensus 99.1 1.4E-10 3.1E-15 111.4 6.1 114 52-170 17-138 (391)
5 PF14835 zf-RING_6: zf-RING of 98.4 7.4E-08 1.6E-12 68.0 -0.2 57 52-108 3-64 (65)
6 PF02176 zf-TRAF: TRAF-type zi 98.3 4.5E-07 9.8E-12 63.8 3.0 55 109-165 5-60 (60)
7 TIGR00599 rad18 DNA repair pro 98.2 4.2E-07 9.2E-12 87.0 1.2 65 47-112 17-88 (397)
8 KOG0287|consensus 98.2 1.7E-07 3.6E-12 86.2 -2.1 65 47-112 14-85 (442)
9 PF15227 zf-C3HC4_4: zinc fing 98.0 1E-06 2.2E-11 57.8 -0.4 34 59-93 1-42 (42)
10 smart00504 Ubox Modified RING 98.0 3E-06 6.6E-11 60.0 2.0 54 56-110 1-61 (63)
11 PLN03208 E3 ubiquitin-protein 98.0 3.1E-06 6.6E-11 73.1 1.6 47 51-98 13-79 (193)
12 PF13923 zf-C3HC4_2: Zinc fing 97.9 1.5E-06 3.3E-11 55.9 -0.4 35 59-93 1-39 (39)
13 PF13920 zf-C3HC4_3: Zinc fing 97.9 1.9E-06 4.2E-11 58.5 -0.5 42 56-98 2-48 (50)
14 KOG0320|consensus 97.9 5.9E-06 1.3E-10 69.9 1.8 45 54-98 129-178 (187)
15 KOG0823|consensus 97.8 1.5E-05 3.3E-10 70.2 3.7 45 53-98 44-95 (230)
16 COG5432 RAD18 RING-finger-cont 97.8 5.8E-06 1.3E-10 74.8 0.1 51 47-98 16-70 (391)
17 PF14634 zf-RING_5: zinc-RING 97.5 3.1E-05 6.7E-10 51.1 0.9 38 58-95 1-44 (44)
18 PF13639 zf-RING_2: Ring finge 97.3 2.7E-05 5.9E-10 51.3 -1.3 37 58-94 2-44 (44)
19 PHA02929 N1R/p28-like protein; 97.3 8.2E-05 1.8E-09 66.7 0.8 46 54-99 172-228 (238)
20 PF00097 zf-C3HC4: Zinc finger 97.2 6.7E-05 1.5E-09 48.4 -0.1 35 59-93 1-41 (41)
21 PF04564 U-box: U-box domain; 97.2 8.6E-05 1.9E-09 54.5 0.1 58 54-112 2-67 (73)
22 cd00162 RING RING-finger (Real 97.2 0.00017 3.7E-09 46.5 1.5 39 58-96 1-44 (45)
23 PLN03086 PRLI-interacting fact 97.2 0.00056 1.2E-08 68.4 5.4 118 54-183 405-551 (567)
24 TIGR00570 cdk7 CDK-activating 97.0 0.00028 6E-09 65.4 1.7 44 55-98 2-54 (309)
25 KOG0317|consensus 96.9 0.00027 5.8E-09 64.2 0.8 44 54-98 237-284 (293)
26 PLN03086 PRLI-interacting fact 96.9 0.0039 8.5E-08 62.5 8.6 102 55-171 432-565 (567)
27 KOG0978|consensus 96.6 0.00025 5.3E-09 72.1 -2.1 48 50-98 637-689 (698)
28 KOG0311|consensus 96.6 6.1E-05 1.3E-09 70.0 -6.0 54 47-100 34-92 (381)
29 KOG2164|consensus 96.6 0.00046 1E-08 67.2 -0.4 43 56-99 186-237 (513)
30 smart00184 RING Ring finger. E 96.5 0.0012 2.6E-08 40.8 1.2 34 59-93 1-39 (39)
31 PF07800 DUF1644: Protein of u 96.4 0.0074 1.6E-07 50.4 5.9 27 145-173 109-135 (162)
32 KOG2177|consensus 96.4 0.00059 1.3E-08 61.6 -0.7 66 49-115 6-76 (386)
33 PHA02926 zinc finger-like prot 96.3 0.00065 1.4E-08 59.8 -0.9 45 54-99 168-231 (242)
34 PF13445 zf-RING_UBOX: RING-ty 96.3 0.00058 1.3E-08 44.9 -1.3 27 59-87 1-31 (43)
35 COG5574 PEX10 RING-finger-cont 96.2 0.0013 2.9E-08 59.1 0.1 43 54-97 213-261 (271)
36 KOG4159|consensus 95.8 0.0023 5E-08 61.6 -0.3 51 47-98 75-129 (398)
37 PF02176 zf-TRAF: TRAF-type zi 95.1 0.01 2.2E-07 41.3 1.3 39 135-175 1-40 (60)
38 KOG2879|consensus 94.9 0.024 5.1E-07 51.5 3.3 44 54-97 237-286 (298)
39 COG5152 Uncharacterized conser 94.2 0.011 2.4E-07 51.0 -0.5 41 56-97 196-240 (259)
40 KOG1813|consensus 93.9 0.034 7.4E-07 50.9 2.1 48 56-104 241-292 (313)
41 PF14447 Prok-RING_4: Prokaryo 93.4 0.071 1.5E-06 36.7 2.4 41 56-98 7-50 (55)
42 PF14570 zf-RING_4: RING/Ubox 93.2 0.016 3.5E-07 38.8 -0.9 39 59-97 1-47 (48)
43 KOG4172|consensus 92.2 0.01 2.3E-07 40.6 -2.9 40 57-98 8-54 (62)
44 COG5222 Uncharacterized conser 91.5 0.053 1.1E-06 49.8 -0.1 40 57-96 275-319 (427)
45 PF12678 zf-rbx1: RING-H2 zinc 91.4 0.054 1.2E-06 39.7 -0.1 37 58-94 21-73 (73)
46 KOG4275|consensus 91.4 0.051 1.1E-06 49.7 -0.3 41 56-97 300-341 (350)
47 COG5175 MOT2 Transcriptional r 90.9 0.056 1.2E-06 50.4 -0.6 43 55-98 14-64 (480)
48 KOG0824|consensus 89.7 0.16 3.6E-06 46.7 1.4 42 56-98 7-53 (324)
49 PF12861 zf-Apc11: Anaphase-pr 89.3 0.15 3.3E-06 38.4 0.7 42 57-98 33-82 (85)
50 KOG2660|consensus 89.3 0.051 1.1E-06 50.5 -2.2 49 50-98 9-61 (331)
51 KOG4739|consensus 88.3 0.31 6.8E-06 43.5 2.2 43 56-98 3-48 (233)
52 PF11789 zf-Nse: Zinc-finger o 88.0 0.42 9.2E-06 33.2 2.2 31 55-85 10-40 (57)
53 PF05605 zf-Di19: Drought indu 87.7 0.47 1E-05 32.4 2.3 50 113-171 2-54 (54)
54 KOG4367|consensus 87.0 0.21 4.5E-06 48.2 0.2 30 54-84 2-31 (699)
55 PF07975 C1_4: TFIIH C1-like d 86.8 0.43 9.3E-06 32.5 1.6 36 59-94 2-50 (51)
56 KOG1571|consensus 86.7 0.24 5.2E-06 46.7 0.5 46 52-98 301-347 (355)
57 PF13913 zf-C2HC_2: zinc-finge 86.6 0.34 7.3E-06 27.8 0.9 23 114-140 3-25 (25)
58 PF05290 Baculo_IE-1: Baculovi 85.9 0.2 4.4E-06 40.7 -0.4 44 55-98 79-132 (140)
59 KOG4265|consensus 85.8 0.25 5.4E-06 46.5 0.2 44 54-98 288-336 (349)
60 KOG0802|consensus 85.7 0.18 3.9E-06 50.9 -0.9 42 54-97 289-340 (543)
61 PF07191 zinc-ribbons_6: zinc- 84.7 0.18 3.9E-06 36.6 -1.1 52 56-118 1-55 (70)
62 PRK04023 DNA polymerase II lar 84.4 1.9 4.1E-05 46.1 5.7 42 55-98 625-674 (1121)
63 KOG2932|consensus 83.2 0.64 1.4E-05 43.1 1.5 84 47-136 80-167 (389)
64 PF13909 zf-H2C2_5: C2H2-type 81.5 1 2.2E-05 25.1 1.4 24 144-171 1-24 (24)
65 PF04641 Rtf2: Rtf2 RING-finge 81.2 1.1 2.4E-05 40.8 2.4 47 52-98 109-161 (260)
66 KOG3002|consensus 81.0 0.75 1.6E-05 42.9 1.2 79 88-170 49-133 (299)
67 COG4306 Uncharacterized protei 80.4 0.36 7.7E-06 38.9 -1.0 56 72-133 9-84 (160)
68 KOG3161|consensus 79.7 0.26 5.7E-06 49.7 -2.3 38 52-91 7-51 (861)
69 PF10571 UPF0547: Uncharacteri 79.7 0.95 2.1E-05 26.3 0.9 22 58-79 2-24 (26)
70 KOG0826|consensus 77.4 0.93 2E-05 42.4 0.6 43 55-97 299-345 (357)
71 PRK14714 DNA polymerase II lar 76.8 3 6.5E-05 45.7 4.2 41 56-98 667-720 (1337)
72 COG5236 Uncharacterized conser 76.8 1.2 2.5E-05 42.1 1.1 43 54-98 59-108 (493)
73 KOG3039|consensus 76.3 1.1 2.5E-05 40.2 0.9 44 55-98 220-270 (303)
74 KOG4692|consensus 76.0 0.57 1.2E-05 44.2 -1.1 43 55-98 421-467 (489)
75 PF14446 Prok-RING_1: Prokaryo 75.8 1.7 3.7E-05 29.9 1.4 41 57-97 6-51 (54)
76 KOG1002|consensus 75.4 0.68 1.5E-05 45.9 -0.8 46 52-98 532-586 (791)
77 KOG4185|consensus 75.0 1.6 3.4E-05 40.4 1.5 41 55-97 2-54 (296)
78 PRK11088 rrmA 23S rRNA methylt 74.9 1.6 3.6E-05 39.7 1.6 24 56-79 2-27 (272)
79 COG2888 Predicted Zn-ribbon RN 72.1 3.2 7E-05 29.0 2.1 37 111-158 25-61 (61)
80 KOG0804|consensus 71.2 2.2 4.9E-05 41.5 1.6 46 51-96 170-220 (493)
81 PF10083 DUF2321: Uncharacteri 70.7 0.98 2.1E-05 37.8 -0.9 20 79-98 30-50 (158)
82 PRK14890 putative Zn-ribbon RN 70.2 6.3 0.00014 27.6 3.2 36 111-158 23-59 (59)
83 PF14445 Prok-RING_2: Prokaryo 68.6 0.37 8E-06 32.5 -3.0 43 55-97 6-51 (57)
84 PF12660 zf-TFIIIC: Putative z 68.2 2.5 5.5E-05 32.8 1.0 39 58-97 16-65 (99)
85 PF05605 zf-Di19: Drought indu 66.6 5.5 0.00012 27.0 2.3 25 144-172 3-27 (54)
86 KOG2462|consensus 66.3 2.7 5.8E-05 38.5 0.9 100 54-170 159-267 (279)
87 KOG2462|consensus 63.9 32 0.00069 31.6 7.3 107 53-169 127-238 (279)
88 KOG3579|consensus 62.7 9.7 0.00021 35.1 3.8 29 55-83 267-298 (352)
89 KOG3039|consensus 60.1 4.1 8.9E-05 36.7 0.9 34 51-85 38-71 (303)
90 TIGR00622 ssl1 transcription f 59.1 8.4 0.00018 30.6 2.4 37 58-94 57-110 (112)
91 KOG1814|consensus 58.2 4.3 9.3E-05 39.2 0.8 104 52-158 180-322 (445)
92 PF11793 FANCL_C: FANCL C-term 58.1 1.7 3.7E-05 31.4 -1.5 19 56-74 2-24 (70)
93 PF05253 zf-U11-48K: U11-48K-l 57.9 4.6 9.9E-05 23.5 0.6 24 114-140 3-26 (27)
94 KOG3800|consensus 56.6 3.3 7.2E-05 38.1 -0.2 40 58-97 2-50 (300)
95 PF01363 FYVE: FYVE zinc finge 56.3 6.1 0.00013 28.0 1.2 30 56-85 9-41 (69)
96 PF10235 Cript: Microtubule-as 56.1 7.5 0.00016 29.7 1.6 36 58-99 46-81 (90)
97 PF03833 PolC_DP2: DNA polymer 55.7 3.8 8.3E-05 43.1 0.0 42 55-98 654-703 (900)
98 KOG1785|consensus 55.5 2.9 6.4E-05 40.2 -0.8 45 54-99 366-417 (563)
99 KOG0825|consensus 53.9 1.7 3.7E-05 45.1 -2.8 41 58-98 125-171 (1134)
100 KOG2817|consensus 53.9 4 8.8E-05 39.2 -0.2 43 53-96 331-383 (394)
101 KOG3608|consensus 51.9 6.3 0.00014 37.4 0.8 112 54-171 205-346 (467)
102 COG5540 RING-finger-containing 51.7 6.4 0.00014 36.6 0.8 45 54-98 321-372 (374)
103 PF02891 zf-MIZ: MIZ/SP-RING z 50.5 4.8 0.0001 27.1 -0.2 40 57-96 3-50 (50)
104 PF10367 Vps39_2: Vacuolar sor 49.1 12 0.00027 28.4 2.0 34 52-85 74-108 (109)
105 KOG1645|consensus 48.8 4.8 0.0001 38.8 -0.5 41 57-97 5-55 (463)
106 COG5219 Uncharacterized conser 47.9 2.7 5.8E-05 44.7 -2.5 45 54-98 1467-1523(1525)
107 PF08209 Sgf11: Sgf11 (transcr 47.5 9.6 0.00021 23.5 0.8 24 113-140 4-27 (33)
108 smart00647 IBR In Between Ring 47.4 12 0.00026 25.6 1.5 29 58-86 20-57 (64)
109 KOG2807|consensus 47.2 10 0.00022 35.7 1.3 36 59-94 333-374 (378)
110 KOG1039|consensus 46.7 8.6 0.00019 36.6 0.8 45 54-98 159-221 (344)
111 smart00734 ZnF_Rad18 Rad18-lik 44.9 20 0.00044 20.6 1.9 22 144-169 2-23 (26)
112 smart00154 ZnF_AN1 AN1-like Zi 44.1 17 0.00036 23.1 1.6 23 59-82 1-25 (39)
113 PRK00420 hypothetical protein; 43.6 13 0.00027 29.6 1.2 25 57-85 24-48 (112)
114 PF12773 DZR: Double zinc ribb 42.8 23 0.00049 23.3 2.2 6 90-95 32-37 (50)
115 PF13240 zinc_ribbon_2: zinc-r 41.3 15 0.00033 20.5 1.0 7 89-95 15-21 (23)
116 KOG1001|consensus 40.9 8.3 0.00018 40.1 -0.2 54 57-118 455-514 (674)
117 PF05502 Dynactin_p62: Dynacti 40.4 22 0.00048 35.5 2.6 36 88-127 53-96 (483)
118 PF03145 Sina: Seven in absent 39.5 27 0.00059 30.2 2.8 46 93-138 24-69 (198)
119 PF13894 zf-C2H2_4: C2H2-type 39.4 24 0.00053 18.5 1.7 18 153-170 6-24 (24)
120 KOG2231|consensus 39.0 16 0.00034 37.8 1.4 40 58-98 2-52 (669)
121 cd00065 FYVE FYVE domain; Zinc 38.2 18 0.00039 24.3 1.2 29 58-86 4-35 (57)
122 cd00729 rubredoxin_SM Rubredox 36.8 33 0.00073 21.0 2.1 9 88-96 19-27 (34)
123 PF04606 Ogr_Delta: Ogr/Delta- 36.7 18 0.0004 23.8 1.0 38 89-128 1-38 (47)
124 PF01286 XPA_N: XPA protein N- 36.2 24 0.00052 21.9 1.3 31 56-86 3-33 (34)
125 smart00064 FYVE Protein presen 35.9 22 0.00048 24.9 1.4 30 57-86 11-43 (68)
126 PF08882 Acetone_carb_G: Aceto 35.7 18 0.00039 28.6 0.9 13 70-82 24-36 (112)
127 KOG4628|consensus 35.7 24 0.00052 33.6 1.9 42 57-98 230-278 (348)
128 COG1645 Uncharacterized Zn-fin 35.4 17 0.00036 29.7 0.7 23 57-84 29-51 (131)
129 PF13248 zf-ribbon_3: zinc-rib 34.7 23 0.0005 20.2 1.1 6 59-64 5-10 (26)
130 PF06677 Auto_anti-p27: Sjogre 34.6 29 0.00064 22.4 1.6 23 57-83 18-40 (41)
131 PRK14892 putative transcriptio 34.6 22 0.00048 27.6 1.3 33 52-85 17-50 (99)
132 COG4647 AcxC Acetone carboxyla 34.4 20 0.00042 29.2 1.0 21 61-82 62-82 (165)
133 KOG4218|consensus 34.3 17 0.00036 34.5 0.6 24 58-85 17-40 (475)
134 PRK11827 hypothetical protein; 33.1 20 0.00044 25.2 0.8 17 51-67 3-19 (60)
135 PRK14559 putative protein seri 32.3 36 0.00078 35.3 2.7 41 58-98 3-52 (645)
136 PF01428 zf-AN1: AN1-like Zinc 31.7 28 0.00062 22.4 1.3 27 59-86 1-30 (43)
137 PF04216 FdhE: Protein involve 31.7 15 0.00032 34.0 -0.2 41 56-96 172-220 (290)
138 TIGR01562 FdhE formate dehydro 31.4 31 0.00067 32.3 1.9 41 55-95 183-232 (305)
139 KOG4362|consensus 30.2 13 0.00028 38.4 -0.9 47 51-98 16-69 (684)
140 COG5243 HRD1 HRD ubiquitin lig 28.7 26 0.00055 33.7 0.9 49 49-97 279-344 (491)
141 COG3809 Uncharacterized protei 28.6 28 0.00061 25.8 0.9 47 57-116 2-48 (88)
142 PF00412 LIM: LIM domain; Int 28.3 26 0.00056 23.4 0.7 30 55-84 25-54 (58)
143 COG3357 Predicted transcriptio 28.2 30 0.00066 26.4 1.0 31 66-98 56-87 (97)
144 COG3882 FkbH Predicted enzyme 27.9 60 0.0013 32.5 3.3 42 258-299 442-483 (574)
145 cd00350 rubredoxin_like Rubred 27.9 52 0.0011 19.9 1.9 9 88-96 18-26 (33)
146 KOG1100|consensus 27.8 46 0.00099 29.4 2.3 39 59-98 161-200 (207)
147 PLN02189 cellulose synthase 27.6 39 0.00084 36.8 2.1 42 57-98 35-87 (1040)
148 COG1592 Rubrerythrin [Energy p 27.1 48 0.001 28.2 2.2 9 88-96 150-158 (166)
149 PF03966 Trm112p: Trm112p-like 26.8 40 0.00087 23.9 1.4 14 53-66 4-17 (68)
150 PF08271 TF_Zn_Ribbon: TFIIB z 26.8 38 0.00083 21.7 1.2 26 57-84 1-26 (43)
151 PF14569 zf-UDP: Zinc-binding 26.7 20 0.00043 26.6 -0.2 42 57-98 10-62 (80)
152 KOG0298|consensus 26.3 7.7 0.00017 42.6 -3.3 50 47-98 1144-1199(1394)
153 COG5194 APC11 Component of SCF 26.1 17 0.00036 27.1 -0.7 41 58-98 22-81 (88)
154 TIGR00595 priA primosomal prot 25.2 55 0.0012 32.8 2.6 39 56-96 213-262 (505)
155 PF15616 TerY-C: TerY-C metal 25.0 43 0.00092 27.4 1.4 48 47-97 68-115 (131)
156 KOG0297|consensus 24.3 44 0.00095 32.4 1.6 49 112-167 113-162 (391)
157 KOG4376|consensus 24.1 93 0.002 25.9 3.2 56 113-171 14-73 (161)
158 PLN02195 cellulose synthase A 23.9 53 0.0011 35.6 2.2 42 57-98 7-59 (977)
159 PF08273 Prim_Zn_Ribbon: Zinc- 23.7 42 0.0009 21.6 0.9 26 58-83 5-32 (40)
160 PLN02436 cellulose synthase A 23.7 51 0.0011 36.0 2.1 42 57-98 37-89 (1094)
161 COG1198 PriA Primosomal protei 23.5 49 0.0011 34.8 1.9 40 55-96 434-484 (730)
162 PRK03564 formate dehydrogenase 23.2 67 0.0015 30.2 2.6 41 55-95 186-234 (309)
163 PF12756 zf-C2H2_2: C2H2 type 22.8 68 0.0015 23.5 2.2 27 142-172 49-77 (100)
164 PRK05580 primosome assembly pr 22.6 52 0.0011 34.3 1.9 23 227-249 617-644 (679)
165 PLN02638 cellulose synthase A 21.8 55 0.0012 35.8 1.9 41 58-98 19-70 (1079)
166 KOG1734|consensus 21.7 21 0.00047 32.7 -1.0 43 56-98 224-281 (328)
167 PF14353 CpXC: CpXC protein 21.6 70 0.0015 25.5 2.1 10 89-98 3-12 (128)
168 PF06906 DUF1272: Protein of u 21.5 51 0.0011 22.9 1.0 41 58-98 7-52 (57)
169 PF09297 zf-NADH-PPase: NADH p 21.4 24 0.00052 21.1 -0.5 9 77-85 3-11 (32)
170 PF09788 Tmemb_55A: Transmembr 21.4 3.5E+02 0.0076 24.7 6.6 29 55-85 64-93 (256)
171 PF00096 zf-C2H2: Zinc finger, 21.3 63 0.0014 17.1 1.3 16 153-168 6-22 (23)
172 PLN02400 cellulose synthase 21.1 65 0.0014 35.3 2.3 41 58-98 38-89 (1085)
173 PF01485 IBR: IBR domain; Int 20.9 51 0.0011 22.3 1.0 30 57-86 19-57 (64)
174 PRK09678 DNA-binding transcrip 20.5 30 0.00066 25.2 -0.2 46 89-136 3-48 (72)
175 PF02318 FYVE_2: FYVE-type zin 20.3 63 0.0014 25.6 1.5 32 55-86 53-88 (118)
176 smart00132 LIM Zinc-binding do 20.2 1.2E+02 0.0025 17.9 2.5 11 58-68 1-11 (39)
177 COG4357 Zinc finger domain con 20.2 49 0.0011 25.5 0.8 21 78-98 63-91 (105)
No 1
>KOG3002|consensus
Probab=100.00 E-value=7.1e-52 Score=379.27 Aligned_cols=248 Identities=44% Similarity=0.788 Sum_probs=233.1
Q ss_pred cCCCCceeecccccCCCCceeeccCCcccCccccCC-CCCCCCCCCCCCcccchHHHhhhccccccCCCCCCCceeEecc
Q psy12278 51 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK-LSCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLLH 129 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~-~~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC~~~~~~ 129 (300)
....++|+||||.+.+.+||+||++||++|++|..+ ...||.|+.+++.+|+++||++++++.+||+|+..||++.++|
T Consensus 43 ~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y 122 (299)
T KOG3002|consen 43 LLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSFPY 122 (299)
T ss_pred ccchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCceeecc
Confidence 345678999999999999999999999999999954 5799999999999999999999999999999999999999999
Q ss_pred CChHHHHHhCCCCCccCCCCCCCCcccccHHHHHHHhhhccCc-cceecCCceEEeeeecCCCCceeEEEEEe-ecCeeE
Q psy12278 130 TEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHKS-ITTLQGEDIVFLATDINLPGAVDWVMMQS-CFGHHF 207 (300)
Q Consensus 130 ~~~~~He~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~~-~~~~~g~~~~f~~~~~~l~~~~~~~~~~~-c~g~~F 207 (300)
.+...||+.|.|+|+.||.+++.|+|+|.+++++.|++..|+. +.+..+.++++.+.+.++.++.+|++.+. |+|..|
T Consensus 123 ~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 202 (299)
T KOG3002|consen 123 GEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVCFGREF 202 (299)
T ss_pred ccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeecCcEEE
Confidence 9999999999999999999999999999999999999999987 66788889999999999999999976655 999999
Q ss_pred EEEEEEeeecCCceeEEEEEEEecCcCCCCCcEEEEEEeeCCceEEEEecccchhhhhhhhccCCCEeEEechhhhhhcC
Q psy12278 208 MLVLEKQEKFDGHQHFFAIVQLIGSRKQSENFTYRLELNGHRRRLTWEATPRSIHEGVASAIMNSDCLVFDTNIAQLFAD 287 (300)
Q Consensus 208 ~l~~~~~~~~~~~~~~~~~V~~iG~~~~a~~F~Y~l~v~~~~r~l~~~~~~~si~e~~~~~~~~~dcl~i~~~~~~~f~~ 287 (300)
.+++..+...+++++|+++++.+|.+++|++|+|+|++.+++++|+|+++|+|+++.+....++.|||+|+.+++++|..
