Query psy4830
Match_columns 292
No_of_seqs 523 out of 1285
Neff 11.1
Searched_HMMs 46136
Date Fri Aug 16 18:51:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4830.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4830hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 8.8E-35 1.9E-39 217.9 6.0 105 183-290 159-263 (279)
2 KOG2462|consensus 100.0 2.4E-33 5.2E-38 210.2 4.6 137 92-263 129-265 (279)
3 KOG1074|consensus 100.0 1.2E-32 2.6E-37 233.3 5.2 84 66-150 606-692 (958)
4 KOG3608|consensus 100.0 4.8E-31 1E-35 203.2 9.4 247 9-292 69-374 (467)
5 KOG3608|consensus 100.0 1.8E-29 3.9E-34 194.5 9.2 222 9-268 134-379 (467)
6 KOG1074|consensus 99.9 1.8E-28 3.9E-33 208.2 5.2 193 93-292 605-929 (958)
7 KOG3623|consensus 99.9 4.8E-28 1E-32 202.6 6.9 106 9-114 210-330 (1007)
8 KOG3576|consensus 99.8 1.7E-21 3.8E-26 139.3 1.8 111 181-291 113-233 (267)
9 KOG3576|consensus 99.8 3.7E-19 8E-24 127.5 2.6 115 35-149 115-235 (267)
10 KOG3623|consensus 99.7 2.4E-18 5.2E-23 145.1 1.4 80 183-262 892-971 (1007)
11 PHA00733 hypothetical protein 99.5 2.6E-14 5.6E-19 99.3 4.0 81 183-265 38-123 (128)
12 PLN03086 PRLI-interacting fact 99.5 2.5E-13 5.5E-18 115.4 8.5 99 184-290 452-560 (567)
13 PHA00733 hypothetical protein 99.4 1E-13 2.3E-18 96.3 3.8 92 198-292 25-121 (128)
14 PLN03086 PRLI-interacting fact 99.4 8.1E-13 1.8E-17 112.4 8.7 146 66-266 408-565 (567)
15 PHA02768 hypothetical protein; 99.2 3.2E-12 7E-17 72.7 1.1 42 186-229 6-47 (55)
16 KOG3993|consensus 99.2 4.7E-12 1E-16 101.2 1.8 215 37-268 267-485 (500)
17 PHA02768 hypothetical protein; 99.2 7.8E-12 1.7E-16 71.2 2.0 44 213-258 5-48 (55)
18 KOG3993|consensus 99.0 5.6E-11 1.2E-15 95.2 0.6 194 64-292 266-480 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 99.0 1.8E-10 3.8E-15 56.2 1.7 24 201-224 2-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 99.0 2.1E-10 4.5E-15 56.0 1.2 24 229-252 2-25 (26)
21 PHA00732 hypothetical protein 98.8 3.9E-09 8.4E-14 66.4 2.7 46 213-264 1-47 (79)
22 PHA00616 hypothetical protein 98.8 3.6E-09 7.8E-14 57.3 1.5 34 185-218 1-34 (44)
23 PHA00732 hypothetical protein 98.7 5.8E-09 1.3E-13 65.6 2.4 48 185-238 1-49 (79)
24 PHA00616 hypothetical protein 98.7 1.5E-08 3.4E-13 54.9 2.1 35 9-43 1-35 (44)
25 PF05605 zf-Di19: Drought indu 98.5 8.7E-08 1.9E-12 56.1 3.3 47 242-291 3-50 (54)
26 PF00096 zf-C2H2: Zinc finger, 98.3 3.1E-07 6.8E-12 43.5 1.9 22 242-263 1-22 (23)
27 PF05605 zf-Di19: Drought indu 98.3 6.9E-07 1.5E-11 52.3 2.8 20 186-206 3-22 (54)
28 PF00096 zf-C2H2: Zinc finger, 98.3 5.4E-07 1.2E-11 42.6 1.6 23 186-208 1-23 (23)
29 PF13894 zf-C2H2_4: C2H2-type 98.2 1.2E-06 2.6E-11 41.9 2.2 24 242-265 1-24 (24)
30 PF12756 zf-C2H2_2: C2H2 type 98.1 1.3E-06 2.9E-11 58.8 2.4 73 187-264 1-73 (100)
31 PF13912 zf-C2H2_6: C2H2-type 98.1 2E-06 4.4E-11 42.4 1.7 25 241-265 1-25 (27)
32 PF12756 zf-C2H2_2: C2H2 type 98.0 2E-06 4.4E-11 57.8 1.6 71 215-291 1-71 (100)
33 COG5189 SFP1 Putative transcri 98.0 1.9E-06 4.1E-11 67.2 0.9 22 212-233 348-371 (423)
34 COG5189 SFP1 Putative transcri 98.0 3E-06 6.4E-11 66.1 1.3 53 238-290 346-418 (423)
35 PF13894 zf-C2H2_4: C2H2-type 97.9 5.9E-06 1.3E-10 39.4 1.7 23 186-208 1-23 (24)
36 PF13912 zf-C2H2_6: C2H2-type 97.9 6.6E-06 1.4E-10 40.5 1.6 24 185-208 1-24 (27)
37 smart00355 ZnF_C2H2 zinc finge 97.4 0.0001 2.3E-09 35.6 1.8 23 242-264 1-23 (26)
38 smart00355 ZnF_C2H2 zinc finge 97.4 0.00014 3E-09 35.2 2.1 24 186-209 1-24 (26)
39 PF09237 GAGA: GAGA factor; I 97.4 0.00021 4.5E-09 39.8 2.9 30 238-267 21-50 (54)
40 PF13909 zf-H2C2_5: C2H2-type 97.4 0.00015 3.3E-09 34.4 2.0 23 242-265 1-23 (24)
41 PF09237 GAGA: GAGA factor; I 97.3 0.00022 4.7E-09 39.7 2.4 32 182-213 21-52 (54)
42 PF12874 zf-met: Zinc-finger o 97.3 0.00016 3.4E-09 34.8 1.7 22 242-263 1-22 (25)