T Consensus 203 ~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs~~~p~~dfm~ip~~~~~~~~~ 282 (299)
T KOG3002|consen 203 GLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVSKVRPEDDFMLIPRSLLCLFSL 282 (299)
T ss_pred eeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccceeccCCCceeccHHHhhcccc
Confidence 99999988888888999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CC-ceEEEEEEe
Q psy12278 288 NG-NLGINVTIG 298 (300)
Q Consensus 288 ~~-~L~i~v~I~ 298 (300)
++ +|.|+++++
T Consensus 283 ~~~~l~i~~~~~ 294 (299)
T KOG3002|consen 283 LKMELKIRVTGR 294 (299)
T ss_pred cCCceeeccchh
Confidence 88 799999874
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=100.00 E-value=3.3e-44 Score=314.29 Aligned_cols=196 Identities=43% Similarity=0.833 Sum_probs=153.0
Q ss_pred ccchHHHhhhccccccCCCCCCCceeEeccCChHHHHHhCCCCCccCCCCCCCCcccccHHHHHHHhhhccCccceecCC
Q psy12278 100 IRNLAMEKVAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHKSITTLQGE 179 (300)
Q Consensus 100 ~rn~~lEk~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~~~~~~~g~ 179 (300)
+||++||++++++++||+|+.+||++.+++.++.+||++|+|+|+.||.++.+|+|+|+.++|..|+...|.+.....+.
T Consensus 1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~ 80 (198)
T PF03145_consen 1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT 80 (198)
T ss_dssp --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence 58999999999999999999999999999999999999999999999998789999999999999999999876555454
Q ss_pred -ceEEeeeecCCCCceeEEEEE-eecCeeEEEEEEEeeecCCceeEEEEEEEecCcCCCCCcEEEEEEeeCCceEEEEec
Q psy12278 180 -DIVFLATDINLPGAVDWVMMQ-SCFGHHFMLVLEKQEKFDGHQHFFAIVQLIGSRKQSENFTYRLELNGHRRRLTWEAT 257 (300)
Q Consensus 180 -~~~f~~~~~~l~~~~~~~~~~-~c~g~~F~l~~~~~~~~~~~~~~~~~V~~iG~~~~a~~F~Y~l~v~~~~r~l~~~~~ 257 (300)
.+.|...+.+..+..+|++++ +|+|++|+|++++++.. +...++++|+++|++++|.+|+|+|++.+++|+|+|+++
T Consensus 81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~~~~~~-~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~ 159 (198)
T PF03145_consen 81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQKFELE-GNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSF 159 (198)
T ss_dssp -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEEEEEEE-TEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE-
T ss_pred ceEEEeeecccccCCceEEEeecccCCccEEEEEEEEccC-CceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEc
Confidence 567777777777778999998 99999999999887654 678889999999999999999999999999999999999
Q ss_pred ccchhhhhhhhccCCCEeEEechhhhhhcCCCceEEEEE
Q psy12278 258 PRSIHEGVASAIMNSDCLVFDTNIAQLFADNGNLGINVT 296 (300)
Q Consensus 258 ~~si~e~~~~~~~~~dcl~i~~~~~~~f~~~~~L~i~v~ 296 (300)
|+|++++.++++++.||+++..+++++|++||+|.|+||
T Consensus 160 p~si~~~~~~~~~~~d~li~~~~~~~~f~~~~~L~~~v~ 198 (198)
T PF03145_consen 160 PRSIREDIDDAIESRDCLIINENAAQFFSEDGNLRYRVT 198 (198)
T ss_dssp -EETTT-SHHHHHCT-SEEEEHHHHHHHECTTEEEEEEE
T ss_pred CcchhhhHHhhccCCcEEEEchHHHHhcCCCCeEEEEeC
Confidence 999999999999999999999999999999999999997
No 3
>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi
Probab=100.00 E-value=4.6e-40 Score=258.01 Aligned_cols=127 Identities=84% Similarity=1.319 Sum_probs=123.2
Q ss_pred cceecCCceEEeeeecCCCCceeEEEEEeecCeeEEEEEEEeeecCCceeEEEEEEEecCcCCCCCcEEEEEEeeCCceE
Q psy12278 173 ITTLQGEDIVFLATDINLPGAVDWVMMQSCFGHHFMLVLEKQEKFDGHQHFFAIVQLIGSRKQSENFTYRLELNGHRRRL 252 (300)
Q Consensus 173 ~~~~~g~~~~f~~~~~~l~~~~~~~~~~~c~g~~F~l~~~~~~~~~~~~~~~~~V~~iG~~~~a~~F~Y~l~v~~~~r~l 252 (300)
+.+.+|++++|++++++++++.+|++||+|||+||+|++++++++++.++|||+|++||+..+|.+|+|+||+.+++|||
T Consensus 1 v~~~~G~di~fl~t~~~~~~a~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~RkL 80 (127)
T cd03829 1 VTTLQGEDIVFLATDINLPGATDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRRRL 80 (127)
T ss_pred CccccCccEEEEecCCCCccceeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCcEE
Confidence 35788999999999999999999999999999999999999999899999999999999999999999999999999999
Q ss_pred EEEecccchhhhhhhhccCCCEeEEechhhhhhcCCCceEEEEEEee
Q psy12278 253 TWEATPRSIHEGVASAIMNSDCLVFDTNIAQLFADNGNLGINVTIGT 299 (300)
Q Consensus 253 ~~~~~~~si~e~~~~~~~~~dcl~i~~~~~~~f~~~~~L~i~v~I~~ 299 (300)
+||++||||||++.+++++.|||+|+.++|++|++||+|.|+|+|+.
T Consensus 81 ~we~~PRSIrds~~~~~~~~D~Lii~~~~A~~Fs~~g~l~l~v~It~ 127 (127)
T cd03829 81 TWEATPRSIREGHASVIDNSDCLVFDTSIAQLFSENGNLGINVTISG 127 (127)
T ss_pred EeecCCccHHHhhHHHhhcCcceEEechHhhhccCCCccEEEEEecC
Confidence 99999999999999999999999999999999999999999999974
No 4
>KOG0297|consensus
Probab=99.08 E-value=1.4e-10 Score=111.38 Aligned_cols=114 Identities=25% Similarity=0.531 Sum_probs=98.1
Q ss_pred CCCCceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCCcc----cchHHHhhhccccccCCCCCCCc
Q psy12278 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLGNI----RNLAMEKVAGTMWFPCRYQMNGC 123 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~~~----rn~~lEk~~~~l~v~C~~~~~GC 123 (300)
.+++.+.||+|-.++.+|+..-.|||.||..|+... ..||.|+..+... ...++.+.+.++.+.|.++..||
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC 96 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGC 96 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCc
Confidence 378889999999999999731367999999998864 4799998887532 23567788999999999999999
Q ss_pred eeEeccCChHHHHHhCCCCCccCCCCCCCCcccccHHHHHHHhhhcc
Q psy12278 124 GISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSH 170 (300)
Q Consensus 124 ~~~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~~~H 170 (300)
.+.+....+..|+..| .+.+||. +|...+..+++.+|+....
T Consensus 97 ~~~~~l~~~~~Hl~~c--~~~~C~~---~C~~~~~~~d~~~hl~~~C 138 (391)
T KOG0297|consen 97 RADLELEALQGHLSTC--DPLKCPH---RCGVQVPRDDLEDHLEAEC 138 (391)
T ss_pred cccccHHHHHhHhccC--CcccCcc---ccccccchHHHHHHHhccc
Confidence 9999999999999999 8889997 4999999999999996654
No 5
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.35 E-value=7.4e-08 Score=68.04 Aligned_cols=57 Identities=30% Similarity=0.674 Sum_probs=29.6
Q ss_pred CCCCceeecccccCCCCceeeccCCcccCccccCCC--CCCCCCCCCCC---cccchHHHhh
Q psy12278 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL--SCCPTCRGPLG---NIRNLAMEKV 108 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~--~~Cp~Cr~~~~---~~rn~~lEk~ 108 (300)
.+++.+.|++|.+.|+.|+..=.|.|+||+.|+.+- +.||.|..|.- ...|+.++.+
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~ 64 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSM 64 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHH
T ss_pred HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhcc
Confidence 456789999999999999854456999999999864 57999999852 2345555543
No 6
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.31 E-value=4.5e-07 Score=63.80 Aligned_cols=55 Identities=24% Similarity=0.437 Sum_probs=40.0
Q ss_pred hccccccCCCCCCCceeEeccCChHHHHH-hCCCCCccCCCCCCCCcccccHHHHHHH
Q psy12278 109 AGTMWFPCRYQMNGCGISLLHTEKPEHED-TCEHRPYLCPCPGASCKWGGALDQVMAH 165 (300)
Q Consensus 109 ~~~l~v~C~~~~~GC~~~~~~~~~~~He~-~C~f~~~~Cp~~~~~C~~~g~~~~l~~H 165 (300)
.....++|++. ||...++..++.+|.+ +|+++++.|++...||++.+.+.+|.+|
T Consensus 5 C~~~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 5 CPFRPVPCPNG--CCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp STTSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CCCCEeeCCCC--CcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 45568899984 6678899999999999 9999999999988899999999999988
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.20 E-value=4.2e-07 Score=86.97 Aligned_cols=65 Identities=22% Similarity=0.511 Sum_probs=51.0
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCC----CCCCCCCCCCCCc---ccchHHHhhhccc
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK----LSCCPTCRGPLGN---IRNLAMEKVAGTM 112 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~~~---~rn~~lEk~~~~l 112 (300)
.+.+..+++.+.|+||.+++..|+. -+|||.||..|+.. ...||.|+.++.. .+|.+++.+++.+
T Consensus 17 ~~~l~~Le~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 17 IPSLYPLDTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESF 88 (397)
T ss_pred cccccccccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHH
Confidence 3446788999999999999999974 36799999999874 2579999998762 4677676665544
No 8
>KOG0287|consensus
Probab=98.18 E-value=1.7e-07 Score=86.21 Aligned_cols=65 Identities=28% Similarity=0.649 Sum_probs=51.2
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCCc---ccchHHHhhhccc
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLGN---IRNLAMEKVAGTM 112 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~~---~rn~~lEk~~~~l 112 (300)
.++...|++.|.|-||+++|+.|+.. +|||.||+-|+.+. +.||.|+.++.. ..|+.++.++.++
T Consensus 14 ipslk~lD~lLRC~IC~eyf~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 14 IPSLKTLDDLLRCGICFEYFNIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred CchhhhhHHHHHHhHHHHHhcCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 56678889999999999999999743 68999999998863 689999998762 2345556665554
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.00 E-value=1e-06 Score=57.80 Aligned_cols=34 Identities=38% Similarity=1.088 Sum_probs=24.6
Q ss_pred ecccccCCCCceeeccCCcccCccccCCC--------CCCCCC
Q psy12278 59 CPVCFDYVLPPIIQCQSGHLVCSNCRPKL--------SCCPTC 93 (300)
Q Consensus 59 CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~--------~~Cp~C 93 (300)
||||++++++|+. -++||+||.+|+.+. ..||.|
T Consensus 1 CpiC~~~~~~Pv~-l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVS-LPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccc-cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999984 367999999997642 257776
No 10
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.00 E-value=3e-06 Score=59.96 Aligned_cols=54 Identities=28% Similarity=0.426 Sum_probs=42.9
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCC---cccchHHHhhhc
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLG---NIRNLAMEKVAG 110 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~---~~rn~~lEk~~~ 110 (300)
+|.||||.+++.+|+. -++||+||..|+.+. ..||.|+.++. .+.|..+.+.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHH
Confidence 4789999999999975 378999999998753 57999999885 256666666554
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.95 E-value=3.1e-06 Score=73.12 Aligned_cols=47 Identities=34% Similarity=0.832 Sum_probs=38.1
Q ss_pred cCCCCceeecccccCCCCceeeccCCcccCccccCC--------------------CCCCCCCCCCCC
Q psy12278 51 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK--------------------LSCCPTCRGPLG 98 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~--------------------~~~Cp~Cr~~~~ 98 (300)
-++.+.+.||||.+.+++|+. ..|||+||..|+.+ ...||.||.++.
T Consensus 13 ~~~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred ccCCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 345567999999999999985 36799999999852 137999999875
No 12
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.95 E-value=1.5e-06 Score=55.88 Aligned_cols=35 Identities=37% Similarity=1.060 Sum_probs=27.7
Q ss_pred ecccccCCCCceeeccCCcccCccccCCC----CCCCCC
Q psy12278 59 CPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTC 93 (300)
Q Consensus 59 CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~C 93 (300)
||||.+.+.+|++.-++||+||.+|+.+. ..||.|
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 89999999999766678999999998743 578876
No 13
>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=97.90 E-value=1.9e-06 Score=58.46 Aligned_cols=42 Identities=38% Similarity=0.971 Sum_probs=34.3
Q ss_pred ceeecccccCCCCceeeccCCcc-cCccccCCC----CCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHL-VCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~-~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
+..|+||++...++++. ++||. +|..|..+. ..||.||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 56899999999998754 77999 999998865 68999999875
No 14
>KOG0320|consensus
Probab=97.87 E-value=5.9e-06 Score=69.89 Aligned_cols=45 Identities=33% Similarity=0.919 Sum_probs=35.4
Q ss_pred CCceeecccccCCCCce-eeccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPI-IQCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi-~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
...+.||||++.+..-+ +.-.|||+||+.|+... ..||+|+..++
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 35599999999997543 44567999999998753 58999998664
No 15
>KOG0823|consensus
Probab=97.82 E-value=1.5e-05 Score=70.16 Aligned_cols=45 Identities=29% Similarity=0.842 Sum_probs=37.6
Q ss_pred CCCceeecccccCCCCceeeccCCcccCccccCCC-------CCCCCCCCCCC
Q psy12278 53 LASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL-------SCCPTCRGPLG 98 (300)
Q Consensus 53 l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~-------~~Cp~Cr~~~~ 98 (300)
-...|.|.||++..++||+. .|||+||=.|+.+. ..||+|+..++
T Consensus 44 ~~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45789999999999999975 36999999997752 46899998765
No 16
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.76 E-value=5.8e-06 Score=74.75 Aligned_cols=51 Identities=27% Similarity=0.563 Sum_probs=43.0
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
..++..|+..+.|-||.+.++.|+. -+|||.||+-|+... ..||.||.+..
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred CcchhcchhHHHhhhhhheeeccee-cccccchhHHHHHHHhcCCCCCccccccHH
Confidence 4557788899999999999999963 366999999998753 68999999854
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.52 E-value=3.1e-05 Score=51.12 Aligned_cols=38 Identities=34% Similarity=0.837 Sum_probs=28.9
Q ss_pred eecccccCC--CCceeeccCCcccCccccCCCC----CCCCCCC
Q psy12278 58 ECPVCFDYV--LPPIIQCQSGHLVCSNCRPKLS----CCPTCRG 95 (300)
Q Consensus 58 ~CpiC~~~~--~~Pi~qC~~GH~~C~~C~~~~~----~Cp~Cr~ 95 (300)
+|++|.+.+ ..+.+.-++||+||..|+.+.. .||.|++
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 599999999 2232333569999999998764 8999974
No 18
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=97.33 E-value=2.7e-05 Score=51.27 Aligned_cols=37 Identities=30% Similarity=0.887 Sum_probs=29.1
Q ss_pred eecccccCCC--CceeeccCCcccCccccCC----CCCCCCCC
Q psy12278 58 ECPVCFDYVL--PPIIQCQSGHLVCSNCRPK----LSCCPTCR 94 (300)
Q Consensus 58 ~CpiC~~~~~--~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr 94 (300)
.|+||.+.+. ..++..+|||.||..|+.+ ...||.||
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 5999999995 3556667899999999875 36899996
No 19
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.27 E-value=8.2e-05 Score=66.75 Aligned_cols=46 Identities=30% Similarity=0.719 Sum_probs=35.1
Q ss_pred CCceeecccccCCCCc-e------eeccCCcccCccccCC----CCCCCCCCCCCCc
Q psy12278 54 ASLFECPVCFDYVLPP-I------IQCQSGHLVCSNCRPK----LSCCPTCRGPLGN 99 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~P-i------~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~~~ 99 (300)
.+...||||.+.+..+ + ...+|||.||..|+.. ...||.||.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 4568999999987653 1 2346799999999863 3689999998763
No 20
>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=97.24 E-value=6.7e-05 Score=48.43 Aligned_cols=35 Identities=37% Similarity=0.975 Sum_probs=28.5
Q ss_pred ecccccCCCCceeeccCCcccCccccCC------CCCCCCC
Q psy12278 59 CPVCFDYVLPPIIQCQSGHLVCSNCRPK------LSCCPTC 93 (300)
Q Consensus 59 CpiC~~~~~~Pi~qC~~GH~~C~~C~~~------~~~Cp~C 93 (300)
|+||.+.+..|+..=++||.||..|+.+ ...||.|
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 8999999999984446799999999764 2468876
No 21
>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=97.20 E-value=8.6e-05 Score=54.53 Aligned_cols=58 Identities=26% Similarity=0.358 Sum_probs=40.9
Q ss_pred CCceeecccccCCCCceeeccCCcccCccccCC-----CCCCCCCCCCCC---cccchHHHhhhccc
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK-----LSCCPTCRGPLG---NIRNLAMEKVAGTM 112 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~-----~~~Cp~Cr~~~~---~~rn~~lEk~~~~l 112 (300)
.+.|.|||+.++|.+||. -++||.|+.+++.+ ...||.++.++. .+.|..|.+.++.+
T Consensus 2 P~~f~CpIt~~lM~dPVi-~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVI-LPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp SGGGB-TTTSSB-SSEEE-ETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCcee-CCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence 367999999999999985 47899999999774 257999999886 35777777766554
No 22
>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=97.19 E-value=0.00017 Score=46.53 Aligned_cols=39 Identities=38% Similarity=1.062 Sum_probs=31.0
Q ss_pred eecccccCCCCceeeccCCcccCccccCC-----CCCCCCCCCC
Q psy12278 58 ECPVCFDYVLPPIIQCQSGHLVCSNCRPK-----LSCCPTCRGP 96 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~-----~~~Cp~Cr~~ 96 (300)
.|+||.+.+..++..-++||.||..|+.. ...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 49999999977765444799999999863 3579999875
No 23
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.16 E-value=0.00056 Score=68.36 Aligned_cols=118 Identities=22% Similarity=0.390 Sum_probs=72.6
Q ss_pred CCceeecccccCCCCcee-----eccCCcccCcc--ccCC--------CCCCCCCCCCCCcccchHHHhhhc--cccccC
Q psy12278 54 ASLFECPVCFDYVLPPII-----QCQSGHLVCSN--CRPK--------LSCCPTCRGPLGNIRNLAMEKVAG--TMWFPC 116 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~-----qC~~GH~~C~~--C~~~--------~~~Cp~Cr~~~~~~rn~~lEk~~~--~l~v~C 116 (300)
.+...|+-|...+..--+ .|...-+.|.. |... ...|+.|...+.. ..+++-.. ...+.|
T Consensus 405 ~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~---s~LekH~~~~Hkpv~C 481 (567)
T PLN03086 405 VDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ---GEMEKHMKVFHEPLQC 481 (567)
T ss_pred CCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch---HHHHHHHHhcCCCccC
Confidence 456689999987654322 35444445553 5432 2468888776641 22322211 355677
Q ss_pred CCCCCCceeEeccCChHHHHH-hCCCCCccCCCCCCCCccccc-----------HHHHHHHhhhccCccceecCCceEE
Q psy12278 117 RYQMNGCGISLLHTEKPEHED-TCEHRPYLCPCPGASCKWGGA-----------LDQVMAHLNQSHKSITTLQGEDIVF 183 (300)
Q Consensus 117 ~~~~~GC~~~~~~~~~~~He~-~C~f~~~~Cp~~~~~C~~~g~-----------~~~l~~Hl~~~H~~~~~~~g~~~~f 183 (300)
+ |+..+...++..|.. .|+.+++.|++ |..... ...|..|...+......|..|.-.+
T Consensus 482 p-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~V 551 (567)
T PLN03086 482 P-----CGVVLEKEQMVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSV 551 (567)
T ss_pred C-----CCCCcchhHHHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCee
Confidence 6 776777778888865 68888888887 766653 3478888888765445566554433
No 24
>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=97.03 E-value=0.00028 Score=65.37 Aligned_cols=44 Identities=34% Similarity=0.806 Sum_probs=32.3
Q ss_pred Cceeeccccc--CCCCce--eeccCCcccCccccCCC-----CCCCCCCCCCC
Q psy12278 55 SLFECPVCFD--YVLPPI--IQCQSGHLVCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~--~~~~Pi--~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
++..||+|+. ++.+-+ +.-+|||.+|.+|+..+ ..||.|+.++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 3468999999 454432 22257999999998753 47999998764
No 25
>KOG0317|consensus
Probab=96.94 E-value=0.00027 Score=64.23 Aligned_cols=44 Identities=25% Similarity=0.671 Sum_probs=35.9
Q ss_pred CCceeecccccCCCCceeeccCCcccCccccCC----CCCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK----LSCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~~ 98 (300)
+....|.+|++....|- --+|||+||-+|+.. ...||.||..+.
T Consensus 237 ~a~~kC~LCLe~~~~pS-aTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPS-ATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCceEEEecCCCCCC-cCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 35589999999999994 226899999999763 367999999875
No 26
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.89 E-value=0.0039 Score=62.47 Aligned_cols=102 Identities=25% Similarity=0.466 Sum_probs=62.5
Q ss_pred Cceeecc--cccCCCCceeeccCCcccCccccCC---------------CCCCCCCCCCCCcccchHH----Hhhhcccc
Q psy12278 55 SLFECPV--CFDYVLPPIIQCQSGHLVCSNCRPK---------------LSCCPTCRGPLGNIRNLAM----EKVAGTMW 113 (300)
Q Consensus 55 ~~l~Cpi--C~~~~~~Pi~qC~~GH~~C~~C~~~---------------~~~Cp~Cr~~~~~~rn~~l----Ek~~~~l~ 113 (300)
....||. |...+.....+ .|+.|..|-.. ...|| |...+ .+ ..+ ......-.
T Consensus 432 ~~V~Cp~~~Cg~v~~r~el~---~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp-Cg~~~--~R-~~L~~H~~thCp~Kp 504 (567)
T PLN03086 432 HNVVCPHDGCGIVLRVEEAK---NHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP-CGVVL--EK-EQMVQHQASTCPLRL 504 (567)
T ss_pred cceeCCcccccceeeccccc---cCccCCCCCCccchHHHHHHHHhcCCCccCC-CCCCc--ch-hHHHhhhhccCCCCc
Confidence 3445763 77777554332 56777777432 12577 75432 12 111 11233455
Q ss_pred ccCCCCCCCceeEecc-----------CChHHHHHhCCCCCccCCCCCCCCcccccHHHHHHHhhhccC
Q psy12278 114 FPCRYQMNGCGISLLH-----------TEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHK 171 (300)
Q Consensus 114 v~C~~~~~GC~~~~~~-----------~~~~~He~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~ 171 (300)
+.|+| |...++. ..+..||..|.-+++.|. .|+......++..|+...|.
T Consensus 505 i~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~----~Cgk~Vrlrdm~~H~~~~h~ 565 (567)
T PLN03086 505 ITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCD----SCGRSVMLKEMDIHQIAVHQ 565 (567)
T ss_pred eeCCC----CCCccccCccccchhhhhhhHHHHHHhcCCcceEcc----ccCCeeeehhHHHHHHHhhc
Confidence 66666 7766652 367788888888888884 48888888888888888775
No 27
>KOG0978|consensus
Probab=96.62 E-value=0.00025 Score=72.06 Aligned_cols=48 Identities=27% Similarity=0.729 Sum_probs=39.6
Q ss_pred ccCCCCceeecccccCCCCceeeccCCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 50 STDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 50 ~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
+.+....|.||+|..-.++-|. -.|||+||..|+.. ...||.|..+|+
T Consensus 637 lk~yK~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 637 LKEYKELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred HHHHHhceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 4556788999999988888763 24599999999885 368999999987
No 28
>KOG0311|consensus
Probab=96.61 E-value=6.1e-05 Score=70.03 Aligned_cols=54 Identities=24% Similarity=0.455 Sum_probs=44.1
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCCC-----CCCCCCCCCCCcc
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL-----SCCPTCRGPLGNI 100 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~~~ 100 (300)
...+..+...+.||||+++++..+..=.|+|.||..|+-+. ..||+||..+...
T Consensus 34 ~~~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 34 MVDLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred eecHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 45577888999999999999988754457999999998753 5799999987643
No 29
>KOG2164|consensus
Probab=96.60 E-value=0.00046 Score=67.20 Aligned_cols=43 Identities=28% Similarity=0.810 Sum_probs=34.4
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCC---------CCCCCCCCCCCCc
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPK---------LSCCPTCRGPLGN 99 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~---------~~~Cp~Cr~~~~~ 99 (300)
...||||+++..-|... .|||+||..|+-. ...||.|+..+..
T Consensus 186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 78999999999877643 3699999999653 2479999988763
No 30
>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=96.48 E-value=0.0012 Score=40.81 Aligned_cols=34 Identities=35% Similarity=1.069 Sum_probs=26.5
Q ss_pred ecccccCCCCceeeccCCcccCccccCC-----CCCCCCC
Q psy12278 59 CPVCFDYVLPPIIQCQSGHLVCSNCRPK-----LSCCPTC 93 (300)
Q Consensus 59 CpiC~~~~~~Pi~qC~~GH~~C~~C~~~-----~~~Cp~C 93 (300)
|+||.+....++.. ++||.||..|... ...||.|
T Consensus 1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 79999998877643 5799999999863 2468876
No 31
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.45 E-value=0.0074 Score=50.44 Aligned_cols=27 Identities=26% Similarity=0.570 Sum_probs=23.2
Q ss_pred cCCCCCCCCcccccHHHHHHHhhhccCcc
Q psy12278 145 LCPCPGASCKWGGALDQVMAHLNQSHKSI 173 (300)
Q Consensus 145 ~Cp~~~~~C~~~g~~~~l~~Hl~~~H~~~ 173 (300)
.|+.. +|+|.|.+.+|.+|.+..|...
T Consensus 109 sC~~e--~C~F~GtY~eLrKHar~~HP~~ 135 (162)
T PF07800_consen 109 SCSQE--SCSFSGTYSELRKHARSEHPSA 135 (162)
T ss_pred cCccc--ccccccCHHHHHHHHHhhCCCC
Confidence 57654 7999999999999999999753
No 32
>KOG2177|consensus
Probab=96.45 E-value=0.00059 Score=61.63 Aligned_cols=66 Identities=24% Similarity=0.596 Sum_probs=46.9
Q ss_pred cccCCCCceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCC-cccchHHHhhhcccccc
Q psy12278 49 TSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLG-NIRNLAMEKVAGTMWFP 115 (300)
Q Consensus 49 ~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~-~~rn~~lEk~~~~l~v~ 115 (300)
....+.+.+.||||.+.+..|.. =+|||.||..|.... ..||.||.... ..+|..+..++..+...
T Consensus 6 ~~~~~~~~~~C~iC~~~~~~p~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~ 76 (386)
T KOG2177|consen 6 LLEVLQEELTCPICLEYFREPVL-LPCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQL 76 (386)
T ss_pred hhhhccccccChhhHHHhhcCcc-ccccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhc
Confidence 34567789999999999999942 246999999998753 58999994211 23566666665555443
No 33
>PHA02926 zinc finger-like protein; Provisional
Probab=96.35 E-value=0.00065 Score=59.77 Aligned_cols=45 Identities=27% Similarity=0.678 Sum_probs=33.1
Q ss_pred CCceeecccccCCCC---------ceeeccCCcccCccccCCC----------CCCCCCCCCCCc
Q psy12278 54 ASLFECPVCFDYVLP---------PIIQCQSGHLVCSNCRPKL----------SCCPTCRGPLGN 99 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~---------Pi~qC~~GH~~C~~C~~~~----------~~Cp~Cr~~~~~ 99 (300)
..+..|+||.+.... ++ .-+|+|.||-.|+.+. ..||.||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGI-L~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGL-LDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccc-cCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 456899999998633 22 2257999999997631 249999998763
No 34
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.25 E-value=0.00058 Score=44.87 Aligned_cols=27 Identities=37% Similarity=1.077 Sum_probs=16.1
Q ss_pred ecccccCCCC----ceeeccCCcccCccccCCC
Q psy12278 59 CPVCFDYVLP----PIIQCQSGHLVCSNCRPKL 87 (300)
Q Consensus 59 CpiC~~~~~~----Pi~qC~~GH~~C~~C~~~~ 87 (300)
||||++ +.. |++. +|||+||..|+.++
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKL 31 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHH
Confidence 899999 777 8743 36999999998753
No 35
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.18 E-value=0.0013 Score=59.06 Aligned_cols=43 Identities=28% Similarity=0.701 Sum_probs=34.8
Q ss_pred CCceeecccccCCCCceeeccCCcccCccccCC------CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK------LSCCPTCRGPL 97 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~------~~~Cp~Cr~~~ 97 (300)
..++.|++|.+.+..|... +|||+||-.|+-. ...||.||...
T Consensus 213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 4679999999999999632 5799999999654 24699999864
No 36
>KOG4159|consensus
Probab=95.76 E-value=0.0023 Score=61.63 Aligned_cols=51 Identities=33% Similarity=0.762 Sum_probs=42.9
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCC----CCCCCCCCCCCC
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK----LSCCPTCRGPLG 98 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~~ 98 (300)
.++..++.++|.|.||...+-+|+.. +|||.+|..|+.+ ...||.||.++.
T Consensus 75 ~s~~~~~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 75 LSGPEEIRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred hccCccccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCcccccccc
Confidence 44456778999999999999999866 8999999999654 368999998875
No 37
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.13 E-value=0.01 Score=41.34 Aligned_cols=39 Identities=28% Similarity=0.503 Sum_probs=28.3
Q ss_pred HHHhCCCCCccCCCCCCCCcccccHHHHHHHhh-hccCccce
Q psy12278 135 HEDTCEHRPYLCPCPGASCKWGGALDQVMAHLN-QSHKSITT 175 (300)
Q Consensus 135 He~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~-~~H~~~~~ 175 (300)
|+++|+++++.||+. .|.-...+.+|..|+. .+-+....
T Consensus 1 H~~~C~~~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~~v~ 40 (60)
T PF02176_consen 1 HEEECPFRPVPCPNG--CCNEMIPRKELDDHLENECPKRPVP 40 (60)
T ss_dssp HHTTSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE
T ss_pred CcccCCCCEeeCCCC--CcccceeHHHHHHHHHccCCCCcEE
Confidence 888999999999974 4666689999999999 45444333
No 38
>KOG2879|consensus
Probab=94.90 E-value=0.024 Score=51.45 Aligned_cols=44 Identities=32% Similarity=0.637 Sum_probs=35.3
Q ss_pred CCceeecccccCCCCceeeccCCcccCccccCCC------CCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL------SCCPTCRGPL 97 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~------~~Cp~Cr~~~ 97 (300)
.+.-.||+|.+....|...=.|||++|--|+.+. ..||.|.++.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence 3567999999999999643347999999998753 3799998765
No 39
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.15 E-value=0.011 Score=51.03 Aligned_cols=41 Identities=27% Similarity=0.623 Sum_probs=33.4
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCC----CCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPK----LSCCPTCRGPL 97 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~ 97 (300)
-|.|-||..-+..||.. .|||.||+.|..+ ...|-.|....
T Consensus 196 PF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccchhhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 48999999999999852 5699999999653 36899997764
No 40
>KOG1813|consensus
Probab=93.91 E-value=0.034 Score=50.93 Aligned_cols=48 Identities=29% Similarity=0.668 Sum_probs=37.9
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCCcccchH
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLGNIRNLA 104 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~~~rn~~ 104 (300)
-+.|-||..++..||.. .|||.||..|-.+. ..|.+|...+..+-|.+
T Consensus 241 Pf~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~a 292 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVA 292 (313)
T ss_pred Cccccccccccccchhh-cCCceeehhhhccccccCCcceecccccccccchH
Confidence 47799999999999853 56999999996643 58999998876554443
No 41
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.37 E-value=0.071 Score=36.69 Aligned_cols=41 Identities=34% Similarity=0.813 Sum_probs=29.8
Q ss_pred ceeecccccCCC-CceeeccCCcccCccccCC--CCCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVL-PPIIQCQSGHLVCSNCRPK--LSCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~~-~Pi~qC~~GH~~C~~C~~~--~~~Cp~Cr~~~~ 98 (300)
..-|-.|...-. .++..| ||++|..|+.- .+-||.|..++.
T Consensus 7 ~~~~~~~~~~~~~~~~~pC--gH~I~~~~f~~~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPC--GHLICDNCFPGERYNGCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccccccccccc--cceeeccccChhhccCCCCCCCccc
Confidence 345666666643 444455 99999999874 478999999875
No 42
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.15 E-value=0.016 Score=38.84 Aligned_cols=39 Identities=31% Similarity=0.837 Sum_probs=18.9
Q ss_pred ecccccCCCC---ceeeccCCcccCccccCC-----CCCCCCCCCCC
Q psy12278 59 CPVCFDYVLP---PIIQCQSGHLVCSNCRPK-----LSCCPTCRGPL 97 (300)
Q Consensus 59 CpiC~~~~~~---Pi~qC~~GH~~C~~C~~~-----~~~Cp~Cr~~~ 97 (300)
||+|.+.+.. -++-|+||+.+|..|+.+ ...||.||.+.