43 PRK04860 hypothetical protein; 97.2 0.00018 3.8E-09 52.2 1.7 38 185-226 119-156 (160)
44 PF12171 zf-C2H2_jaz: Zinc-fin 97.2 0.00024 5.2E-09 34.8 1.6 21 271-291 2-22 (27)
45 PF12874 zf-met: Zinc-finger o 97.2 0.00025 5.4E-09 34.0 1.5 22 186-207 1-22 (25)
46 PRK04860 hypothetical protein; 97.1 0.00015 3.2E-09 52.6 0.7 37 213-253 119-155 (160)
47 PF12171 zf-C2H2_jaz: Zinc-fin 97.0 0.00029 6.2E-09 34.5 1.0 22 242-263 2-23 (27)
48 KOG2231|consensus 96.9 0.0013 2.9E-08 57.9 4.9 69 186-262 183-260 (669)
49 KOG2785|consensus 96.8 0.0036 7.8E-08 50.9 6.2 111 181-291 64-241 (390)
50 PF13909 zf-H2C2_5: C2H2-type 96.8 0.00085 1.8E-08 31.7 1.6 23 186-209 1-23 (24)
51 COG5236 Uncharacterized conser 96.7 0.0016 3.5E-08 51.9 3.4 99 186-291 152-272 (493)
52 KOG1146|consensus 96.5 0.0012 2.6E-08 61.8 1.4 104 188-291 439-610 (1406)
53 PF13913 zf-C2HC_2: zinc-finge 96.3 0.0029 6.3E-08 30.2 1.7 20 186-206 3-22 (25)
54 KOG2231|consensus 96.3 0.0045 9.8E-08 54.7 3.9 89 196-292 125-234 (669)
55 PF13913 zf-C2HC_2: zinc-finge 95.9 0.0063 1.4E-07 29.0 1.7 19 243-262 4-22 (25)
56 KOG1146|consensus 95.9 0.0034 7.5E-08 59.0 1.4 76 216-291 439-539 (1406)
57 smart00451 ZnF_U1 U1-like zinc 95.8 0.0074 1.6E-07 31.5 1.9 21 270-290 3-23 (35)
58 smart00451 ZnF_U1 U1-like zinc 95.5 0.011 2.4E-07 30.8 1.8 23 241-263 3-25 (35)
59 COG5048 FOG: Zn-finger [Genera 95.4 0.0055 1.2E-07 53.0 0.7 53 65-117 289-347 (467)
60 KOG2785|consensus 95.3 0.067 1.4E-06 43.8 6.5 76 37-115 3-90 (390)
61 cd00350 rubredoxin_like Rubred 95.2 0.015 3.3E-07 29.8 1.8 10 269-278 16-25 (33)
62 COG5048 FOG: Zn-finger [Genera 94.8 0.013 2.8E-07 50.7 1.2 107 184-291 288-439 (467)
63 COG5236 Uncharacterized conser 94.7 0.036 7.9E-07 44.5 3.4 99 10-114 152-272 (493)
64 KOG2893|consensus 94.6 0.013 2.8E-07 44.4 0.7 46 187-236 12-58 (341)
65 KOG4173|consensus 94.3 0.016 3.5E-07 42.8 0.6 85 184-271 78-176 (253)
66 TIGR00622 ssl1 transcription f 94.2 0.092 2E-06 35.3 4.0 79 36-116 14-104 (112)
67 KOG2482|consensus 93.6 0.058 1.3E-06 43.4 2.6 105 185-290 195-354 (423)
68 TIGR00622 ssl1 transcription f 93.1 0.3 6.4E-06 33.0 4.9 84 183-277 13-110 (112)
69 COG4049 Uncharacterized protei 92.8 0.054 1.2E-06 30.8 0.9 32 235-266 11-42 (65)
70 cd00729 rubredoxin_SM Rubredox 92.6 0.11 2.5E-06 26.8 2.0 26 241-279 2-27 (34)
71 KOG2893|consensus 92.6 0.034 7.4E-07 42.2 0.0 46 216-265 13-58 (341)
72 PF09986 DUF2225: Uncharacteri 92.3 0.058 1.3E-06 41.6 0.9 13 242-254 49-61 (214)
73 KOG4173|consensus 92.1 0.041 8.9E-07 40.8 -0.1 76 212-290 78-166 (253)
74 PF09538 FYDLN_acid: Protein o 91.8 0.12 2.7E-06 34.8 2.0 13 241-253 26-38 (108)
75 COG4049 Uncharacterized protei 91.7 0.098 2.1E-06 29.8 1.1 26 6-31 14-39 (65)
76 COG2888 Predicted Zn-ribbon RN 91.2 0.2 4.2E-06 29.2 2.1 11 268-278 48-58 (61)
77 TIGR02098 MJ0042_CXXC MJ0042 f 90.3 0.18 3.9E-06 26.8 1.3 11 243-253 4-14 (38)
78 PF13717 zinc_ribbon_4: zinc-r 90.0 0.25 5.4E-06 25.9 1.6 11 270-280 25-35 (36)
79 COG1592 Rubrerythrin [Energy p 89.1 0.28 6.1E-06 35.8 1.9 10 268-277 147-156 (166)
80 PF09986 DUF2225: Uncharacteri 88.6 0.086 1.9E-06 40.7 -1.0 44 183-226 3-61 (214)
81 PRK00398 rpoP DNA-directed RNA 88.5 0.31 6.8E-06 27.2 1.5 10 242-251 4-13 (46)
82 PF02892 zf-BED: BED zinc fing 88.2 0.48 1E-05 26.1 2.1 27 238-264 13-43 (45)
83 PF10571 UPF0547: Uncharacteri 87.5 0.33 7.2E-06 23.3 1.0 8 244-251 17-24 (26)
84 PF09538 FYDLN_acid: Protein o 87.5 0.35 7.5E-06 32.6 1.5 30 186-226 10-39 (108)
85 PRK06266 transcription initiat 87.4 0.31 6.8E-06 36.3 1.3 17 213-229 117-133 (178)
86 TIGR00373 conserved hypothetic 86.8 0.6 1.3E-05 34.1 2.5 17 213-229 109-125 (158)
87 TIGR02300 FYDLN_acid conserved 86.5 0.55 1.2E-05 32.3 2.0 30 214-254 10-39 (129)