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 7888888732 235689999999999653 25899999874
No 43
>KOG4172|consensus
Probab=92.17 E-value=0.01 Score=40.59 Aligned_cols=40 Identities=38% Similarity=1.183 Sum_probs=30.9
Q ss_pred eeecccccCCCCce-eeccCCcc-cCccccCCC-----CCCCCCCCCCC
Q psy12278 57 FECPVCFDYVLPPI-IQCQSGHL-VCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~~Pi-~qC~~GH~-~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
-+|-||.+...+.| |.| ||. .|-.|-.++ ..||.||.++.
T Consensus 8 dECTICye~pvdsVlYtC--GHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTC--GHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHc--chHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 48999999888776 566 995 688885432 57999998863
No 44
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.51 E-value=0.053 Score=49.78 Aligned_cols=40 Identities=28% Similarity=0.733 Sum_probs=33.8
Q ss_pred eeecccccCCCCceeeccCCcccCccccCCC-----CCCCCCCCC
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCRPKL-----SCCPTCRGP 96 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~ 96 (300)
|.||.|..+++.|+..=.|||.||..|+... ..||.|...
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccc
Confidence 8999999999999865237999999999842 589999763
No 45
>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=91.45 E-value=0.054 Score=39.67 Aligned_cols=37 Identities=30% Similarity=0.783 Sum_probs=26.5
Q ss_pred eecccccCCCCc------------eeeccCCcccCccccCC----CCCCCCCC
Q psy12278 58 ECPVCFDYVLPP------------IIQCQSGHLVCSNCRPK----LSCCPTCR 94 (300)
Q Consensus 58 ~CpiC~~~~~~P------------i~qC~~GH~~C~~C~~~----~~~Cp~Cr 94 (300)
.|+||++.+.+| +..=.|||.|-..|+.+ ...||.||
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 399999999433 22224699999999873 35899997
No 46
>KOG4275|consensus
Probab=91.43 E-value=0.051 Score=49.74 Aligned_cols=41 Identities=27% Similarity=0.770 Sum_probs=34.5
Q ss_pred ceeecccccCCCCceeeccCCcc-cCccccCCCCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHL-VCSNCRPKLSCCPTCRGPL 97 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~-~C~~C~~~~~~Cp~Cr~~~ 97 (300)
...|.||.+...+-++. +|||. .|-.|-.....||+||+-+
T Consensus 300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkrm~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKRMNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcceEEe-ecCcEEeehhhccccccCchHHHHH
Confidence 66799999999998764 56995 5999999889999998754
No 47
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.89 E-value=0.056 Score=50.42 Aligned_cols=43 Identities=26% Similarity=0.791 Sum_probs=34.1
Q ss_pred CceeecccccCCCCc---eeeccCCcccCccccCCC-----CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPP---IIQCQSGHLVCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~P---i~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
+++ ||.|-+++-.- .+-|+||..+|.-|+... ..||.||....
T Consensus 14 ed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 14 EDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 444 99999998542 457999999999998743 58999998764
No 48
>KOG0824|consensus
Probab=89.72 E-value=0.16 Score=46.72 Aligned_cols=42 Identities=26% Similarity=0.529 Sum_probs=33.9
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCCC-----CCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
.-+|+||..-..-|+- =.|+|.||.-|+.-. ..|+.||.++.
T Consensus 7 ~~eC~IC~nt~n~Pv~-l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVN-LYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCCcCcc-ccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 3579999999888852 256999999998743 46999999986
No 49
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=89.29 E-value=0.15 Score=38.41 Aligned_cols=42 Identities=29% Similarity=0.464 Sum_probs=30.7
Q ss_pred eeecccccCCCC-ceeeccCCcccCccccCC-------CCCCCCCCCCCC
Q psy12278 57 FECPVCFDYVLP-PIIQCQSGHLVCSNCRPK-------LSCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~~-Pi~qC~~GH~~C~~C~~~-------~~~Cp~Cr~~~~ 98 (300)
-.||.|+.+-.+ |+.-..|+|.|=..|+.+ ...||.||+++.
T Consensus 33 g~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 33 GCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred cCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 347777777543 666667899999999764 257999998763
No 50
>KOG2660|consensus
Probab=89.26 E-value=0.051 Score=50.53 Aligned_cols=49 Identities=27% Similarity=0.586 Sum_probs=39.9
Q ss_pred ccCCCCceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 50 STDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 50 ~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
..++.....|.+|..+|.++-+.-.|=|.||.+|+-+. ..||.|...+.
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 45666788999999999999654456999999998763 58999988765
No 51
>KOG4739|consensus
Probab=88.30 E-value=0.31 Score=43.55 Aligned_cols=43 Identities=23% Similarity=0.740 Sum_probs=32.3
Q ss_pred ceeecccccCC-CCceeeccCCcccCccccCCC--CCCCCCCCCCC
Q psy12278 56 LFECPVCFDYV-LPPIIQCQSGHLVCSNCRPKL--SCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~-~~Pi~qC~~GH~~C~~C~~~~--~~Cp~Cr~~~~ 98 (300)
-.+|-.|..-- .+|.|.-.|+|+||..|.... ..||.|+.++.
T Consensus 3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIR 48 (233)
T ss_pred eEEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceee
Confidence 35788887654 456566667999999998754 38999999854
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=87.96 E-value=0.42 Score=33.24 Aligned_cols=31 Identities=16% Similarity=0.326 Sum_probs=19.7
Q ss_pred CceeecccccCCCCceeeccCCcccCccccC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQSGHLVCSNCRP 85 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~ 85 (300)
..+.||+...++.+||..=.|||+|....+.
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~ 40 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAIL 40 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHH
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHH
Confidence 4589999999999998654679999665543
No 53
>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=87.70 E-value=0.47 Score=32.39 Aligned_cols=50 Identities=30% Similarity=0.683 Sum_probs=31.9
Q ss_pred cccCCCCCCCceeEeccCChHHHHHh--CC-CCCccCCCCCCCCcccccHHHHHHHhhhccC
Q psy12278 113 WFPCRYQMNGCGISLLHTEKPEHEDT--CE-HRPYLCPCPGASCKWGGALDQVMAHLNQSHK 171 (300)
Q Consensus 113 ~v~C~~~~~GC~~~~~~~~~~~He~~--C~-f~~~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~ 171 (300)
.+.||| |...+....+..|..+ .. -..+.||. |... ...+|..|+...|.
T Consensus 2 ~f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~-~~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSR-VTDNLIRHLNSQHR 54 (54)
T ss_pred CcCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhh-hhhHHHHHHHHhcC
Confidence 357777 7776666677777542 11 22467885 6654 33488888887773
No 54
>KOG4367|consensus
Probab=87.01 E-value=0.21 Score=48.24 Aligned_cols=30 Identities=33% Similarity=0.806 Sum_probs=25.8
Q ss_pred CCceeecccccCCCCceeeccCCcccCcccc
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHLVCSNCR 84 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~ 84 (300)
+++|.||||...+++||.. +|||..|..|-
T Consensus 2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca 31 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIIL-PCSHNLCQACA 31 (699)
T ss_pred cccccCceehhhccCceEe-ecccHHHHHHH
Confidence 5789999999999999843 55999999994
No 55
>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=86.77 E-value=0.43 Score=32.46 Aligned_cols=36 Identities=25% Similarity=0.657 Sum_probs=19.6
Q ss_pred ecccccCCCC--------ceeecc-CCcccCcccc----CCCCCCCCCC
Q psy12278 59 CPVCFDYVLP--------PIIQCQ-SGHLVCSNCR----PKLSCCPTCR 94 (300)
Q Consensus 59 CpiC~~~~~~--------Pi~qC~-~GH~~C~~C~----~~~~~Cp~Cr 94 (300)
|-.|...+.. ..|+|+ |++.||..|- +.+-.||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 5556666655 368896 8999999993 3456899884
No 56
>KOG1571|consensus
Probab=86.69 E-value=0.24 Score=46.70 Aligned_cols=46 Identities=30% Similarity=0.713 Sum_probs=34.2
Q ss_pred CCCCceeecccccCCCCceeeccCCcccC-ccccCCCCCCCCCCCCCC
Q psy12278 52 DLASLFECPVCFDYVLPPIIQCQSGHLVC-SNCRPKLSCCPTCRGPLG 98 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C-~~C~~~~~~Cp~Cr~~~~ 98 (300)
++.....|-||.+-..+.++- +|||..| ..|...++.||.||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fv-pcGh~ccct~cs~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFV-PCGHVCCCTLCSKHLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeee-cCCcEEEchHHHhhCCCCchhHHHHH
Confidence 444556899999999987754 6799865 335556788999998763
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=86.62 E-value=0.34 Score=27.84 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=18.3
Q ss_pred ccCCCCCCCceeEeccCChHHHHHhCC
Q psy12278 114 FPCRYQMNGCGISLLHTEKPEHEDTCE 140 (300)
Q Consensus 114 v~C~~~~~GC~~~~~~~~~~~He~~C~ 140 (300)
++|++ |+..|..+.+..|++.|.
T Consensus 3 ~~C~~----CgR~F~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 3 VPCPI----CGRKFNPDRLEKHEKICK 25 (25)
T ss_pred CcCCC----CCCEECHHHHHHHHHhcC
Confidence 57876 888888888888888774
No 58
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=85.91 E-value=0.2 Score=40.75 Aligned_cols=44 Identities=25% Similarity=0.702 Sum_probs=34.3
Q ss_pred CceeecccccCCCCceeecc---CCcccCccccCCC-------CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQ---SGHLVCSNCRPKL-------SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~---~GH~~C~~C~~~~-------~~Cp~Cr~~~~ 98 (300)
.+++|.||.+.-.+..|.=+ ||-.+|..|...+ +.||.|++.+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 67999999998776654211 6999999996642 68999999875
No 59
>KOG4265|consensus
Probab=85.85 E-value=0.25 Score=46.55 Aligned_cols=44 Identities=34% Similarity=0.792 Sum_probs=34.9
Q ss_pred CCceeecccccCCCCceeeccCCcc-cCccccCCC----CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPIIQCQSGHL-VCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi~qC~~GH~-~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
++--+|-||..-.++-+.. +|.|+ .|+.|-..+ .+||+||+++.
T Consensus 288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 3457899999999987543 66885 699997743 68999999975
No 60
>KOG0802|consensus
Probab=85.75 E-value=0.18 Score=50.87 Aligned_cols=42 Identities=31% Similarity=0.676 Sum_probs=33.2
Q ss_pred CCceeecccccCCCC-----c-eeeccCCcccCccccCC----CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLP-----P-IIQCQSGHLVCSNCRPK----LSCCPTCRGPL 97 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~-----P-i~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~ 97 (300)
.....|+||.+.+.. | ... |||.|+..|... ...||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~--C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP--CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceee--cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 356789999999976 3 344 599999999764 37899999853
No 61
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=84.73 E-value=0.18 Score=36.57 Aligned_cols=52 Identities=29% Similarity=0.681 Sum_probs=27.6
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCCC---CCCCCCCCCCCcccchHHHhhhccccccCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL---SCCPTCRGPLGNIRNLAMEKVAGTMWFPCRY 118 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~---~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~ 118 (300)
++.||.|...|..- .|+..|..|.... ..||.|..++... +..+...+-|.+
T Consensus 1 e~~CP~C~~~L~~~-----~~~~~C~~C~~~~~~~a~CPdC~~~Le~L------kACGAvdYFC~~ 55 (70)
T PF07191_consen 1 ENTCPKCQQELEWQ-----GGHYHCEACQKDYKKEAFCPDCGQPLEVL------KACGAVDYFCNH 55 (70)
T ss_dssp --B-SSS-SBEEEE-----TTEEEETTT--EEEEEEE-TTT-SB-EEE------EETTEEEEE-TT
T ss_pred CCcCCCCCCccEEe-----CCEEECccccccceecccCCCcccHHHHH------HHhcccceeecc
Confidence 36899999985442 3789999997643 5899999886422 123445555654
No 62
>PRK04023 DNA polymerase II large subunit; Validated
Probab=84.42 E-value=1.9 Score=46.05 Aligned_cols=42 Identities=21% Similarity=0.524 Sum_probs=33.1
Q ss_pred CceeecccccCCCCceeecc-CCc-----ccCccccCCC--CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQ-SGH-----LVCSNCRPKL--SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~-~GH-----~~C~~C~~~~--~~Cp~Cr~~~~ 98 (300)
....||-|.... +.+.|+ ||. .+|..|.... ..||.|.....
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPT 674 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCC
Confidence 456799999985 557897 884 5899998765 47999988765
No 63
>KOG2932|consensus
Probab=83.18 E-value=0.64 Score=43.11 Aligned_cols=84 Identities=18% Similarity=0.303 Sum_probs=51.5
Q ss_pred CCcccCCCC-ceeecccccCCCCceeeccCCcccCccccCCC--CCCCCCCCCCCcccchHHHhhhccccccCCCCCCCc
Q psy12278 47 AGTSTDLAS-LFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL--SCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGC 123 (300)
Q Consensus 47 ~~~~~~l~~-~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~--~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC 123 (300)
..++.++.. .-.|--|..++..-=..=+|-|+||-.|-... ..||.|..++ .-+|+....-.+-|. ...||
T Consensus 80 ~~gek~l~p~VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~V-----qrIeq~~~g~iFmC~-~~~GC 153 (389)
T KOG2932|consen 80 RRGEKQLGPRVHFCDRCDFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRV-----QRIEQIMMGGIFMCA-APHGC 153 (389)
T ss_pred cccccccCcceEeecccCCcceeeecccccchhhhhhhhhcCccccCcCcccHH-----HHHHHhcccceEEee-cchhH
Confidence 444556655 44588898877643223366999999996643 5899997655 345555555566676 45677
Q ss_pred eeEe-ccCChHHHH
Q psy12278 124 GISL-LHTEKPEHE 136 (300)
Q Consensus 124 ~~~~-~~~~~~~He 136 (300)
..++ .-.+++.|.
T Consensus 154 ~RTyLsqrDlqAHI 167 (389)
T KOG2932|consen 154 LRTYLSQRDLQAHI 167 (389)
T ss_pred HHHHhhHHHHHHHh
Confidence 6443 223444444
No 64
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=81.46 E-value=1 Score=25.10 Aligned_cols=24 Identities=29% Similarity=0.778 Sum_probs=17.6
Q ss_pred ccCCCCCCCCcccccHHHHHHHhhhccC
Q psy12278 144 YLCPCPGASCKWGGALDQVMAHLNQSHK 171 (300)
Q Consensus 144 ~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~ 171 (300)
|.|+. |+|.....+|..|++..|.
T Consensus 1 y~C~~----C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH----CSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS----SS-EESHHHHHHHHHHHHS
T ss_pred CCCCC----CCCcCCHHHHHHHHHhhCc
Confidence 35764 8898888899999988773
No 65
>PF04641 Rtf2: Rtf2 RING-finger
Probab=81.21 E-value=1.1 Score=40.80 Aligned_cols=47 Identities=21% Similarity=0.399 Sum_probs=37.5
Q ss_pred CCCCceeecccccCCCCc---eeeccCCcccCccccCCCC---CCCCCCCCCC
Q psy12278 52 DLASLFECPVCFDYVLPP---IIQCQSGHLVCSNCRPKLS---CCPTCRGPLG 98 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~P---i~qC~~GH~~C~~C~~~~~---~Cp~Cr~~~~ 98 (300)
.-...|.|||....|..- ++.=+|||+++..++..+. .||.|..++.
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFT 161 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccc
Confidence 456789999999999642 3444679999999988664 7999999976
No 66
>KOG3002|consensus
Probab=80.99 E-value=0.75 Score=42.90 Aligned_cols=79 Identities=20% Similarity=0.284 Sum_probs=57.2
Q ss_pred CCCCCCCCCCCc-c--c-c--hHHHhhhccccccCCCCCCCceeEeccCChHHHHHhCCCCCccCCCCCCCCcccccHHH
Q psy12278 88 SCCPTCRGPLGN-I--R-N--LAMEKVAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQ 161 (300)
Q Consensus 88 ~~Cp~Cr~~~~~-~--r-n--~~lEk~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g~~~~ 161 (300)
.-||.|..++.. + . | ++-..-..++...||+ |...++...-..-|+.++-..++||+...||.|.+++.+
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~----Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~ 124 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPT----CRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSFPYGE 124 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhhhcccCCc----cccccccHHHHHHHHHHHhceecccccccCCceeecccc
Confidence 468888777641 1 1 1 3333334467888997 888777444445577899999999999999999999988
Q ss_pred HHHHhhhcc
Q psy12278 162 VMAHLNQSH 170 (300)
Q Consensus 162 l~~Hl~~~H 170 (300)
-..|.+.+-
T Consensus 125 ~~~HE~~C~ 133 (299)
T KOG3002|consen 125 KSKHEKVCE 133 (299)
T ss_pred ccccccccc
Confidence 888887765
No 67
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.41 E-value=0.36 Score=38.91 Aligned_cols=56 Identities=30% Similarity=0.645 Sum_probs=36.1
Q ss_pred eccCCcc--------------cCccccCCC-CCCCCCCCCCCcccchHHHhhhcc-----ccccCCCCCCCceeEeccCC
Q psy12278 72 QCQSGHL--------------VCSNCRPKL-SCCPTCRGPLGNIRNLAMEKVAGT-----MWFPCRYQMNGCGISLLHTE 131 (300)
Q Consensus 72 qC~~GH~--------------~C~~C~~~~-~~Cp~Cr~~~~~~rn~~lEk~~~~-----l~v~C~~~~~GC~~~~~~~~ 131 (300)
.|.|||. ||+.|-... ..||.|..++- -+..+|.+++- .+..|.| |+..+|+.+
T Consensus 9 ic~ngh~attaadq~pel~eafcskcgeati~qcp~csasir--gd~~vegvlglg~dye~psfchn----cgs~fpwte 82 (160)
T COG4306 9 ICLNGHVATTAADQSPELMEAFCSKCGEATITQCPICSASIR--GDYYVEGVLGLGGDYEPPSFCHN----CGSRFPWTE 82 (160)
T ss_pred hcCCCceeeccccCCHHHHHHHHhhhchHHHhcCCccCCccc--ccceeeeeeccCCCCCCcchhhc----CCCCCCcHH
Confidence 4778875 899997754 68999988763 12333443321 3445776 888888765
Q ss_pred hH
Q psy12278 132 KP 133 (300)
Q Consensus 132 ~~ 133 (300)
.+
T Consensus 83 rk 84 (160)
T COG4306 83 RK 84 (160)
T ss_pred HH
Confidence 43
No 68
>KOG3161|consensus
Probab=79.75 E-value=0.26 Score=49.70 Aligned_cols=38 Identities=37% Similarity=1.059 Sum_probs=29.8
Q ss_pred CCCCceeecccccCC----CCce-eeccCCcccCccccCCC--CCCC
Q psy12278 52 DLASLFECPVCFDYV----LPPI-IQCQSGHLVCSNCRPKL--SCCP 91 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~----~~Pi-~qC~~GH~~C~~C~~~~--~~Cp 91 (300)
.|.+.+.|+||+..+ ..|+ .|| ||..|..|.+++ ..||
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~c--ghtic~~c~~~lyn~scp 51 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQC--GHTICGHCVQLLYNASCP 51 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccc--cchHHHHHHHhHhhccCC
Confidence 577889999996554 3466 466 999999999986 4688
No 69
>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=79.66 E-value=0.95 Score=26.32 Aligned_cols=22 Identities=27% Similarity=0.422 Sum_probs=13.9
Q ss_pred eecccccCCCCceeecc-CCccc
Q psy12278 58 ECPVCFDYVLPPIIQCQ-SGHLV 79 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~-~GH~~ 79 (300)
.||.|...+..-...|+ |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 47777777655555665 66654
No 70
>KOG0826|consensus
Probab=77.40 E-value=0.93 Score=42.37 Aligned_cols=43 Identities=28% Similarity=0.529 Sum_probs=32.5
Q ss_pred CceeecccccCCCCceeeccCCcccCccccCC----CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK----LSCCPTCRGPL 97 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~ 97 (300)
+.-.||+|..--..|-.--..|-+||-.|+-. ...||+=.-|.
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 45579999999888854435799999999764 36899765543
No 71
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=76.79 E-value=3 Score=45.68 Aligned_cols=41 Identities=29% Similarity=0.709 Sum_probs=31.0
Q ss_pred ceeecccccCCCCceeecc-CCcc-----cCccccCCC-------CCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQ-SGHL-----VCSNCRPKL-------SCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~-~GH~-----~C~~C~~~~-------~~Cp~Cr~~~~ 98 (300)
.+.||-|...... ..|+ ||.. .|.+|.... ..||.|..+..
T Consensus 667 ~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 667 RRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 4889999997543 3786 8855 499997753 27999998865
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.75 E-value=1.2 Score=42.06 Aligned_cols=43 Identities=26% Similarity=0.648 Sum_probs=31.6
Q ss_pred CCceeecccccCCCC-ceeeccCCcccCccccCCC------CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLP-PIIQCQSGHLVCSNCRPKL------SCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~-Pi~qC~~GH~~C~~C~~~~------~~Cp~Cr~~~~ 98 (300)
++.-.|.||-+-+.- .++ +|||..|..|--++ ..||.||+...
T Consensus 59 Een~~C~ICA~~~TYs~~~--PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 59 EENMNCQICAGSTTYSARY--PCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccceeEEecCCceEEEec--cCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 455779999887652 233 56999999996542 58999998754
No 73
>KOG3039|consensus
Probab=76.28 E-value=1.1 Score=40.20 Aligned_cols=44 Identities=32% Similarity=0.519 Sum_probs=35.3
Q ss_pred CceeecccccCCCCce---eeccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPI---IQCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi---~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
..+.||+|.+.+...+ +.=++||++|..|.+++ ..||.|..++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 5689999999998653 33368999999999876 47999988764
No 74
>KOG4692|consensus
Probab=76.02 E-value=0.57 Score=44.17 Aligned_cols=43 Identities=19% Similarity=0.504 Sum_probs=33.0
Q ss_pred CceeecccccCCCCceeeccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
++-.||||.--.-..+++ +|||.-|..|+.+. ..|-.|+..+.
T Consensus 421 Ed~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred ccccCcceecccchhhcc-CCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 345699999877777765 78999999999874 45777777653
No 75
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=75.76 E-value=1.7 Score=29.91 Aligned_cols=41 Identities=27% Similarity=0.578 Sum_probs=30.1
Q ss_pred eeecccccCC--CCceeecc-CCcccCccccCCCCCCCC--CCCCC
Q psy12278 57 FECPVCFDYV--LPPIIQCQ-SGHLVCSNCRPKLSCCPT--CRGPL 97 (300)
Q Consensus 57 l~CpiC~~~~--~~Pi~qC~-~GH~~C~~C~~~~~~Cp~--Cr~~~ 97 (300)
-.|++|.+.+ .+.|++|+ ||-.+=..|+.+...|-. |..++
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF 51 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence 4799999999 67888886 775555567877777765 65544
No 76
>KOG1002|consensus
Probab=75.36 E-value=0.68 Score=45.86 Aligned_cols=46 Identities=26% Similarity=0.480 Sum_probs=36.6
Q ss_pred CCCCceeecccccCCCCceeeccCCcccCccccCC---------CCCCCCCCCCCC
Q psy12278 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPK---------LSCCPTCRGPLG 98 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~---------~~~Cp~Cr~~~~ 98 (300)
+-.....|.+|.++..++|. ..|.|.||.-|+.. ...||+|..+++
T Consensus 532 enk~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cccCceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34567899999999999974 35699999999853 147999988765
No 77
>KOG4185|consensus
Probab=75.03 E-value=1.6 Score=40.37 Aligned_cols=41 Identities=41% Similarity=1.026 Sum_probs=31.1
Q ss_pred CceeecccccCCCC------c-eeeccCCcccCccccCCC-----CCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLP------P-IIQCQSGHLVCSNCRPKL-----SCCPTCRGPL 97 (300)
Q Consensus 55 ~~l~CpiC~~~~~~------P-i~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~ 97 (300)
+.+.|-||.+.+.. | +..| ||.+|..|..++ ..||.||.+.
T Consensus 2 ~~~~c~~c~~~~s~~~~~~~p~~l~c--~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 2 SFPECEICNEDYSSEDGDHIPRVLKC--GHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCCceeecCccccccCcccCCccccc--CceehHhHHHHHhcCceeeccCCCCcc
Confidence 35678888887753 3 3454 999999998875 3699999984
No 78
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=74.87 E-value=1.6 Score=39.68 Aligned_cols=24 Identities=21% Similarity=0.623 Sum_probs=19.7
Q ss_pred ceeecccccCCC--CceeeccCCccc
Q psy12278 56 LFECPVCFDYVL--PPIIQCQSGHLV 79 (300)
Q Consensus 56 ~l~CpiC~~~~~--~Pi~qC~~GH~~ 79 (300)
.|.||+|..+|. +.-+.|.+||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 478999999995 445789999987
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.11 E-value=3.2 Score=29.03 Aligned_cols=37 Identities=30% Similarity=0.691 Sum_probs=21.9
Q ss_pred cccccCCCCCCCceeEeccCChHHHHHhCCCCCccCCCCCCCCccccc
Q psy12278 111 TMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGA 158 (300)
Q Consensus 111 ~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g~ 158 (300)
..+++||| |+..+-+.-..--+. -.+|.|| .|+|+|+
T Consensus 25 ~v~F~CPn----CGe~~I~Rc~~CRk~---g~~Y~Cp----~CGF~GP 61 (61)
T COG2888 25 AVKFPCPN----CGEVEIYRCAKCRKL---GNPYRCP----KCGFEGP 61 (61)
T ss_pred eeEeeCCC----CCceeeehhhhHHHc---CCceECC----CcCccCC
Confidence 46788988 884444332221111 1467898 4999885
No 80
>KOG0804|consensus
Probab=71.20 E-value=2.2 Score=41.49 Aligned_cols=46 Identities=33% Similarity=0.626 Sum_probs=34.6
Q ss_pred cCCCCceeecccccCCCCce---eeccCCcccCccccCCC--CCCCCCCCC
Q psy12278 51 TDLASLFECPVCFDYVLPPI---IQCQSGHLVCSNCRPKL--SCCPTCRGP 96 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~~Pi---~qC~~GH~~C~~C~~~~--~~Cp~Cr~~ 96 (300)
..+.++-.||||++=|-+-+ ..-.|.|.|=.+|..+. ..||.||--
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~ 220 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYC 220 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhh
Confidence 45667889999999987654 33345899977887765 589999753
No 81
>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=70.71 E-value=0.98 Score=37.81 Aligned_cols=20 Identities=40% Similarity=1.134 Sum_probs=16.6
Q ss_pred cCccccCCC-CCCCCCCCCCC
Q psy12278 79 VCSNCRPKL-SCCPTCRGPLG 98 (300)
Q Consensus 79 ~C~~C~~~~-~~Cp~Cr~~~~ 98 (300)
||+.|-.+. ..||.|..++.
T Consensus 30 fC~kCG~~tI~~Cp~C~~~Ir 50 (158)
T PF10083_consen 30 FCSKCGAKTITSCPNCSTPIR 50 (158)
T ss_pred HHHHhhHHHHHHCcCCCCCCC
Confidence 899997765 68999999874
No 82
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.16 E-value=6.3 Score=27.59 Aligned_cols=36 Identities=33% Similarity=0.837 Sum_probs=20.5
Q ss_pred cccccCCCCCCCceeE-eccCChHHHHHhCCCCCccCCCCCCCCccccc
Q psy12278 111 TMWFPCRYQMNGCGIS-LLHTEKPEHEDTCEHRPYLCPCPGASCKWGGA 158 (300)
Q Consensus 111 ~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g~ 158 (300)
...++||+ |+.. +..-..=. + ...+|.|| .|+|+|+
T Consensus 23 ~~~F~CPn----CG~~~I~RC~~CR-k---~~~~Y~CP----~CGF~GP 59 (59)
T PRK14890 23 AVKFLCPN----CGEVIIYRCEKCR-K---QSNPYTCP----KCGFEGP 59 (59)
T ss_pred cCEeeCCC----CCCeeEeechhHH-h---cCCceECC----CCCCcCc
Confidence 36778887 7665 33221111 1 12568888 5998885
No 83
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=68.64 E-value=0.37 Score=32.49 Aligned_cols=43 Identities=26% Similarity=0.679 Sum_probs=32.1
Q ss_pred CceeecccccCCCCc-eeecc-CCcccCccccCCC-CCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPP-IIQCQ-SGHLVCSNCRPKL-SCCPTCRGPL 97 (300)
Q Consensus 55 ~~l~CpiC~~~~~~P-i~qC~-~GH~~C~~C~~~~-~~Cp~Cr~~~ 97 (300)
+.+.|..|.+..... ..||. ||.+.|++||... ..|..|..-+
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~deYY~CksC~Gii 51 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQDEYYTCKSCNGII 51 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhhHhHHHhhhchh
Confidence 457889998876433 45886 8999999999864 5788886543
No 84
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=68.25 E-value=2.5 Score=32.77 Aligned_cols=39 Identities=28% Similarity=0.743 Sum_probs=14.7
Q ss_pred eecccccCCC--Cc-eeeccCCcccCccccCCC--------CCCCCCCCCC
Q psy12278 58 ECPVCFDYVL--PP-IIQCQSGHLVCSNCRPKL--------SCCPTCRGPL 97 (300)
Q Consensus 58 ~CpiC~~~~~--~P-i~qC~~GH~~C~~C~~~~--------~~Cp~Cr~~~ 97 (300)
.|++|...+. ++ +.+|.+||.+ .+|.... ..|+.|....
T Consensus 16 ~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 16 KCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp -------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EE
T ss_pred cccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEE
Confidence 6999999763 44 4699999997 7775532 3699997653
No 85
>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=66.64 E-value=5.5 Score=27.03 Aligned_cols=25 Identities=28% Similarity=0.674 Sum_probs=21.2
Q ss_pred ccCCCCCCCCcccccHHHHHHHhhhccCc
Q psy12278 144 YLCPCPGASCKWGGALDQVMAHLNQSHKS 172 (300)
Q Consensus 144 ~~Cp~~~~~C~~~g~~~~l~~Hl~~~H~~ 172 (300)
+.||+ |+.......|..|+...|..
T Consensus 3 f~CP~----C~~~~~~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 3 FTCPY----CGKGFSESSLVEHCEDEHRS 27 (54)
T ss_pred cCCCC----CCCccCHHHHHHHHHhHCcC
Confidence 57997 77767788999999999974
No 86
>KOG2462|consensus
Probab=66.28 E-value=2.7 Score=38.49 Aligned_cols=100 Identities=22% Similarity=0.437 Sum_probs=63.3
Q ss_pred CCceeecccccCCC-CceeeccCCcccCccccCCCC-CCCCCCCCCCcccchHHH----hhhccccccCCCCCCCceeEe
Q psy12278 54 ASLFECPVCFDYVL-PPIIQCQSGHLVCSNCRPKLS-CCPTCRGPLGNIRNLAME----KVAGTMWFPCRYQMNGCGISL 127 (300)
Q Consensus 54 ~~~l~CpiC~~~~~-~Pi~qC~~GH~~C~~C~~~~~-~Cp~Cr~~~~~~rn~~lE----k~~~~l~v~C~~~~~GC~~~~ 127 (300)
...+.|+.|...+. -|-+. .|+- ...+. .|++|...|. |...|. --.+.-++.|+. |...|
T Consensus 159 ~ka~~C~~C~K~YvSmpALk---MHir----TH~l~c~C~iCGKaFS--RPWLLQGHiRTHTGEKPF~C~h----C~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALK---MHIR----THTLPCECGICGKAFS--RPWLLQGHIRTHTGEKPFSCPH----CGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHh---hHhh----ccCCCccccccccccc--chHHhhcccccccCCCCccCCc----ccchh
Confidence 45688999998864 34332 4543 22232 7889988775 222222 223445788886 88777
Q ss_pred cc-CChHHHHHh-CCCCCccCCCCCCCCcccccHH-HHHHHhhhcc
Q psy12278 128 LH-TEKPEHEDT-CEHRPYLCPCPGASCKWGGALD-QVMAHLNQSH 170 (300)
Q Consensus 128 ~~-~~~~~He~~-C~f~~~~Cp~~~~~C~~~g~~~-~l~~Hl~~~H 170 (300)
.- .+|+.|..+ =...++.|+ .|.....+. .|..|+....
T Consensus 226 ADRSNLRAHmQTHS~~K~~qC~----~C~KsFsl~SyLnKH~ES~C 267 (279)
T KOG2462|consen 226 ADRSNLRAHMQTHSDVKKHQCP----RCGKSFALKSYLNKHSESAC 267 (279)
T ss_pred cchHHHHHHHHhhcCCccccCc----chhhHHHHHHHHHHhhhhcc
Confidence 54 578888763 455678887 487777654 4677877654
No 87
>KOG2462|consensus
Probab=63.89 E-value=32 Score=31.63 Aligned_cols=107 Identities=21% Similarity=0.296 Sum_probs=64.0
Q ss_pred CCCceeecccccCCCCceeeccCCcc--cCccccCCCCCCCCCCCCCCcccchHHHhhhccccccCCCCCCCceeEecc-
Q psy12278 53 LASLFECPVCFDYVLPPIIQCQSGHL--VCSNCRPKLSCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLLH- 129 (300)
Q Consensus 53 l~~~l~CpiC~~~~~~Pi~qC~~GH~--~C~~C~~~~~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC~~~~~~- 129 (300)
....+.|+-|...+..--=. .-|. -|+.=-.+...|++|...+.....+.|-...-.+...|.. |+..|..
T Consensus 127 ~~~r~~c~eCgk~ysT~snL--srHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~i----CGKaFSRP 200 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNL--SRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGI----CGKAFSRP 200 (279)
T ss_pred cCCceecccccccccccccc--chhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCccccc----ccccccch
Confidence 44567777777665442100 0110 1111112335899998776666667777667777777876 8877763
Q ss_pred CChHHHHHh-CCCCCccCCCCCCCCcccc-cHHHHHHHhhhc
Q psy12278 130 TEKPEHEDT-CEHRPYLCPCPGASCKWGG-ALDQVMAHLNQS 169 (300)
Q Consensus 130 ~~~~~He~~-C~f~~~~Cp~~~~~C~~~g-~~~~l~~Hl~~~ 169 (300)
--++.|.++ =--+|+.||. |+... .+.+|..|++..
T Consensus 201 WLLQGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQTH 238 (279)
T KOG2462|consen 201 WLLQGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQTH 238 (279)
T ss_pred HHhhcccccccCCCCccCCc----ccchhcchHHHHHHHHhh
Confidence 344555531 2236888985 75554 588999998864
No 88
>KOG3579|consensus
Probab=62.68 E-value=9.7 Score=35.10 Aligned_cols=29 Identities=24% Similarity=0.700 Sum_probs=24.8
Q ss_pred CceeecccccCCCCce-eecc--CCcccCccc
Q psy12278 55 SLFECPVCFDYVLPPI-IQCQ--SGHLVCSNC 83 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi-~qC~--~GH~~C~~C 83 (300)
.-|+|-+|.+-|.+-. +||+ .+|-||..|
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPC 298 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPC 298 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceeccc
Confidence 4599999999999875 4997 699999887
No 89
>KOG3039|consensus
Probab=60.06 E-value=4.1 Score=36.75 Aligned_cols=34 Identities=12% Similarity=0.181 Sum_probs=28.1
Q ss_pred cCCCCceeecccccCCCCceeeccCCcccCccccC
Q psy12278 51 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRP 85 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~ 85 (300)
+.+.+.-.|..|+.+..+|| .|+.||+||..|+-
T Consensus 38 DsiK~FdcCsLtLqPc~dPv-it~~GylfdrEaIL 71 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPV-ITPDGYLFDREAIL 71 (303)
T ss_pred cccCCcceeeeecccccCCc-cCCCCeeeeHHHHH
Confidence 34455557999999999997 68999999999975
No 90
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=59.06 E-value=8.4 Score=30.63 Aligned_cols=37 Identities=30% Similarity=0.762 Sum_probs=28.0
Q ss_pred eecccccCCCCc------------eeecc-CCcccCccccC----CCCCCCCCC
Q psy12278 58 ECPVCFDYVLPP------------IIQCQ-SGHLVCSNCRP----KLSCCPTCR 94 (300)
Q Consensus 58 ~CpiC~~~~~~P------------i~qC~-~GH~~C~~C~~----~~~~Cp~Cr 94 (300)
.|-.|...+..+ .|+|+ |++.||.+|-. .+..||-|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 499999877543 47886 89999999954 346899885
No 91
>KOG1814|consensus
Probab=58.15 E-value=4.3 Score=39.20 Aligned_cols=104 Identities=21% Similarity=0.422 Sum_probs=60.3
Q ss_pred CCCCceeecccccCCCCce--eeccCCcccCccccCCC------------CCCCCCCCCCCc----c----------c--
Q psy12278 52 DLASLFECPVCFDYVLPPI--IQCQSGHLVCSNCRPKL------------SCCPTCRGPLGN----I----------R-- 101 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi--~qC~~GH~~C~~C~~~~------------~~Cp~Cr~~~~~----~----------r-- 101 (300)
-+..++.|.||++-....+ ..=+|+|++|.+|.... .+||.+.-+-.. . |
T Consensus 180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe 259 (445)
T KOG1814|consen 180 FVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE 259 (445)
T ss_pred HHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH
Confidence 3467899999999987642 23378999999996531 368765433111 0 1
Q ss_pred chHHHhhhcccc--ccCCCCCCCceeEeccCChHHHHH---hCCCCCc-cCCC---CCCCCccccc
Q psy12278 102 NLAMEKVAGTMW--FPCRYQMNGCGISLLHTEKPEHED---TCEHRPY-LCPC---PGASCKWGGA 158 (300)
Q Consensus 102 n~~lEk~~~~l~--v~C~~~~~GC~~~~~~~~~~~He~---~C~f~~~-~Cp~---~~~~C~~~g~ 158 (300)
...+++.++.+. +.||++ -|.... ..+...-.. .|.|+.+ -|.. -+..|+|.+.