88 KOG2186|consensus 86.4 0.4 8.6E-06 37.1 1.4 45 186-233 4-48 (276)
89 PRK00464 nrdR transcriptional 86.2 0.31 6.7E-06 35.3 0.7 12 242-253 29-40 (154)
90 PF05290 Baculo_IE-1: Baculovi 86.1 0.34 7.3E-06 33.5 0.8 13 272-284 123-135 (140)
91 KOG2482|consensus 86.0 0.91 2E-05 36.8 3.2 139 9-149 144-357 (423)
92 smart00659 RPOLCX RNA polymera 85.9 0.62 1.3E-05 25.7 1.6 11 214-224 3-13 (44)
93 smart00734 ZnF_Rad18 Rad18-lik 85.4 0.75 1.6E-05 22.0 1.6 19 243-262 3-21 (26)
94 PHA00626 hypothetical protein 85.1 0.44 9.6E-06 27.3 0.9 14 240-253 22-35 (59)
95 COG1592 Rubrerythrin [Energy p 85.1 0.46 1E-05 34.7 1.2 11 238-248 146-156 (166)
96 PRK14890 putative Zn-ribbon RN 85.1 0.78 1.7E-05 26.8 1.9 10 269-278 47-56 (59)
97 PF13719 zinc_ribbon_5: zinc-r 85.0 0.79 1.7E-05 24.1 1.8 10 94-103 26-35 (37)
98 smart00531 TFIIE Transcription 84.8 0.93 2E-05 32.7 2.7 15 213-227 99-113 (147)
99 smart00531 TFIIE Transcription 84.6 0.92 2E-05 32.7 2.6 14 184-197 98-111 (147)
100 PF12013 DUF3505: Protein of u 84.4 1.1 2.4E-05 30.4 2.8 25 242-266 81-109 (109)
101 smart00834 CxxC_CXXC_SSSS Puta 84.1 0.36 7.7E-06 26.0 0.2 10 242-251 6-15 (41)
102 TIGR02605 CxxC_CxxC_SSSS putat 84.0 0.36 7.9E-06 27.7 0.2 9 187-195 7-15 (52)
103 PRK06266 transcription initiat 82.7 0.76 1.6E-05 34.3 1.5 36 181-225 113-148 (178)
104 TIGR00373 conserved hypothetic 82.6 1 2.3E-05 32.9 2.2 30 64-102 108-137 (158)
105 KOG2186|consensus 80.6 1.5 3.2E-05 34.1 2.4 45 66-113 4-48 (276)
106 smart00614 ZnF_BED BED zinc fi 80.4 1.5 3.2E-05 24.9 1.9 23 241-263 18-45 (50)
107 PRK09678 DNA-binding transcrip 79.9 0.69 1.5E-05 28.6 0.4 14 240-253 26-41 (72)
108 PF03604 DNA_RNApol_7kD: DNA d 79.8 1.6 3.5E-05 22.1 1.7 11 242-252 1-11 (32)
109 TIGR02300 FYDLN_acid conserved 79.7 1.5 3.2E-05 30.2 1.9 35 185-230 9-43 (129)
110 PF09723 Zn-ribbon_8: Zinc rib 79.7 0.89 1.9E-05 24.7 0.7 12 126-137 5-16 (42)
111 COG1996 RPC10 DNA-directed RNA 79.3 0.99 2.1E-05 25.4 0.8 10 186-195 7-16 (49)
112 PF05443 ROS_MUCR: ROS/MUCR tr 77.9 1.4 3E-05 30.9 1.5 24 240-266 71-94 (132)
113 PF06524 NOA36: NOA36 protein; 77.7 0.6 1.3E-05 36.3 -0.4 13 33-45 138-150 (314)
114 KOG2807|consensus 76.7 3.9 8.5E-05 33.2 3.8 18 65-82 290-307 (378)
115 PF08274 PhnA_Zn_Ribbon: PhnA 76.1 1.1 2.4E-05 22.3 0.4 9 269-277 18-26 (30)
116 COG1997 RPL43A Ribosomal prote 76.1 1.6 3.4E-05 27.8 1.2 32 212-253 34-65 (89)
117 COG1198 PriA Primosomal protei 76.0 2.7 5.9E-05 38.8 3.1 13 267-279 472-484 (730)
118 PRK04023 DNA polymerase II lar 75.4 3.4 7.3E-05 39.1 3.5 50 184-281 625-674 (1121)
119 PF06524 NOA36: NOA36 protein; 74.9 2.4 5.1E-05 33.1 2.1 25 240-264 208-232 (314)
120 PF12013 DUF3505: Protein of u 74.7 2.5 5.4E-05 28.7 2.0 26 213-238 80-109 (109)
121 KOG2071|consensus 74.0 2.9 6.3E-05 36.9 2.6 28 91-118 416-443 (579)
122 PF02176 zf-TRAF: TRAF-type zi 73.8 2.9 6.3E-05 24.6 1.9 21 78-98 23-43 (60)
123 COG5151 SSL1 RNA polymerase II 73.7 3.3 7.1E-05 33.3 2.7 23 93-115 388-410 (421)
124 PF07754 DUF1610: Domain of un 73.5 1.7 3.8E-05 20.3 0.7 8 241-248 16-23 (24)
125 PF14353 CpXC: CpXC protein 73.0 0.79 1.7E-05 32.2 -0.8 19 214-232 39-57 (128)
126 COG4530 Uncharacterized protei 72.1 2.6 5.6E-05 28.0 1.5 12 240-251 25-36 (129)
127 COG4888 Uncharacterized Zn rib 71.1 0.93 2E-05 29.6 -0.7 11 271-281 47-57 (104)
128 COG5188 PRP9 Splicing factor 3 70.7 6.1 0.00013 32.4 3.6 22 93-114 238-259 (470)
129 PF12907 zf-met2: Zinc-binding 69.8 2.8 6E-05 22.5 1.0 27 242-268 2-31 (40)
130 PF05191 ADK_lid: Adenylate ki 68.8 2.4 5.2E-05 22.2 0.7 9 187-195 3-11 (36)
131 COG5151 SSL1 RNA polymerase II 67.2 6.1 0.00013 31.8 2.8 47 216-264 365-411 (421)
132 PF05495 zf-CHY: CHY zinc fing 66.9 1.2 2.6E-05 27.5 -0.8 14 213-226 41-54 (71)