T Consensus 260 ~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 260 KLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 122344455554 889986 354433 455555544 4555542 1211 1467888865
No 92
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=58.07 E-value=1.7 Score=31.42 Aligned_cols=19 Identities=37% Similarity=0.996 Sum_probs=6.3
Q ss_pred ceeecccccCCC----Cceeecc
Q psy12278 56 LFECPVCFDYVL----PPIIQCQ 74 (300)
Q Consensus 56 ~l~CpiC~~~~~----~Pi~qC~ 74 (300)
++.|+||+..+. .|...|+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~ 24 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCP 24 (70)
T ss_dssp --S-SSS--SS-TT-----B--S
T ss_pred CCCCCcCCcEecCCCCcCceEcC
Confidence 468999999865 2555663
No 93
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=57.95 E-value=4.6 Score=23.53 Aligned_cols=24 Identities=21% Similarity=0.429 Sum_probs=14.1
Q ss_pred ccCCCCCCCceeEeccCChHHHHHhCC
Q psy12278 114 FPCRYQMNGCGISLLHTEKPEHEDTCE 140 (300)
Q Consensus 114 v~C~~~~~GC~~~~~~~~~~~He~~C~ 140 (300)
+.|||. -.-.++..++..|+..|+
T Consensus 3 v~CPyn---~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 3 VRCPYN---PSHRVPASELQKHIKKCP 26 (27)
T ss_dssp EE-TTT---SS-EEEGGGHHHHHHHHH
T ss_pred eeCCCC---CCcCcCHHHHHHHHHHcC
Confidence 456663 455667777777777664
No 94
>KOG3800|consensus
Probab=56.64 E-value=3.3 Score=38.14 Aligned_cols=40 Identities=33% Similarity=0.837 Sum_probs=28.8
Q ss_pred eecccccC-CCCc-e--eeccCCcccCccccCCC-----CCCCCCCCCC
Q psy12278 58 ECPVCFDY-VLPP-I--IQCQSGHLVCSNCRPKL-----SCCPTCRGPL 97 (300)
Q Consensus 58 ~CpiC~~~-~~~P-i--~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~ 97 (300)
.||+|+.- ...| + +.-+|||..|.+|...+ ..||.|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48999864 3344 3 23368999999998864 4899997654
No 95
>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=56.32 E-value=6.1 Score=27.97 Aligned_cols=30 Identities=27% Similarity=0.634 Sum_probs=15.3
Q ss_pred ceeecccccCCCC--ceeecc-CCcccCccccC
Q psy12278 56 LFECPVCFDYVLP--PIIQCQ-SGHLVCSNCRP 85 (300)
Q Consensus 56 ~l~CpiC~~~~~~--Pi~qC~-~GH~~C~~C~~ 85 (300)
.-.|.+|...|.- --..|. ||+++|+.|..
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhC
Confidence 3579999998843 235785 89999999965
No 96
>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=56.08 E-value=7.5 Score=29.66 Aligned_cols=36 Identities=28% Similarity=0.683 Sum_probs=29.7
Q ss_pred eecccccCCCCceeeccCCcccCccccCCCCCCCCCCCCCCc
Q psy12278 58 ECPVCFDYVLPPIIQCQSGHLVCSNCRPKLSCCPTCRGPLGN 99 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~~~Cp~Cr~~~~~ 99 (300)
.|-+|..-+..+ ||.+|..|--+...|..|...+..
T Consensus 46 ~C~~CK~~v~q~------g~~YCq~CAYkkGiCamCGKki~d 81 (90)
T PF10235_consen 46 KCKICKTKVHQP------GAKYCQTCAYKKGICAMCGKKILD 81 (90)
T ss_pred cccccccccccC------CCccChhhhcccCcccccCCeecc
Confidence 588998766554 999999998888899999887743
No 97
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=55.67 E-value=3.8 Score=43.07 Aligned_cols=42 Identities=26% Similarity=0.653 Sum_probs=0.0
Q ss_pred CceeecccccCCCCceeecc-CC-----cccCccccCCC--CCCCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQ-SG-----HLVCSNCRPKL--SCCPTCRGPLG 98 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~-~G-----H~~C~~C~~~~--~~Cp~Cr~~~~ 98 (300)
....||-|...--- ..|+ || +.+|..|.... ..||.|.....
T Consensus 654 ~~r~Cp~Cg~~t~~--~~Cp~CG~~T~~~~~Cp~C~~~~~~~~C~~C~~~~~ 703 (900)
T PF03833_consen 654 GRRRCPKCGKETFY--NRCPECGSHTEPVYVCPDCGIEVEEDECPKCGRETT 703 (900)
T ss_dssp ----------------------------------------------------
T ss_pred ecccCcccCCcchh--hcCcccCCccccceeccccccccCccccccccccCc
Confidence 45789999987433 3684 77 45899998865 58999987654
No 98
>KOG1785|consensus
Probab=55.47 E-value=2.9 Score=40.15 Aligned_cols=45 Identities=31% Similarity=0.677 Sum_probs=33.2
Q ss_pred CCcee-ecccccCCCCceeeccCCcccCccccCC------CCCCCCCCCCCCc
Q psy12278 54 ASLFE-CPVCFDYVLPPIIQCQSGHLVCSNCRPK------LSCCPTCRGPLGN 99 (300)
Q Consensus 54 ~~~l~-CpiC~~~~~~Pi~qC~~GH~~C~~C~~~------~~~Cp~Cr~~~~~ 99 (300)
.+.|+ |-||-+--++- ..=+|||+.|..|... ...||.||..+..
T Consensus 366 gsTFeLCKICaendKdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 366 GSTFELCKICAENDKDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred cchHHHHHHhhccCCCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 34444 99999987774 3446799999999653 2479999988753
No 99
>KOG0825|consensus
Probab=53.94 E-value=1.7 Score=45.07 Aligned_cols=41 Identities=27% Similarity=0.732 Sum_probs=26.0
Q ss_pred eecccccCCCCcee--eccCCcccCccccCCC----CCCCCCCCCCC
Q psy12278 58 ECPVCFDYVLPPII--QCQSGHLVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~--qC~~GH~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
.||+|..-+.+-.. --.|+|.||..|+... ..||.||..|.
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 36666554443321 1135888888887753 47999998765
No 100
>KOG2817|consensus
Probab=53.93 E-value=4 Score=39.15 Aligned_cols=43 Identities=30% Similarity=0.655 Sum_probs=30.1
Q ss_pred CCCceeecccccCC---CCceeeccCCcccCccccCCC-------CCCCCCCCC
Q psy12278 53 LASLFECPVCFDYV---LPPIIQCQSGHLVCSNCRPKL-------SCCPTCRGP 96 (300)
Q Consensus 53 l~~~l~CpiC~~~~---~~Pi~qC~~GH~~C~~C~~~~-------~~Cp~Cr~~ 96 (300)
.-+.|.|||=++-- .||+. =.|||++|..-..++ .+||+|...
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~-L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMM-LICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ccceeecccchhhccCCCCCee-eeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 46889999976664 36763 245999987776643 468888654
No 101
>KOG3608|consensus
Probab=51.94 E-value=6.3 Score=37.43 Aligned_cols=112 Identities=18% Similarity=0.445 Sum_probs=72.8
Q ss_pred CCceeecccccCCCCce--e-----ec--cCCcccCccccCC----------------CCCCCCCCCCCCc---ccchHH
Q psy12278 54 ASLFECPVCFDYVLPPI--I-----QC--QSGHLVCSNCRPK----------------LSCCPTCRGPLGN---IRNLAM 105 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi--~-----qC--~~GH~~C~~C~~~----------------~~~Cp~Cr~~~~~---~rn~~l 105 (300)
+..+-||-|.+.++.-- + |- .-.|..|+.|... ..+||.|....+. .++-.+
T Consensus 205 eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r 284 (467)
T KOG3608|consen 205 EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIR 284 (467)
T ss_pred CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHH
Confidence 45688999999886521 1 11 1246678888653 1479999776552 233333
Q ss_pred HhhhccccccCCCCCCCcee-EeccCChHHHHHhCCCCCccCCCCCCCCcccc-cHHHHHHHhhhccC
Q psy12278 106 EKVAGTMWFPCRYQMNGCGI-SLLHTEKPEHEDTCEHRPYLCPCPGASCKWGG-ALDQVMAHLNQSHK 171 (300)
Q Consensus 106 Ek~~~~l~v~C~~~~~GC~~-~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~g-~~~~l~~Hl~~~H~ 171 (300)
-+-...-.+.|.- |.. -+...++..|...=.-..|.|.++ .|.+.. .+.+|..|+++.|.
T Consensus 285 ~rHs~dkpfKCd~----Cd~~c~~esdL~kH~~~HS~~~y~C~h~--~C~~s~r~~~q~~~H~~evhE 346 (467)
T KOG3608|consen 285 YRHSKDKPFKCDE----CDTRCVRESDLAKHVQVHSKTVYQCEHP--DCHYSVRTYTQMRRHFLEVHE 346 (467)
T ss_pred hhhccCCCccccc----hhhhhccHHHHHHHHHhccccceecCCC--CCcHHHHHHHHHHHHHHHhcc
Confidence 4445566677764 654 345578888876433455778776 588776 47789999999994
No 102
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.66 E-value=6.4 Score=36.60 Aligned_cols=45 Identities=22% Similarity=0.534 Sum_probs=33.1
Q ss_pred CCceeecccccCCC--CceeeccCCcccCccccCCC-----CCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVL--PPIIQCQSGHLVCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~--~Pi~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
..-.+|.||.+-+. +-+.--+|.|.|=..|..+. ..||+||+++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 34479999998874 22333467999988898863 58999998863
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=50.45 E-value=4.8 Score=27.10 Aligned_cols=40 Identities=28% Similarity=0.656 Sum_probs=20.4
Q ss_pred eeecccccCCCCceeeccCCcccCccccC--------CCCCCCCCCCC
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCRP--------KLSCCPTCRGP 96 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~--------~~~~Cp~Cr~~ 96 (300)
|.||+-...+..|+.--.|.|.-|-+=.. ..-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 78999999999999766678987533211 11369999754
No 104
>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=49.10 E-value=12 Score=28.43 Aligned_cols=34 Identities=21% Similarity=0.406 Sum_probs=25.5
Q ss_pred CCCCceeecccccCCCCce-eeccCCcccCccccC
Q psy12278 52 DLASLFECPVCFDYVLPPI-IQCQSGHLVCSNCRP 85 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~~Pi-~qC~~GH~~C~~C~~ 85 (300)
.+.+.-.|++|...+.... .-.++||.+-..|..
T Consensus 74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 3445567999999998654 456889999888864
No 105
>KOG1645|consensus
Probab=48.82 E-value=4.8 Score=38.85 Aligned_cols=41 Identities=37% Similarity=0.717 Sum_probs=30.8
Q ss_pred eeecccccCCCCceee----ccCCcccCccccCCC------CCCCCCCCCC
Q psy12278 57 FECPVCFDYVLPPIIQ----CQSGHLVCSNCRPKL------SCCPTCRGPL 97 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~q----C~~GH~~C~~C~~~~------~~Cp~Cr~~~ 97 (300)
-.||||++-..-|.-. =.|||.|=++|+++. ..||.|...-
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 4699999988766421 135999999998853 4799998753
No 106
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=47.93 E-value=2.7 Score=44.65 Aligned_cols=45 Identities=27% Similarity=0.623 Sum_probs=30.3
Q ss_pred CCceeecccccCCC-----Cceeecc-CCcccCccccCC------CCCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK------LSCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~------~~~Cp~Cr~~~~ 98 (300)
...-+|+||..++. -|-..|+ |.|-|=.+|.-+ .+.||.||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34457999999875 3555663 666666666543 258999997664
No 107
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=47.45 E-value=9.6 Score=23.46 Aligned_cols=24 Identities=21% Similarity=0.594 Sum_probs=14.2
Q ss_pred cccCCCCCCCceeEeccCChHHHHHhCC
Q psy12278 113 WFPCRYQMNGCGISLLHTEKPEHEDTCE 140 (300)
Q Consensus 113 ~v~C~~~~~GC~~~~~~~~~~~He~~C~ 140 (300)
.+.|++ |...+....+..|.+.|-
T Consensus 4 ~~~C~n----C~R~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 4 YVECPN----CGRPVAASRFAPHLEKCM 27 (33)
T ss_dssp EEE-TT----TSSEEEGGGHHHHHHHHT
T ss_pred eEECCC----CcCCcchhhhHHHHHHHH
Confidence 455665 666666666666666553
No 108
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=47.35 E-value=12 Score=25.62 Aligned_cols=29 Identities=24% Similarity=0.679 Sum_probs=19.8
Q ss_pred eec--ccccCCC------Cceeec-cCCcccCccccCC
Q psy12278 58 ECP--VCFDYVL------PPIIQC-QSGHLVCSNCRPK 86 (300)
Q Consensus 58 ~Cp--iC~~~~~------~Pi~qC-~~GH~~C~~C~~~ 86 (300)
-|| -|..++. .+.++| .||+.||..|...
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~ 57 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP 57 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc
Confidence 466 6655442 335688 6899999998764
No 109
>KOG2807|consensus
Probab=47.19 E-value=10 Score=35.68 Aligned_cols=36 Identities=25% Similarity=0.734 Sum_probs=23.4
Q ss_pred ecccccC-CCCceeecc-CCcccCccccC----CCCCCCCCC
Q psy12278 59 CPVCFDY-VLPPIIQCQ-SGHLVCSNCRP----KLSCCPTCR 94 (300)
Q Consensus 59 CpiC~~~-~~~Pi~qC~-~GH~~C~~C~~----~~~~Cp~Cr 94 (300)
|=.|.+- ...+.|+|. |.+.||..|-. .+..||.|.
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 7777444 345567775 77888888843 345777774
No 110
>KOG1039|consensus
Probab=46.65 E-value=8.6 Score=36.60 Aligned_cols=45 Identities=31% Similarity=0.640 Sum_probs=34.3
Q ss_pred CCceeecccccCCCCce-----ee--ccCCcccCccccCC-----------CCCCCCCCCCCC
Q psy12278 54 ASLFECPVCFDYVLPPI-----IQ--CQSGHLVCSNCRPK-----------LSCCPTCRGPLG 98 (300)
Q Consensus 54 ~~~l~CpiC~~~~~~Pi-----~q--C~~GH~~C~~C~~~-----------~~~Cp~Cr~~~~ 98 (300)
.++-.|-||.+...... ++ =+|-|.+|..|+.+ ...||.||.+..
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 34678999999987765 31 24689999999764 157999998764
No 111
>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=44.87 E-value=20 Score=20.62 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=16.0
Q ss_pred ccCCCCCCCCcccccHHHHHHHhhhc
Q psy12278 144 YLCPCPGASCKWGGALDQVMAHLNQS 169 (300)
Q Consensus 144 ~~Cp~~~~~C~~~g~~~~l~~Hl~~~ 169 (300)
+.||. |.+..+...+..|++.+
T Consensus 2 v~CPi----C~~~v~~~~in~HLD~C 23 (26)
T smart00734 2 VQCPV----CFREVPENLINSHLDSC 23 (26)
T ss_pred CcCCC----CcCcccHHHHHHHHHHh
Confidence 35774 87887778888888754
No 112
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=44.11 E-value=17 Score=23.13 Aligned_cols=23 Identities=30% Similarity=0.762 Sum_probs=15.1
Q ss_pred ecccccCCCC-ceeecc-CCcccCcc
Q psy12278 59 CPVCFDYVLP-PIIQCQ-SGHLVCSN 82 (300)
Q Consensus 59 CpiC~~~~~~-Pi~qC~-~GH~~C~~ 82 (300)
|.+|.....- | +.|. ||..||..
T Consensus 1 C~~C~~~~~l~~-f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLTG-FKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCcccccC-eECCccCCccccc
Confidence 4566665444 6 5787 88888754
No 113
>PRK00420 hypothetical protein; Validated
Probab=43.63 E-value=13 Score=29.63 Aligned_cols=25 Identities=28% Similarity=0.544 Sum_probs=16.6
Q ss_pred eeecccccCCCCceeeccCCcccCccccC
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCRP 85 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~ 85 (300)
-.||+|..++..- ..|..+|..|-.
T Consensus 24 ~~CP~Cg~pLf~l----k~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFEL----KDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceec----CCCceECCCCCC
Confidence 5899999766442 348877655543
No 114
>PF12773 DZR: Double zinc ribbon
Probab=42.78 E-value=23 Score=23.29 Aligned_cols=6 Identities=50% Similarity=1.697 Sum_probs=2.6
Q ss_pred CCCCCC
Q psy12278 90 CPTCRG 95 (300)
Q Consensus 90 Cp~Cr~ 95 (300)
||.|..
T Consensus 32 C~~Cg~ 37 (50)
T PF12773_consen 32 CPNCGA 37 (50)
T ss_pred CcCCcC
Confidence 444433
No 115
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=41.27 E-value=15 Score=20.48 Aligned_cols=7 Identities=43% Similarity=1.341 Sum_probs=3.1
Q ss_pred CCCCCCC
Q psy12278 89 CCPTCRG 95 (300)
Q Consensus 89 ~Cp~Cr~ 95 (300)
.||.|..
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3444443
No 116
>KOG1001|consensus
Probab=40.94 E-value=8.3 Score=40.06 Aligned_cols=54 Identities=28% Similarity=0.535 Sum_probs=36.5
Q ss_pred eeecccccCCCCceeeccCCcccCccccCCC------CCCCCCCCCCCcccchHHHhhhccccccCCC
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCRPKL------SCCPTCRGPLGNIRNLAMEKVAGTMWFPCRY 118 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~------~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~ 118 (300)
+.|++|.+ ...++ --.|||.+|..|+.+. ..||.||..+ ...++++.....+..
T Consensus 455 ~~c~ic~~-~~~~~-it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l------~~~~l~s~~~~~~~~ 514 (674)
T KOG1001|consen 455 HWCHICCD-LDSFF-ITRCGHDFCVECLKKSIQQSENAPCPLCRNVL------KEKKLLSANPLPSII 514 (674)
T ss_pred cccccccc-cccce-eecccchHHHHHHHhccccccCCCCcHHHHHH------HHHHHhhcccccchh
Confidence 79999999 55554 3366999999998753 3699997543 233444444555444
No 117
>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=40.38 E-value=22 Score=35.49 Aligned_cols=36 Identities=25% Similarity=0.531 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCcccchH--------HHhhhccccccCCCCCCCceeEe
Q psy12278 88 SCCPTCRGPLGNIRNLA--------MEKVAGTMWFPCRYQMNGCGISL 127 (300)
Q Consensus 88 ~~Cp~Cr~~~~~~rn~~--------lEk~~~~l~v~C~~~~~GC~~~~ 127 (300)
..||.|..++....... -...-..+-+.|.| |.|.-
T Consensus 53 f~CP~C~~~L~~~~~~~~~~~~~~~~~~~~~~~~l~C~~----C~Wss 96 (483)
T PF05502_consen 53 FDCPICFSPLSVRASDTPPSPPDPSSDSGGKPYYLSCSY----CRWSS 96 (483)
T ss_pred ccCCCCCCcceeEecccccccccccccCCCCCEEEECCC----ceeec
Confidence 46999988875221110 01112345567887 88853
No 118
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=39.47 E-value=27 Score=30.17 Aligned_cols=46 Identities=15% Similarity=0.174 Sum_probs=28.7
Q ss_pred CCCCCCcccchHHHhhhccccccCCCCCCCceeEeccCChHHHHHh
Q psy12278 93 CRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLLHTEKPEHEDT 138 (300)
Q Consensus 93 Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC~~~~~~~~~~~He~~ 138 (300)
|...+....-..-|+...-.+..||....||.|.....++..|...