133 TIGR01206 lysW lysine biosynth 66.6 2.6 5.6E-05 24.4 0.6 10 214-223 3-12 (54)
134 PF09845 DUF2072: Zn-ribbon co 66.3 3.7 7.9E-05 28.6 1.3 12 186-197 2-13 (131)
135 PF15269 zf-C2H2_7: Zinc-finge 65.9 4 8.7E-05 22.2 1.2 20 242-261 21-40 (54)
136 PF12760 Zn_Tnp_IS1595: Transp 65.9 9.5 0.00021 21.1 2.8 9 240-248 36-44 (46)
137 COG1198 PriA Primosomal protei 64.8 4.5 9.9E-05 37.4 2.0 13 123-135 472-484 (730)
138 KOG4167|consensus 64.6 2.3 5E-05 38.4 0.1 24 9-32 792-815 (907)
139 KOG4167|consensus 63.6 1.7 3.7E-05 39.2 -0.8 25 241-265 792-816 (907)
140 PF14446 Prok-RING_1: Prokaryo 63.3 4.9 0.00011 23.2 1.3 9 243-251 7-15 (54)
141 KOG4124|consensus 62.6 1.6 3.5E-05 35.6 -1.0 19 269-287 397-415 (442)
142 KOG2593|consensus 62.3 8.4 0.00018 32.8 2.9 36 35-73 126-161 (436)
143 PF10013 DUF2256: Uncharacteri 61.3 6.5 0.00014 21.2 1.4 11 244-254 11-21 (42)
144 PF08271 TF_Zn_Ribbon: TFIIB z 61.0 3.9 8.4E-05 22.3 0.6 9 271-279 20-28 (43)
145 COG3357 Predicted transcriptio 60.9 5.7 0.00012 25.5 1.4 27 212-248 57-83 (97)
146 PF01363 FYVE: FYVE zinc finge 60.3 5.7 0.00012 24.2 1.3 10 187-196 11-20 (69)
147 PF01286 XPA_N: XPA protein N- 59.4 8.7 0.00019 19.8 1.6 11 243-253 5-15 (34)
148 PF04959 ARS2: Arsenite-resist 58.9 7.2 0.00016 30.1 1.9 28 212-239 76-103 (214)
149 PF08790 zf-LYAR: LYAR-type C2 58.5 2.9 6.2E-05 20.4 -0.2 17 187-204 2-18 (28)
150 smart00440 ZnF_C2C2 C2C2 Zinc 58.0 5.2 0.00011 21.5 0.7 10 242-251 29-38 (40)
151 PRK04023 DNA polymerase II lar 57.3 8.6 0.00019 36.6 2.4 14 240-253 1036-1049(1121)
152 KOG2593|consensus 57.1 12 0.00027 31.8 3.1 38 62-102 125-162 (436)
153 PF01096 TFIIS_C: Transcriptio 56.8 2.9 6.2E-05 22.3 -0.4 10 242-251 29-38 (39)
154 COG4957 Predicted transcriptio 56.5 6.8 0.00015 27.3 1.3 22 242-266 77-98 (148)
155 PRK14714 DNA polymerase II lar 55.5 14 0.0003 36.3 3.5 54 185-281 667-720 (1337)
156 PF07975 C1_4: TFIIH C1-like d 54.9 6.6 0.00014 22.4 0.9 19 214-232 22-40 (51)
157 PF13824 zf-Mss51: Zinc-finger 54.9 11 0.00025 21.8 1.8 14 239-252 12-25 (55)
158 PF13453 zf-TFIIB: Transcripti 54.8 10 0.00022 20.4 1.6 19 240-258 18-36 (41)
159 KOG2636|consensus 54.7 8 0.00017 32.9 1.7 26 265-290 396-422 (497)
160 PTZ00255 60S ribosomal protein 54.4 5 0.00011 26.0 0.3 32 212-253 35-66 (90)
161 PF09416 UPF1_Zn_bind: RNA hel 54.4 18 0.00038 26.2 3.1 41 238-278 11-68 (152)
162 KOG2807|consensus 54.0 25 0.00054 28.8 4.2 24 241-264 345-368 (378)
163 PRK00432 30S ribosomal protein 53.4 8 0.00017 22.0 1.0 8 214-221 38-45 (50)
164 TIGR00280 L37a ribosomal prote 51.8 4.9 0.00011 26.0 0.0 32 212-253 34-65 (91)
165 KOG4124|consensus 51.7 4.6 0.0001 33.1 -0.1 23 239-261 396-418 (442)
166 PF15135 UPF0515: Uncharacteri 51.6 18 0.0004 28.3 3.0 16 184-199 154-169 (278)
167 KOG3408|consensus 51.4 9.9 0.00021 26.0 1.4 24 240-263 56-79 (129)
168 cd00065 FYVE FYVE domain; Zinc 51.4 9.8 0.00021 22.0 1.3 9 188-196 5-13 (57)
169 PF01780 Ribosomal_L37ae: Ribo 51.0 3 6.4E-05 27.0 -1.1 32 212-253 34-65 (90)
170 smart00154 ZnF_AN1 AN1-like Zi 50.2 8.5 0.00018 20.5 0.8 14 241-254 12-25 (39)
171 TIGR00100 hypA hydrogenase nic 50.1 8.5 0.00019 26.4 1.0 13 213-225 70-82 (115)
172 PF04810 zf-Sec23_Sec24: Sec23 49.7 10 0.00022 20.3 1.1 10 239-248 22-31 (40)
173 COG3091 SprT Zn-dependent meta 49.3 8.7 0.00019 27.5 0.9 7 241-247 140-146 (156)
174 PRK12380 hydrogenase nickel in 49.1 9.8 0.00021 26.0 1.2 12 213-224 70-81 (113)
175 KOG3408|consensus 48.6 9.1 0.0002 26.2 0.9 26 266-291 53-78 (129)
176 PRK03824 hypA hydrogenase nick 48.5 7.9 0.00017 27.5 0.7 15 184-198 69-83 (135)
177 COG1655 Uncharacterized protei 46.7 7.8 0.00017 29.9 0.4 14 185-198 19-32 (267)
178 KOG0717|consensus 46.6 11 0.00024 32.4 1.3 22 242-263 293-314 (508)
179 PF07282 OrfB_Zn_ribbon: Putat 46.5 15 0.00033 22.3 1.7 12 240-251 45-56 (69)
180 PF13878 zf-C2H2_3: zinc-finge 46.2 28 0.0006 18.8 2.4 10 11-20 15-24 (41)
181 COG2331 Uncharacterized protei 45.8 13 0.00028 23.0 1.2 10 94-103 13-22 (82)
182 PF01428 zf-AN1: AN1-like Zinc 45.5 8.9 0.00019 20.9 0.4 15 240-254 12-26 (43)
183 smart00064 FYVE Protein presen 45.1 16 0.00034 22.1 1.6 28 214-253 11-38 (68)
184 PF03811 Zn_Tnp_IS1: InsA N-te 44.7 14 0.0003 19.3 1.0 18 230-247 18-35 (36)
185 KOG1701|consensus 44.6 15 0.00032 31.2 1.7 39 215-253 396-439 (468)
186 PRK03976 rpl37ae 50S ribosomal 44.5 6.9 0.00015 25.4 -0.1 32 212-253 35-66 (90)
187 TIGR00595 priA primosomal prot 44.0 21 0.00046 31.8 2.7 10 239-248 238-247 (505)
188 KOG0717|consensus 43.8 11 0.00024 32.4 0.9 21 271-291 293-313 (508)
189 PF04959 ARS2: Arsenite-resist 43.5 8 0.00017 29.8 0.1 30 181-210 73-102 (214)
190 PRK00420 hypothetical protein; 43.1 17 0.00038 24.7 1.6 9 242-250 41-49 (112)
191 KOG1280|consensus 42.9 25 0.00053 29.1 2.7 23 213-235 79-101 (381)
192 PF13451 zf-trcl: Probable zin 42.7 12 0.00026 21.2 0.7 39 239-277 2-40 (49)
193 PRK14559 putative protein seri 42.6 28 0.0006 32.1 3.3 9 215-223 17-25 (645)
194 PRK00564 hypA hydrogenase nick 42.1 13 0.00028 25.6 0.9 13 213-225 71-83 (117)
195 KOG2636|consensus 41.5 18 0.00038 31.0 1.7 26 32-57 396-422 (497)
196 PF04780 DUF629: Protein of un 41.2 20 0.00043 31.3 2.0 26 242-267 58-83 (466)
197 PF14311 DUF4379: Domain of un 39.5 20 0.00044 20.6 1.4 17 185-201 28-44 (55)
198 PF07649 C1_3: C1-like domain; 39.4 14 0.0003 18.2 0.6 8 241-248 15-22 (30)
199 PF04423 Rad50_zn_hook: Rad50 39.1 10 0.00022 21.8 0.0 13 272-284 22-34 (54)
200 KOG1842|consensus 38.6 17 0.00037 31.1 1.2 24 242-265 16-39 (505)
201 COG5188 PRP9 Splicing factor 3 38.5 19 0.0004 29.8 1.4 26 265-290 369-395 (470)
202 TIGR00686 phnA alkylphosphonat 38.3 17 0.00037 24.4 1.0 29 215-254 4-32 (109)
203 KOG0782|consensus 38.3 3.7 8.1E-05 36.0 -2.6 27 228-254 240-266 (1004)
204 KOG4727|consensus 38.2 16 0.00034 26.8 0.8 20 242-261 76-95 (193)
205 PF01155 HypA: Hydrogenase exp 38.1 14 0.00031 25.2 0.7 12 214-225 71-82 (113)
206 cd00924 Cyt_c_Oxidase_Vb Cytoc 37.9 17 0.00036 24.1 0.9 17 235-252 74-90 (97)
207 PF06220 zf-U1: U1 zinc finger 37.8 30 0.00064 18.3 1.7 10 271-280 4-13 (38)
208 PF10276 zf-CHCC: Zinc-finger 37.7 16 0.00034 19.7 0.6 12 184-195 28-39 (40)
209 PRK12496 hypothetical protein; 37.7 26 0.00055 25.9 1.9 12 242-253 128-139 (164)
210 smart00661 RPOL9 RNA polymeras 37.2 26 0.00056 19.7 1.5 14 241-254 20-33 (52)
211 COG1773 Rubredoxin [Energy pro 37.1 13 0.00029 21.5 0.3 12 270-281 3-14 (55)
212 PF10263 SprT-like: SprT-like 36.8 15 0.00032 26.7 0.6 6 187-192 125-130 (157)
213 COG1571 Predicted DNA-binding 36.8 21 0.00046 30.6 1.5 13 241-253 367-379 (421)
214 PRK10220 hypothetical protein; 36.1 24 0.00053 23.7 1.4 29 215-254 5-33 (111)
215 PRK03681 hypA hydrogenase nick 35.7 25 0.00054 24.1 1.5 12 213-224 70-81 (114)
216 KOG1280|consensus 35.0 38 0.00082 28.1 2.6 38 183-220 77-116 (381)
217 PF11931 DUF3449: Domain of un 34.4 13 0.00029 28.1 0.0 24 236-259 96-120 (196)
218 COG0068 HypF Hydrogenase matur 34.1 11 0.00024 34.4 -0.5 54 188-248 126-180 (750)
219 PF14803 Nudix_N_2: Nudix N-te 34.0 19 0.00041 18.5 0.5 7 242-248 23-29 (34)
220 PF07295 DUF1451: Protein of u 33.6 16 0.00034 26.4 0.2 8 214-221 113-120 (146)
221 KOG0782|consensus 33.1 14 0.00029 32.8 -0.1 53 197-255 237-290 (1004)
222 PF08209 Sgf11: Sgf11 (transcr 33.1 32 0.0007 17.6 1.3 22 241-263 4-25 (33)
223 COG1327 Predicted transcriptio 32.9 19 0.00041 25.8 0.6 11 215-225 30-40 (156)
224 PF09963 DUF2197: Uncharacteri 32.7 16 0.00035 21.3 0.2 36 215-250 4-40 (56)
225 PF04780 DUF629: Protein of un 32.5 26 0.00057 30.5 1.5 21 271-291 58-78 (466)