T Consensus 24 C~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~ 69 (198)
T PF03145_consen 24 CTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRD 69 (198)
T ss_dssp ---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHH
T ss_pred CcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHH
Confidence 5444443333455778888899999977799999999999999875
No 119
>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=39.40 E-value=24 Score=18.54 Aligned_cols=18 Identities=17% Similarity=0.337 Sum_probs=12.4
Q ss_pred Ccccc-cHHHHHHHhhhcc
Q psy12278 153 CKWGG-ALDQVMAHLNQSH 170 (300)
Q Consensus 153 C~~~g-~~~~l~~Hl~~~H 170 (300)
|+... ...+|..|+...|
T Consensus 6 C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 6 CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp TS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCcHHHHHHHHHhhC
Confidence 65555 4678899988766
No 120
>KOG2231|consensus
Probab=38.99 E-value=16 Score=37.78 Aligned_cols=40 Identities=30% Similarity=0.603 Sum_probs=27.6
Q ss_pred eecccccCCCCceeeccCCc-ccCccccCCC----------CCCCCCCCCCC
Q psy12278 58 ECPVCFDYVLPPIIQCQSGH-LVCSNCRPKL----------SCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~~GH-~~C~~C~~~~----------~~Cp~Cr~~~~ 98 (300)
.|+||-.-..-+.+- .+|| .+|..|..++ ..||.|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~-s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRG-SCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccc-cccccccchhhhhhhhhhcccccccccCccccccee
Confidence 488888776665532 4599 8999997643 24688887654
No 121
>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=38.15 E-value=18 Score=24.34 Aligned_cols=29 Identities=24% Similarity=0.611 Sum_probs=20.5
Q ss_pred eecccccCCCCc--eeecc-CCcccCccccCC
Q psy12278 58 ECPVCFDYVLPP--IIQCQ-SGHLVCSNCRPK 86 (300)
Q Consensus 58 ~CpiC~~~~~~P--i~qC~-~GH~~C~~C~~~ 86 (300)
.|+.|...|..- -..|. +|+++|..|...
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~ 35 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSN 35 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCC
Confidence 588887765432 24775 799999999764
No 122
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.81 E-value=33 Score=21.00 Aligned_cols=9 Identities=44% Similarity=1.276 Sum_probs=6.8
Q ss_pred CCCCCCCCC
Q psy12278 88 SCCPTCRGP 96 (300)
Q Consensus 88 ~~Cp~Cr~~ 96 (300)
..||.|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 478999765
No 123
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=36.72 E-value=18 Score=23.78 Aligned_cols=38 Identities=16% Similarity=0.495 Sum_probs=26.1
Q ss_pred CCCCCCCCCCcccchHHHhhhccccccCCCCCCCceeEec
Q psy12278 89 CCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLL 128 (300)
Q Consensus 89 ~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC~~~~~ 128 (300)
.||.|..+........+.+.+..+-.-|.|.. |+..+.
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~--Cg~tfv 38 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPE--CGHTFV 38 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCc--CCCEEE
Confidence 48999887654445556667777888888864 665544
No 124
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=36.22 E-value=24 Score=21.89 Aligned_cols=31 Identities=23% Similarity=0.431 Sum_probs=15.9
Q ss_pred ceeecccccCCCCceeeccCCcccCccccCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQSGHLVCSNCRPK 86 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~ 86 (300)
...|--|...+.+..+.-.-++.+|..|+.+
T Consensus 3 ~~~C~eC~~~f~dSyL~~~F~~~VCD~CRD~ 33 (34)
T PF01286_consen 3 YPKCDECGKPFMDSYLLNNFDLPVCDKCRDK 33 (34)
T ss_dssp -EE-TTT--EES-SSCCCCTS-S--TTT-ST
T ss_pred CchHhHhCCHHHHHHHHHhCCccccccccCC
Confidence 4578888888888765555688888888753
No 125
>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 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=35.74 E-value=18 Score=28.64 Aligned_cols=13 Identities=31% Similarity=1.071 Sum_probs=11.0
Q ss_pred eeeccCCcccCcc
Q psy12278 70 IIQCQSGHLVCSN 82 (300)
Q Consensus 70 i~qC~~GH~~C~~ 82 (300)
+.+|.|||.||..
T Consensus 24 ~vkc~CGh~f~d~ 36 (112)
T PF08882_consen 24 VVKCDCGHEFCDA 36 (112)
T ss_pred eeeccCCCeecCh
Confidence 7799999999754
No 127
>KOG4628|consensus
Probab=35.68 E-value=24 Score=33.64 Aligned_cols=42 Identities=19% Similarity=0.490 Sum_probs=31.4
Q ss_pred eeecccccCCCCc--eeeccCCcccCccccCCC-----CCCCCCCCCCC
Q psy12278 57 FECPVCFDYVLPP--IIQCQSGHLVCSNCRPKL-----SCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~~P--i~qC~~GH~~C~~C~~~~-----~~Cp~Cr~~~~ 98 (300)
..|.||++-+..= +..=+|+|.|=..|+... ..||.|+.++.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 5899999998642 333366999988898752 45999998753
No 128
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=35.39 E-value=17 Score=29.74 Aligned_cols=23 Identities=26% Similarity=0.769 Sum_probs=17.0
Q ss_pred eeecccccCCCCceeeccCCcccCcccc
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCR 84 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~ 84 (300)
-+||.|..++ |+ ..|-+||..|-
T Consensus 29 ~hCp~Cg~PL----F~-KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPL----FR-KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCcc----ee-eCCeEECCCCC
Confidence 4899999865 44 56998876664
No 129
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=34.68 E-value=23 Score=20.23 Aligned_cols=6 Identities=50% Similarity=1.270 Sum_probs=2.6
Q ss_pred eccccc
Q psy12278 59 CPVCFD 64 (300)
Q Consensus 59 CpiC~~ 64 (300)
||.|..
T Consensus 5 Cp~Cg~ 10 (26)
T PF13248_consen 5 CPNCGA 10 (26)
T ss_pred CcccCC
Confidence 444444
No 130
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=34.58 E-value=29 Score=22.38 Aligned_cols=23 Identities=26% Similarity=0.772 Sum_probs=15.3
Q ss_pred eeecccccCCCCceeeccCCcccCccc
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNC 83 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C 83 (300)
-.||.|..+ .++-..|..+|-.|
T Consensus 18 ~~Cp~C~~P----L~~~k~g~~~Cv~C 40 (41)
T PF06677_consen 18 EHCPDCGTP----LMRDKDGKIYCVSC 40 (41)
T ss_pred CccCCCCCe----eEEecCCCEECCCC
Confidence 369999544 44435688888776
No 131
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=34.57 E-value=22 Score=27.58 Aligned_cols=33 Identities=30% Similarity=0.685 Sum_probs=19.5
Q ss_pred CCCCceeecccccCCC-CceeeccCCcccCccccC
Q psy12278 52 DLASLFECPVCFDYVL-PPIIQCQSGHLVCSNCRP 85 (300)
Q Consensus 52 ~l~~~l~CpiC~~~~~-~Pi~qC~~GH~~C~~C~~ 85 (300)
.+...+.||-|.+... -++-. .-+|+.|..|-.
T Consensus 17 klpt~f~CP~Cge~~v~v~~~k-~~~h~~C~~CG~ 50 (99)
T PRK14892 17 KLPKIFECPRCGKVSISVKIKK-NIAIITCGNCGL 50 (99)
T ss_pred CCCcEeECCCCCCeEeeeecCC-CcceEECCCCCC
Confidence 4457899999996322 22222 236777666644
No 132
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=34.37 E-value=20 Score=29.24 Aligned_cols=21 Identities=24% Similarity=0.563 Sum_probs=15.0
Q ss_pred ccccCCCCceeeccCCcccCcc
Q psy12278 61 VCFDYVLPPIIQCQSGHLVCSN 82 (300)
Q Consensus 61 iC~~~~~~Pi~qC~~GH~~C~~ 82 (300)
||.+.-.. +..|.|||.||..
T Consensus 62 i~qs~~~r-v~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKR-VIRCECGHSFGDY 82 (165)
T ss_pred EEeccccc-EEEEeccccccCh
Confidence 45665555 6789999999743
No 133
>KOG4218|consensus
Probab=34.30 E-value=17 Score=34.54 Aligned_cols=24 Identities=42% Similarity=0.780 Sum_probs=14.0
Q ss_pred eecccccCCCCceeeccCCcccCccccC
Q psy12278 58 ECPVCFDYVLPPIIQCQSGHLVCSNCRP 85 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~~GH~~C~~C~~ 85 (300)
.||||.+-...-.| |-+.|.+|..
T Consensus 17 lCPVCGDkVSGYHY----GLLTCESCKG 40 (475)
T KOG4218|consen 17 LCPVCGDKVSGYHY----GLLTCESCKG 40 (475)
T ss_pred ccccccCcccccee----eeeehhhhhh
Confidence 57777776665433 5555555543
No 134
>PRK11827 hypothetical protein; Provisional
Probab=33.14 E-value=20 Score=25.18 Aligned_cols=17 Identities=29% Similarity=0.710 Sum_probs=13.7
Q ss_pred cCCCCceeecccccCCC
Q psy12278 51 TDLASLFECPVCFDYVL 67 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~ 67 (300)
..|.+.+-||+|+..+.
T Consensus 3 ~~LLeILaCP~ckg~L~ 19 (60)
T PRK11827 3 HRLLEIIACPVCNGKLW 19 (60)
T ss_pred hHHHhheECCCCCCcCe
Confidence 45678899999998775
No 135
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=32.29 E-value=36 Score=35.30 Aligned_cols=41 Identities=29% Similarity=0.656 Sum_probs=20.3
Q ss_pred eecccccCCCCceeecc-CCc----ccCccccCCC----CCCCCCCCCCC
Q psy12278 58 ECPVCFDYVLPPIIQCQ-SGH----LVCSNCRPKL----SCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~-~GH----~~C~~C~~~~----~~Cp~Cr~~~~ 98 (300)
.||-|.....+--..|+ ||. ..|..|-... ..||.|..+..
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred cCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCCcccccccccCCccc
Confidence 46666655433222332 342 2466665443 35777766544
No 136
>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=31.75 E-value=28 Score=22.37 Aligned_cols=27 Identities=26% Similarity=0.673 Sum_probs=15.0
Q ss_pred ecc--cccCCCCceeecc-CCcccCccccCC
Q psy12278 59 CPV--CFDYVLPPIIQCQ-SGHLVCSNCRPK 86 (300)
Q Consensus 59 Cpi--C~~~~~~Pi~qC~-~GH~~C~~C~~~ 86 (300)
|.. |......| +.|+ ||..||..=+..
T Consensus 1 C~~~~C~~~~~~~-~~C~~C~~~FC~~Hr~~ 30 (43)
T PF01428_consen 1 CSFPGCKKKDFLP-FKCKHCGKSFCLKHRLP 30 (43)
T ss_dssp -SSTTT--BCTSH-EE-TTTS-EE-TTTHST
T ss_pred CccCcCcCccCCC-eECCCCCcccCccccCc
Confidence 445 88777777 4887 899998776654
No 137
>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=31.71 E-value=15 Score=33.97 Aligned_cols=41 Identities=29% Similarity=0.562 Sum_probs=18.6
Q ss_pred ceeecccccCCCCceeeccC--C--cccCccccCC----CCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQS--G--HLVCSNCRPK----LSCCPTCRGP 96 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~~--G--H~~C~~C~~~----~~~Cp~Cr~~ 96 (300)
.-.||||.....--++.=.. | +.+|+-|-.. ...||.|...
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 35899999986655443332 5 5679999653 2579999654
No 138
>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=31.38 E-value=31 Score=32.32 Aligned_cols=41 Identities=27% Similarity=0.610 Sum_probs=26.3
Q ss_pred CceeecccccCCCCceeec---cCC--cccCccccCCC----CCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQC---QSG--HLVCSNCRPKL----SCCPTCRG 95 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC---~~G--H~~C~~C~~~~----~~Cp~Cr~ 95 (300)
..-.||||.....--+..= ..| +..|+-|-..- ..||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3458999999865443221 245 56788886542 57888864
No 139
>KOG4362|consensus
Probab=30.19 E-value=13 Score=38.44 Aligned_cols=47 Identities=26% Similarity=0.718 Sum_probs=36.1
Q ss_pred cCCCCceeecccccCCCCceeeccCCcccCccccCCC-------CCCCCCCCCCC
Q psy12278 51 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL-------SCCPTCRGPLG 98 (300)
Q Consensus 51 ~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~-------~~Cp~Cr~~~~ 98 (300)
..+...++||||......|+. -.|-|.||..|+... ..||.|+..+.
T Consensus 16 ~~~~k~lEc~ic~~~~~~p~~-~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 16 NAMQKILECPICLEHVKEPSL-LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HHHhhhccCCceeEEeeccch-hhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 345678999999999999953 245999999998753 36999986543
No 140
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=28.75 E-value=26 Score=33.69 Aligned_cols=49 Identities=31% Similarity=0.698 Sum_probs=31.6
Q ss_pred cccCCC-CceeecccccCC-CCce-----------eeccCCcccCccccC----CCCCCCCCCCCC
Q psy12278 49 TSTDLA-SLFECPVCFDYV-LPPI-----------IQCQSGHLVCSNCRP----KLSCCPTCRGPL 97 (300)
Q Consensus 49 ~~~~l~-~~l~CpiC~~~~-~~Pi-----------~qC~~GH~~C~~C~~----~~~~Cp~Cr~~~ 97 (300)
.++++. ++-.|.||.+-+ .+|- ..=+|||.+=-+|.. +...||.||.|+
T Consensus 279 t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 279 TEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 344443 556799999984 4441 112458877666643 346899999994
No 141
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.64 E-value=28 Score=25.82 Aligned_cols=47 Identities=23% Similarity=0.537 Sum_probs=27.1
Q ss_pred eeecccccCCCCceeeccCCcccCccccCCCCCCCCCCCCCCcccchHHHhhhccccccC
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCRPKLSCCPTCRGPLGNIRNLAMEKVAGTMWFPC 116 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~~~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C 116 (300)
+.||+|.--|..-+.+ |-- ...||.||+-.- ---.++|+++...+|=
T Consensus 2 llCP~C~v~l~~~~rs---~vE--------iD~CPrCrGVWL--DrGELdKli~r~r~pq 48 (88)
T COG3809 2 LLCPICGVELVMSVRS---GVE--------IDYCPRCRGVWL--DRGELDKLIERSRYPQ 48 (88)
T ss_pred cccCcCCceeeeeeec---Cce--------eeeCCccccEee--cchhHHHHHHHhcCCC
Confidence 5688887766654322 221 257899987532 2234577777665443
No 142
>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=28.30 E-value=26 Score=23.39 Aligned_cols=30 Identities=20% Similarity=0.435 Sum_probs=18.8
Q ss_pred CceeecccccCCCCceeeccCCcccCcccc
Q psy12278 55 SLFECPVCFDYVLPPIIQCQSGHLVCSNCR 84 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~ 84 (300)
+=|.|..|...+.+.-+.-..|..+|..|.
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~ 54 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCY 54 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHH
Confidence 346677777777665333356677777664
No 143
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.16 E-value=30 Score=26.38 Aligned_cols=31 Identities=29% Similarity=0.551 Sum_probs=17.8
Q ss_pred CCCceeecc-CCcccCccccCCCCCCCCCCCCCC
Q psy12278 66 VLPPIIQCQ-SGHLVCSNCRPKLSCCPTCRGPLG 98 (300)
Q Consensus 66 ~~~Pi~qC~-~GH~~C~~C~~~~~~Cp~Cr~~~~ 98 (300)
+.|| +|. ||-.|=+.=+.+.+.||.|+....
T Consensus 56 v~Pa--~CkkCGfef~~~~ik~pSRCP~CKSE~I 87 (97)
T COG3357 56 VRPA--RCKKCGFEFRDDKIKKPSRCPKCKSEWI 87 (97)
T ss_pred ecCh--hhcccCccccccccCCcccCCcchhhcc
Confidence 4444 563 677663212223478999987643
No 144
>COG3882 FkbH Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=27.90 E-value=60 Score=32.48 Aligned_cols=42 Identities=24% Similarity=0.415 Sum_probs=35.7
Q ss_pred ccchhhhhhhhccCCCEeEEechhhhhhcCCCceEEEEEEee
Q psy12278 258 PRSIHEGVASAIMNSDCLVFDTNIAQLFADNGNLGINVTIGT 299 (300)
Q Consensus 258 ~~si~e~~~~~~~~~dcl~i~~~~~~~f~~~~~L~i~v~I~~ 299 (300)
.|-..+.+.+...++.|++|..++..-|++||.+.+-+.+++
T Consensus 442 kRy~e~dV~~~~~~~~~li~sv~l~DKfgDnGiigvviv~kk 483 (574)
T COG3882 442 KRYNEEDVRQMQEDPNFLIFSVSLKDKFGDNGIIGVVIVEKK 483 (574)
T ss_pred hhhcHHHHHHHhhCCCeEEEEEEeccccccCceEEEEEEEec
Confidence 445677888888899999999999999999999998877664
No 145
>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=27.89 E-value=52 Score=19.86 Aligned_cols=9 Identities=44% Similarity=1.272 Sum_probs=6.5
Q ss_pred CCCCCCCCC
Q psy12278 88 SCCPTCRGP 96 (300)
Q Consensus 88 ~~Cp~Cr~~ 96 (300)
..||.|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 478888764
No 146
>KOG1100|consensus
Probab=27.83 E-value=46 Score=29.36 Aligned_cols=39 Identities=28% Similarity=0.711 Sum_probs=27.8
Q ss_pred ecccccCCCCceeeccCCc-ccCccccCCCCCCCCCCCCCC
Q psy12278 59 CPVCFDYVLPPIIQCQSGH-LVCSNCRPKLSCCPTCRGPLG 98 (300)
Q Consensus 59 CpiC~~~~~~Pi~qC~~GH-~~C~~C~~~~~~Cp~Cr~~~~ 98 (300)
|=.|.+--.. |+.=+|.| ..|..|-.....||.|+.+..
T Consensus 161 Cr~C~~~~~~-VlllPCrHl~lC~~C~~~~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREAT-VLLLPCRHLCLCGICDESLRICPICRSPKT 200 (207)
T ss_pred ceecCcCCce-EEeecccceEecccccccCccCCCCcChhh
Confidence 7778775544 33335555 689999887778999998753
No 147
>PLN02189 cellulose synthase
Probab=27.64 E-value=39 Score=36.79 Aligned_cols=42 Identities=26% Similarity=0.653 Sum_probs=32.2
Q ss_pred eeecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 57 FECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
-.|.||.+-+- .|-+-|. ||--+|..|.+- ...||.|++++.
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 38999999864 3445785 899999999763 258999998764
No 148
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=27.11 E-value=48 Score=28.22 Aligned_cols=9 Identities=44% Similarity=1.379 Sum_probs=6.5
Q ss_pred CCCCCCCCC
Q psy12278 88 SCCPTCRGP 96 (300)
Q Consensus 88 ~~Cp~Cr~~ 96 (300)
..||.|..+
T Consensus 150 ~~CPiCga~ 158 (166)
T COG1592 150 EVCPICGAP 158 (166)
T ss_pred CcCCCCCCh
Confidence 478888765
No 149
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=26.79 E-value=40 Score=23.90 Aligned_cols=14 Identities=36% Similarity=0.904 Sum_probs=9.9
Q ss_pred CCCceeecccccCC
Q psy12278 53 LASLFECPVCFDYV 66 (300)
Q Consensus 53 l~~~l~CpiC~~~~ 66 (300)
+.+.|.||+|+.++
T Consensus 4 llniL~Cp~ck~pL 17 (68)
T PF03966_consen 4 LLNILACPVCKGPL 17 (68)
T ss_dssp GCGTBB-TTTSSBE
T ss_pred HHhhhcCCCCCCcc
Confidence 45678899999855
No 150
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=26.79 E-value=38 Score=21.66 Aligned_cols=26 Identities=35% Similarity=0.819 Sum_probs=14.1
Q ss_pred eeecccccCCCCceeeccCCcccCcccc
Q psy12278 57 FECPVCFDYVLPPIIQCQSGHLVCSNCR 84 (300)
Q Consensus 57 l~CpiC~~~~~~Pi~qC~~GH~~C~~C~ 84 (300)
+.||.|.... -++-=..|-.+|..|-
T Consensus 1 m~Cp~Cg~~~--~~~D~~~g~~vC~~CG 26 (43)
T PF08271_consen 1 MKCPNCGSKE--IVFDPERGELVCPNCG 26 (43)
T ss_dssp ESBTTTSSSE--EEEETTTTEEEETTT-
T ss_pred CCCcCCcCCc--eEEcCCCCeEECCCCC
Confidence 3577777743 1222235777777773
No 151
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=26.70 E-value=20 Score=26.57 Aligned_cols=42 Identities=26% Similarity=0.612 Sum_probs=15.8
Q ss_pred eeecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 57 FECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
-.|.||.+-+- .+..-|. |+--+|..|.+- ...||.|++++.