226 COG0068 HypF Hydrogenase matur 32.1 8.9 0.00019 35.0 -1.4 29 39-73 153-181 (750)
227 KOG0978|consensus 32.0 22 0.00047 32.7 0.9 12 186-197 644-655 (698)
228 PRK05978 hypothetical protein; 32.0 23 0.0005 25.5 0.9 10 215-224 54-63 (148)
229 PRK14873 primosome assembly pr 31.9 37 0.0008 31.5 2.4 10 270-279 422-431 (665)
230 KOG2071|consensus 31.9 32 0.00069 30.8 1.8 27 183-209 416-442 (579)
231 PRK14892 putative transcriptio 30.6 25 0.00053 23.4 0.8 8 185-192 21-28 (99)
232 COG1571 Predicted DNA-binding 30.5 26 0.00056 30.1 1.1 14 65-78 367-380 (421)
233 smart00132 LIM Zinc-binding do 30.1 25 0.00054 17.9 0.7 8 271-278 28-35 (39)
234 PF13821 DUF4187: Domain of un 29.9 63 0.0014 18.8 2.3 16 272-287 29-44 (55)
235 PF04216 FdhE: Protein involve 29.8 13 0.00029 30.3 -0.7 77 186-281 173-249 (290)
236 KOG4727|consensus 29.2 30 0.00065 25.3 1.1 21 213-233 75-95 (193)
237 KOG3214|consensus 28.9 19 0.00041 23.7 0.0 14 271-284 48-61 (109)
238 PF11789 zf-Nse: Zinc-finger o 28.9 47 0.001 19.4 1.7 10 215-224 26-35 (57)
239 KOG0978|consensus 28.8 16 0.00035 33.5 -0.4 18 272-289 680-697 (698)
240 COG3677 Transposase and inacti 28.7 26 0.00057 24.6 0.7 17 238-254 50-66 (129)
241 PF04606 Ogr_Delta: Ogr/Delta- 28.7 9.3 0.0002 21.3 -1.2 14 240-253 24-39 (47)
242 COG4896 Uncharacterized protei 28.6 40 0.00087 19.9 1.3 8 93-100 31-38 (68)
243 cd00730 rubredoxin Rubredoxin; 28.5 25 0.00054 20.0 0.5 11 271-281 2-12 (50)
244 PF11672 DUF3268: Protein of u 28.4 45 0.00097 22.4 1.7 8 185-192 2-9 (102)
245 COG4338 Uncharacterized protei 28.4 25 0.00054 19.6 0.4 13 272-284 14-26 (54)
246 TIGR00310 ZPR1_znf ZPR1 zinc f 27.8 26 0.00056 26.6 0.6 11 242-252 31-41 (192)
247 COG3364 Zn-ribbon containing p 27.2 36 0.00078 22.5 1.1 13 213-225 2-14 (112)
248 PLN02294 cytochrome c oxidase 26.8 30 0.00065 25.5 0.7 13 269-281 140-152 (174)
249 PF00301 Rubredoxin: Rubredoxi 26.8 23 0.00049 19.9 0.1 11 271-281 2-12 (47)
250 COG4640 Predicted membrane pro 26.8 43 0.00092 28.4 1.7 19 241-259 15-33 (465)
251 PF06397 Desulfoferrod_N: Desu 25.9 33 0.00071 18.0 0.6 12 240-251 5-16 (36)
252 PLN03238 probable histone acet 25.8 40 0.00087 27.3 1.3 24 239-262 46-69 (290)
253 smart00504 Ubox Modified RING 25.7 1.1E+02 0.0024 17.7 3.1 46 214-282 2-47 (63)
254 COG1675 TFA1 Transcription ini 25.6 70 0.0015 23.9 2.5 11 185-195 113-123 (176)
255 PF11023 DUF2614: Protein of u 25.6 46 0.001 22.6 1.4 10 241-250 69-78 (114)
256 COG4306 Uncharacterized protei 25.4 32 0.0007 23.7 0.7 41 214-254 40-81 (160)
257 KOG1842|consensus 25.4 47 0.001 28.6 1.7 26 9-34 15-40 (505)
258 PTZ00448 hypothetical protein; 25.1 48 0.001 27.9 1.7 23 9-31 314-336 (373)
259 TIGR03830 CxxCG_CxxCG_HTH puta 24.9 35 0.00076 23.6 0.8 19 241-259 31-49 (127)
260 KOG4377|consensus 24.7 67 0.0014 27.4 2.4 104 183-292 269-425 (480)
261 PF13639 zf-RING_2: Ring finge 24.7 52 0.0011 17.7 1.3 30 239-276 14-43 (44)
262 COG5112 UFD2 U1-like Zn-finger 24.5 27 0.00058 23.2 0.2 22 240-261 54-75 (126)
263 PRK04351 hypothetical protein; 24.4 30 0.00066 25.0 0.4 13 269-281 131-143 (149)
264 PF05129 Elf1: Transcription e 24.3 24 0.00052 22.5 -0.1 9 184-192 21-29 (81)
265 PTZ00448 hypothetical protein; 24.2 50 0.0011 27.8 1.6 24 241-264 314-337 (373)
266 PRK00762 hypA hydrogenase nick 23.7 35 0.00075 23.8 0.6 14 184-198 69-82 (124)
267 smart00109 C1 Protein kinase C 23.7 59 0.0013 17.6 1.5 8 215-222 13-20 (49)
268 PF14690 zf-ISL3: zinc-finger 23.3 42 0.00091 18.3 0.8 7 214-220 3-9 (47)
269 PHA02998 RNA polymerase subuni 23.1 39 0.00084 25.1 0.7 10 242-251 172-181 (195)
270 PF12773 DZR: Double zinc ribb 22.9 49 0.0011 18.4 1.0 10 215-224 14-23 (50)
271 KOG3362|consensus 22.2 28 0.00062 24.7 -0.1 23 241-263 129-151 (156)
272 KOG3002|consensus 21.9 77 0.0017 26.1 2.3 81 183-267 78-165 (299)
273 cd00162 RING RING-finger (Real 21.7 1.3E+02 0.0029 15.4 3.2 9 271-279 36-44 (45)
274 PRK05580 primosome assembly pr 21.5 83 0.0018 29.4 2.7 10 270-279 421-430 (679)
275 COG4391 Uncharacterized protei 21.4 48 0.001 19.7 0.8 12 270-281 48-59 (62)
276 COG1594 RPB9 DNA-directed RNA 21.2 43 0.00094 22.9 0.7 10 214-223 101-110 (113)
277 PRK12860 transcriptional activ 21.0 58 0.0013 24.6 1.3 31 193-224 115-145 (189)
278 PRK01343 zinc-binding protein; 21.0 57 0.0012 19.1 1.0 11 271-281 10-20 (57)
279 PF09082 DUF1922: Domain of un 21.0 42 0.0009 20.5 0.5 10 240-250 19-28 (68)
280 PF01844 HNH: HNH endonuclease 21.0 23 0.0005 19.3 -0.6 11 273-283 1-11 (47)
281 PLN03239 histone acetyltransfe 20.7 47 0.001 27.8 0.9 23 239-261 104-126 (351)
282 PF05741 zf-nanos: Nanos RNA b 20.7 42 0.00091 19.5 0.4 11 240-250 32-42 (55)
283 PF11781 RRN7: RNA polymerase 20.3 48 0.001 17.3 0.5 6 216-221 11-16 (36)
284 PF00130 C1_1: Phorbol esters/ 20.3 77 0.0017 17.8 1.5 10 213-222 11-20 (53)
285 KOG4118|consensus 20.2 83 0.0018 18.9 1.6 26 38-63 39-64 (74)
No 1
>KOG2462|consensus
Probab=100.00 E-value=8.8e-35 Score=217.92 Aligned_cols=105 Identities=36% Similarity=0.789 Sum_probs=97.5
Q ss_pred CCCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhh
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLR 262 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 262 (292)
.+.+.|++|||.|.+...|..|+++|+ -+++|.+|||.|.+.+.|+.|+++|+|||||.|+.|++.|+++++|+.||+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQ 236 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQ 236 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHH
Confidence 356889999999999999999999997 589999999999999999999999999999999999999999999999999
Q ss_pred hhcCCCCCcccCCCCCCccChHHHHhhh
Q psy4830 263 THHTVGANHVCNVCGRSFVRDSYLIRHQ 290 (292)
Q Consensus 263 ~hh~~~~~~~C~~C~~~f~~~~~l~~H~ 290 (292)
+| .+.++|+|..|+|+|...+.|.+|.
T Consensus 237 TH-S~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 237 TH-SDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred hh-cCCccccCcchhhHHHHHHHHHHhh
Confidence 96 6778999999999999999999995
No 2
>KOG2462|consensus
Probab=99.98 E-value=2.4e-33 Score=210.23 Aligned_cols=137 Identities=34% Similarity=0.687 Sum_probs=104.6
Q ss_pred CceecCccccccCChHHHHHHHHHhhcccCCCCCCccCCCchhhhchhHHHhhhhhhhhcccCCCCCCCcchhhhhcchh
Q psy4830 92 RPYQCEVCNKRFSQKSSLNTHKRIHINYLHTEDKPYHCTGCDAAFSRKQYLEVNHTTVLAVMQPSLGNNTWSAKFLTSLF 171 (292)
Q Consensus 92 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (292)
..|.|+.||+.+.+.++|.+|.++|.... +.+.+.|..|++.|.+...|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~--s~ka~~C~~C~K~YvSmpAL----------------------------- 177 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLD--SKKAFSCKYCGKVYVSMPAL----------------------------- 177 (279)
T ss_pred Cceeccccccccccccccchhhccccccc--ccccccCCCCCceeeehHHH-----------------------------
Confidence 44677777777777777777777765432 34556777777777655544
Q ss_pred hhhhhcccCCCCCCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCcccccc
Q psy4830 172 SHQVHMRTHTGERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTF 251 (292)
Q Consensus 172 ~~~~h~~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 251 (292)
..|+++|+ -+++|.+|||.|....-|+-|+|+|+|||||.|+.|+|.|+.+++|+.||++|.+.|+|+|..|+|+|
T Consensus 178 --kMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 178 --KMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred --hhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHH
Confidence 34555554 46788888888888888888888888888888888888888888888888888888888888888888
Q ss_pred CChhHHHHHhhh
Q psy4830 252 TSKSQFAVHLRT 263 (292)
Q Consensus 252 ~~~~~L~~H~~~ 263 (292)
+.++.|..|...