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46999988753 2333563 678888888652 368999998764
No 152
>KOG0298|consensus
Probab=26.30 E-value=7.7 Score=42.63 Aligned_cols=50 Identities=32% Similarity=0.728 Sum_probs=37.4
Q ss_pred CCcccCCCCceeecccccCCCC--ceeeccCCcccCccccCC----CCCCCCCCCCCC
Q psy12278 47 AGTSTDLASLFECPVCFDYVLP--PIIQCQSGHLVCSNCRPK----LSCCPTCRGPLG 98 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~--Pi~qC~~GH~~C~~C~~~----~~~Cp~Cr~~~~ 98 (300)
......+-....|++|.+.++. -|++| ||.+|.+|... ...||+|....+
T Consensus 1144 ~~y~~~~~~~~~c~ic~dil~~~~~I~~c--gh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1144 VRYLMNLSGHFVCEICLDILRNQGGIAGC--GHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred HHHHHHhhcccchHHHHHHHHhcCCeeee--chhHhhhHHHHHHHHhccCcchhhhhh
Confidence 3334555666799999999983 46777 99999999763 368999986543
No 153
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=26.06 E-value=17 Score=27.12 Aligned_cols=41 Identities=24% Similarity=0.557 Sum_probs=26.2
Q ss_pred eecccccCCCCceeeccCC---------------cccCccccCC----CCCCCCCCCCCC
Q psy12278 58 ECPVCFDYVLPPIIQCQSG---------------HLVCSNCRPK----LSCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC~~G---------------H~~C~~C~~~----~~~Cp~Cr~~~~ 98 (300)
.|.||...+..+-.+|+.| |.|=..|+.+ ...||.+++++.
T Consensus 22 ~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 22 VCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred hhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 5788888777765566653 4444445443 257999888764
No 154
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.19 E-value=55 Score=32.83 Aligned_cols=39 Identities=28% Similarity=0.692 Sum_probs=24.2
Q ss_pred ceeecccccCCCCceeecc--------CCcccCccccCCC---CCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPPIIQCQ--------SGHLVCSNCRPKL---SCCPTCRGP 96 (300)
Q Consensus 56 ~l~CpiC~~~~~~Pi~qC~--------~GH~~C~~C~~~~---~~Cp~Cr~~ 96 (300)
.+.|..|...++=| .|. .+...|..|-... ..||.|...
T Consensus 213 ~~~C~~Cg~~~~C~--~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 213 NLLCRSCGYILCCP--NCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred eeEhhhCcCccCCC--CCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 45666666665544 232 2456788886543 479999775
No 155
>PF15616 TerY-C: TerY-C metal binding domain
Probab=25.00 E-value=43 Score=27.41 Aligned_cols=48 Identities=23% Similarity=0.441 Sum_probs=33.4
Q ss_pred CCcccCCCCceeecccccCCCCceeeccCCcccCccccCCCCCCCCCCCCC
Q psy12278 47 AGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKLSCCPTCRGPL 97 (300)
Q Consensus 47 ~~~~~~l~~~l~CpiC~~~~~~Pi~qC~~GH~~C~~C~~~~~~Cp~Cr~~~ 97 (300)
....++|...--||-|....-- ..|.||+++|-.= +....||-|....
T Consensus 68 ~vntseL~g~PgCP~CGn~~~f--a~C~CGkl~Ci~g-~~~~~CPwCg~~g 115 (131)
T PF15616_consen 68 KVNTSELIGAPGCPHCGNQYAF--AVCGCGKLFCIDG-EGEVTCPWCGNEG 115 (131)
T ss_pred EEehHHhcCCCCCCCCcChhcE--EEecCCCEEEeCC-CCCEECCCCCCee
Confidence 3334677777899999986544 3688899997222 2346899998764
No 156
>KOG0297|consensus
Probab=24.25 E-value=44 Score=32.38 Aligned_cols=49 Identities=22% Similarity=0.475 Sum_probs=35.4
Q ss_pred ccccCCCCCCCceeEeccCChHHHH-HhCCCCCccCCCCCCCCcccccHHHHHHHhh
Q psy12278 112 MWFPCRYQMNGCGISLLHTEKPEHE-DTCEHRPYLCPCPGASCKWGGALDQVMAHLN 167 (300)
Q Consensus 112 l~v~C~~~~~GC~~~~~~~~~~~He-~~C~f~~~~Cp~~~~~C~~~g~~~~l~~Hl~ 167 (300)
..+.|++. |...++..++.+|. ++|+++...|.+ |.-.....++..|..
T Consensus 113 ~~~~C~~~---C~~~~~~~d~~~hl~~~C~~~~~~c~~----~~~~~~~~~~~~h~~ 162 (391)
T KOG0297|consen 113 DPLKCPHR---CGVQVPRDDLEDHLEAECPRRSLKCSL----CQSDSILILLEAHEE 162 (391)
T ss_pred CcccCccc---cccccchHHHHHHHhcccccccccchh----hcCccchhhhhhcCC
Confidence 56889884 99999999999996 689999888876 333334444445544
No 157
>KOG4376|consensus
Probab=24.13 E-value=93 Score=25.91 Aligned_cols=56 Identities=16% Similarity=0.175 Sum_probs=32.3
Q ss_pred cccCCCCCCCceeEeccCChHHHHHhCCCCCccCCCCCCCCccc----ccHHHHHHHhhhccC
Q psy12278 113 WFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWG----GALDQVMAHLNQSHK 171 (300)
Q Consensus 113 ~v~C~~~~~GC~~~~~~~~~~~He~~C~f~~~~Cp~~~~~C~~~----g~~~~l~~Hl~~~H~ 171 (300)
..-|||. =.-.++...+..|.-.|....-.|...-..|+|- .+.++|..|+..+-.
T Consensus 14 ~~iCPYd---k~HrI~l~rfpyHLikCrkn~p~~a~kLatCkyNarH~vp~~ele~He~~Cd~ 73 (161)
T KOG4376|consen 14 SIICPYD---KDHRISLERFPYHLIKCRKNKPPHALKLATCKYNARHFVPEEELEFHEIFCDR 73 (161)
T ss_pred ceeCCCC---CcceecHhhhhHHHHHHhhcCCCcCccccccCCccccccCHHHHHHHHHHhhh
Confidence 3457764 3456667777777777765543333333344443 356677777776654
No 158
>PLN02195 cellulose synthase A
Probab=23.85 E-value=53 Score=35.56 Aligned_cols=42 Identities=24% Similarity=0.592 Sum_probs=31.8
Q ss_pred eeecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 57 FECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
-.|.||.+-+- .|-+-|. ||--+|..|.+- ...||.|+++..
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 36999998553 4555674 899999999763 258999999875
No 159
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=23.73 E-value=42 Score=21.57 Aligned_cols=26 Identities=27% Similarity=0.640 Sum_probs=13.1
Q ss_pred eecccccCCCCceeec--cCCcccCccc
Q psy12278 58 ECPVCFDYVLPPIIQC--QSGHLVCSNC 83 (300)
Q Consensus 58 ~CpiC~~~~~~Pi~qC--~~GH~~C~~C 83 (300)
-||+|..-=+--|+.= ..|+.+|..|
T Consensus 5 pCP~CGG~DrFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 5 PCPICGGKDRFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp --TTTT-TTTEEEETT----S-EEETTT
T ss_pred CCCCCcCccccccCcCcccCCCEECCCC
Confidence 4899977444333321 2499999988
No 160
>PLN02436 cellulose synthase A
Probab=23.68 E-value=51 Score=36.03 Aligned_cols=42 Identities=26% Similarity=0.718 Sum_probs=32.2
Q ss_pred eeecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 57 FECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 57 l~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
-.|.||.+-+- .|-+-|. ||--+|..|.+- ...||.|++++.
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 37999999863 3545785 899999999763 258999998764
No 161
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.48 E-value=49 Score=34.80 Aligned_cols=40 Identities=30% Similarity=0.707 Sum_probs=26.2
Q ss_pred CceeecccccCCCCceeec--------cCCcccCccccCCC---CCCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQC--------QSGHLVCSNCRPKL---SCCPTCRGP 96 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC--------~~GH~~C~~C~~~~---~~Cp~Cr~~ 96 (300)
..+.|..|..++.-| .| ..|...|..|-... ..||.|...
T Consensus 434 ~~l~C~~Cg~v~~Cp--~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 434 PLLLCRDCGYIAECP--NCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ceeecccCCCcccCC--CCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 355666666666544 22 22677899996542 589999887
No 162
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.17 E-value=67 Score=30.17 Aligned_cols=41 Identities=27% Similarity=0.635 Sum_probs=26.3
Q ss_pred CceeecccccCCCCceee--ccCC--cccCccccCCC----CCCCCCCC
Q psy12278 55 SLFECPVCFDYVLPPIIQ--CQSG--HLVCSNCRPKL----SCCPTCRG 95 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~q--C~~G--H~~C~~C~~~~----~~Cp~Cr~ 95 (300)
..-.||||.....--+.. =..| +..|+-|-..- ..||.|..
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 456899999986444321 1345 46688886542 57888864
No 163
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=22.82 E-value=68 Score=23.49 Aligned_cols=27 Identities=22% Similarity=0.565 Sum_probs=18.8
Q ss_pred CCccCCCCCCCCcccc-cHHHHHHHhhhc-cCc
Q psy12278 142 RPYLCPCPGASCKWGG-ALDQVMAHLNQS-HKS 172 (300)
Q Consensus 142 ~~~~Cp~~~~~C~~~g-~~~~l~~Hl~~~-H~~ 172 (300)
....|+. |+... ....|..|++.. |..
T Consensus 49 ~~~~C~~----C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 49 ESFRCPY----CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp SSEEBSS----SS-EESSHHHHHHHHHHTTTTC
T ss_pred CCCCCCc----cCCCCcCHHHHHHHHcCccCCC
Confidence 3567875 65555 688999999975 554
No 164
>PRK05580 primosome assembly protein PriA; Validated
Probab=22.55 E-value=52 Score=34.29 Aligned_cols=23 Identities=22% Similarity=0.486 Sum_probs=16.5
Q ss_pred EEEecCcC-----CCCCcEEEEEEeeCC
Q psy12278 227 VQLIGSRK-----QSENFTYRLELNGHR 249 (300)
Q Consensus 227 V~~iG~~~-----~a~~F~Y~l~v~~~~ 249 (300)
+..+||.+ -.++|.|.|-+.++.
T Consensus 617 ~~vlGp~~~~i~k~~~~yr~~ilik~~~ 644 (679)
T PRK05580 617 VEVLGPAPAPIAKIAGRYRYQLLLKSPS 644 (679)
T ss_pred eEEeCCcccccHhhcCeeEEEEEEEeCC
Confidence 35678764 347899999988764
No 165
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.77 E-value=55 Score=35.82 Aligned_cols=41 Identities=29% Similarity=0.743 Sum_probs=31.5
Q ss_pred eecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 58 ECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
.|.||.+-+- .|-+-|. ||--+|..|.+- ...||.|++++.
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 7999999753 3545674 899999999763 258999998764
No 166
>KOG1734|consensus
Probab=21.66 E-value=21 Score=32.70 Aligned_cols=43 Identities=21% Similarity=0.417 Sum_probs=28.7
Q ss_pred ceeecccccCCCCc---------eeeccCCcccCccccC------CCCCCCCCCCCCC
Q psy12278 56 LFECPVCFDYVLPP---------IIQCQSGHLVCSNCRP------KLSCCPTCRGPLG 98 (300)
Q Consensus 56 ~l~CpiC~~~~~~P---------i~qC~~GH~~C~~C~~------~~~~Cp~Cr~~~~ 98 (300)
+-.|.||..-+-.- +++=.|+|+|=..|+. |...||.|++.+.
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 34688887765432 3444568887666654 4578999998765
No 167
>PF14353 CpXC: CpXC protein
Probab=21.63 E-value=70 Score=25.46 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=6.9
Q ss_pred CCCCCCCCCC
Q psy12278 89 CCPTCRGPLG 98 (300)
Q Consensus 89 ~Cp~Cr~~~~ 98 (300)
.||.|+..+.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5788877654
No 168
>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=21.53 E-value=51 Score=22.86 Aligned_cols=41 Identities=27% Similarity=0.738 Sum_probs=28.7
Q ss_pred eecccccCCCC---ceeeccCCcccCccccCCC--CCCCCCCCCCC
Q psy12278 58 ECPVCFDYVLP---PIIQCQSGHLVCSNCRPKL--SCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~~---Pi~qC~~GH~~C~~C~~~~--~~Cp~Cr~~~~ 98 (300)
.|--|..-+-+ ..+.|.--..||..|.... ..||.|.+.+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCcCCCCccc
Confidence 45556555532 2367776778999998865 68999988764
No 169
>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=21.43 E-value=24 Score=21.12 Aligned_cols=9 Identities=33% Similarity=0.995 Sum_probs=3.8
Q ss_pred cccCccccC
Q psy12278 77 HLVCSNCRP 85 (300)
Q Consensus 77 H~~C~~C~~ 85 (300)
|.||+.|-.
T Consensus 3 ~rfC~~CG~ 11 (32)
T PF09297_consen 3 HRFCGRCGA 11 (32)
T ss_dssp TSB-TTT--
T ss_pred CcccCcCCc
Confidence 566666644
No 170
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=21.36 E-value=3.5e+02 Score=24.70 Aligned_cols=29 Identities=28% Similarity=0.539 Sum_probs=16.4
Q ss_pred CceeecccccCCCCceeeccCCccc-CccccC
Q psy12278 55 SLFECPVCFDYVLPPIIQCQSGHLV-CSNCRP 85 (300)
Q Consensus 55 ~~l~CpiC~~~~~~Pi~qC~~GH~~-C~~C~~ 85 (300)
....|-||...+...-. ...|++ |..|-+
T Consensus 64 p~v~CrVCq~~I~i~gk--~~QhVVkC~~CnE 93 (256)
T PF09788_consen 64 PVVTCRVCQSLIDIEGK--MHQHVVKCSVCNE 93 (256)
T ss_pred ceEEeecCCceecccCc--cceeeEECCCCCc
Confidence 45678888877655421 124533 666655
No 171
>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=21.25 E-value=63 Score=17.12 Aligned_cols=16 Identities=13% Similarity=0.266 Sum_probs=10.6
Q ss_pred Cccccc-HHHHHHHhhh
Q psy12278 153 CKWGGA-LDQVMAHLNQ 168 (300)
Q Consensus 153 C~~~g~-~~~l~~Hl~~ 168 (300)
|+.... ...|..|++.
T Consensus 6 C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 6 CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp TTEEESSHHHHHHHHHH
T ss_pred CCCccCCHHHHHHHHhH
Confidence 666654 5567888765
No 172
>PLN02400 cellulose synthase
Probab=21.07 E-value=65 Score=35.28 Aligned_cols=41 Identities=29% Similarity=0.750 Sum_probs=31.5
Q ss_pred eecccccCCC-----Cceeecc-CCcccCccccCC-----CCCCCCCCCCCC
Q psy12278 58 ECPVCFDYVL-----PPIIQCQ-SGHLVCSNCRPK-----LSCCPTCRGPLG 98 (300)
Q Consensus 58 ~CpiC~~~~~-----~Pi~qC~-~GH~~C~~C~~~-----~~~Cp~Cr~~~~ 98 (300)
.|.||.+-+- .|-+-|. ||--+|..|.+- ...||.|++++.
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 7999999853 2545674 899999999763 258999998864
No 173
>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=20.94 E-value=51 Score=22.29 Aligned_cols=30 Identities=27% Similarity=0.595 Sum_probs=17.1
Q ss_pred eeecc--cccCCCCc------eeecc-CCcccCccccCC
Q psy12278 57 FECPV--CFDYVLPP------IIQCQ-SGHLVCSNCRPK 86 (300)
Q Consensus 57 l~Cpi--C~~~~~~P------i~qC~-~GH~~C~~C~~~ 86 (300)
..||- |..++... .++|+ ||+.||..|...
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~ 57 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEP 57 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSE
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcc
Confidence 37877 88876532 25787 899999888654
No 174
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=20.50 E-value=30 Score=25.21 Aligned_cols=46 Identities=13% Similarity=0.371 Sum_probs=29.0
Q ss_pred CCCCCCCCCCcccchHHHhhhccccccCCCCCCCceeEeccCChHHHH
Q psy12278 89 CCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLLHTEKPEHE 136 (300)
Q Consensus 89 ~Cp~Cr~~~~~~rn~~lEk~~~~l~v~C~~~~~GC~~~~~~~~~~~He 136 (300)
.||.|+...-....+.+...+..+-.-|.|- .|+.+|...+--.|.
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~--eCg~tF~t~es~s~t 48 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNV--NCSATFITYESVQRY 48 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCC--CCCCEEEEEEEEEEE
Confidence 5899987753334455555566677778875 477766655544443
No 175
>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=20.30 E-value=63 Score=25.59 Aligned_cols=32 Identities=22% Similarity=0.304 Sum_probs=21.1
Q ss_pred CceeecccccCCC---Cceeecc-CCcccCccccCC
Q psy12278 55 SLFECPVCFDYVL---PPIIQCQ-SGHLVCSNCRPK 86 (300)
Q Consensus 55 ~~l~CpiC~~~~~---~Pi~qC~-~GH~~C~~C~~~ 86 (300)
+.-.|..|..+|. .+-..|. |+|.+|+.|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 3458999988653 2224774 899999999764
No 176
>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=20.16 E-value=1.2e+02 Score=17.88 Aligned_cols=11 Identities=18% Similarity=0.386 Sum_probs=7.8
Q ss_pred eecccccCCCC
Q psy12278 58 ECPVCFDYVLP 68 (300)
Q Consensus 58 ~CpiC~~~~~~ 68 (300)
.|..|...+.+
T Consensus 1 ~C~~C~~~i~~ 11 (39)
T smart00132 1 KCAGCGKPIRG 11 (39)
T ss_pred CccccCCcccC
Confidence 37778887766
No 177
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=20.15 E-value=49 Score=25.53 Aligned_cols=21 Identities=38% Similarity=1.176 Sum_probs=13.5
Q ss_pred ccCccccCCC--------CCCCCCCCCCC
Q psy12278 78 LVCSNCRPKL--------SCCPTCRGPLG 98 (300)
Q Consensus 78 ~~C~~C~~~~--------~~Cp~Cr~~~~ 98 (300)
++|+-|+..+ ..||.|+.|++
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 4566665532 46888888875
Done!