T Consensus 254 sl~SyLnKH~ES 265 (279)
T KOG2462|consen 254 ALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHhhhh
Confidence 888888888754
No 3
>KOG1074|consensus
Probab=99.97 E-value=1.2e-32 Score=233.35 Aligned_cols=84 Identities=29% Similarity=0.618 Sum_probs=71.4
Q ss_pred eecccccccCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHHHHhhcccCCCCCCccCC---CchhhhchhHHH
Q psy4830 66 YYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHKRIHINYLHTEDKPYHCT---GCDAAFSRKQYL 142 (292)
Q Consensus 66 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~---~C~~~f~~~~~l 142 (292)
-.|-+|-++..-++.|+.|.++|+||+||+|.+||+.|.++.+|+.|+-+|-.. +.-...+.|+ +|.+.|...-.|
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~-p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAK-PPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccC-ccccccccCCchhhhcccccccccc
Confidence 469999999999999999999999999999999999999999999999887532 3334678899 999999988888
Q ss_pred hhhhhhhh
Q psy4830 143 EVNHTTVL 150 (292)
Q Consensus 143 ~~~~~~~~ 150 (292)
..|...+.
T Consensus 685 pQhIriH~ 692 (958)
T KOG1074|consen 685 PQHIRIHL 692 (958)
T ss_pred cceEEeec
Confidence 77766654
No 4
>KOG3608|consensus
Probab=99.97 E-value=4.8e-31 Score=203.18 Aligned_cols=247 Identities=26% Similarity=0.505 Sum_probs=205.5
Q ss_pred CccC--CcchhhcCC-hhHHHHHHhhhcC----------------------------------CCCcccc--cchhhcCC
Q psy4830 9 PYHC--TACDASFCR-KPYLEIHMRTHTG----------------------------------ERPFQCV--VCLKRFSQ 49 (292)
Q Consensus 9 ~~~C--~~C~~~f~~-~~~l~~H~~~h~~----------------------------------~~~~~C~--~C~~~f~~ 49 (292)
.+.| ..|++...+ ..+|.+|.-.|.- ...|.|. .|+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 3555 457777666 4788999765520 0125664 59999999
Q ss_pred hhHHHHHHhhcCCC-------------cceec--ccccccCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHHH
Q psy4830 50 KSALNTHKRMHIPY-------------IQYYC--DACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHKR 114 (292)
Q Consensus 50 ~~~l~~H~~~h~~~-------------~~~~C--~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 114 (292)
...+..|+..|... ..+.| ..|-+.|.++..|++|++.|++++...|+.||..|.++..|..|.+
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~r 228 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLR 228 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHH
Confidence 99999998877421 12445 4688999999999999999999999999999999999999999998
Q ss_pred HhhcccCCCCCCccCCCchhhhchhHHHhhhhhhhhcccCCCCCCCcchhhhhcchhhhhhhcccCCCCCCccccccccc
Q psy4830 115 IHINYLHTEDKPYHCTGCDAAFSRKQYLEVNHTTVLAVMQPSLGNNTWSAKFLTSLFSHQVHMRTHTGERPFQCAVCSKR 194 (292)
Q Consensus 115 ~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~C~~C~k~ 194 (292)
.-.. ....+|.|..|.+.|.++..|..|...+. .-|+|+.|+.+
T Consensus 229 Rqt~---l~~n~fqC~~C~KrFaTeklL~~Hv~rHv---------------------------------n~ykCplCdmt 272 (467)
T KOG3608|consen 229 RQTE---LNTNSFQCAQCFKRFATEKLLKSHVVRHV---------------------------------NCYKCPLCDMT 272 (467)
T ss_pred hhhh---hcCCchHHHHHHHHHhHHHHHHHHHHHhh---------------------------------hcccccccccC
Confidence 7542 24568999999999999998876543322 24899999999
Q ss_pred cCCchHHHHHHhh-hcCCCCccccccccccccchhhhhhhccccCCcceeCCc--cccccCChhHHHHHhhhhcCCC--C
Q psy4830 195 FTQKSSLNTHKRV-HTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTS--CHLTFTSKSQFAVHLRTHHTVG--A 269 (292)
Q Consensus 195 f~~~~~L~~H~~~-h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~hh~~~--~ 269 (292)
....++|.+|++. |...+||+|+.|++.|.+.+.|.+|..+|+ +-.|.|.. |..+|.+..+|++|++.+|.+. .
T Consensus 273 c~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~ 351 (467)
T KOG3608|consen 273 CSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPI 351 (467)
T ss_pred CCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCC
Confidence 9999999999986 778899999999999999999999999998 77899988 9999999999999999998554 4
Q ss_pred CcccCCCCCCccChHHHHhhhcC
Q psy4830 270 NHVCNVCGRSFVRDSYLIRHQNK 292 (292)
Q Consensus 270 ~~~C~~C~~~f~~~~~l~~H~rk 292 (292)
+|.|..|++.|++-.+|.+|.+|
T Consensus 352 ~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 352 LYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred ceeeecchhhhccchhHHHHHHH
Confidence 69999999999999999999764
No 5
>KOG3608|consensus
Probab=99.96 E-value=1.8e-29 Score=194.53 Aligned_cols=222 Identities=29% Similarity=0.575 Sum_probs=192.7
Q ss_pred CccC--CcchhhcCChhHHHHHHhhhcC------------CCC-cccc--cchhhcCChhHHHHHHhhcCCCcceecccc
Q psy4830 9 PYHC--TACDASFCRKPYLEIHMRTHTG------------ERP-FQCV--VCLKRFSQKSALNTHKRMHIPYIQYYCDAC 71 (292)
Q Consensus 9 ~~~C--~~C~~~f~~~~~l~~H~~~h~~------------~~~-~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C 71 (292)
.|.| ..|+..|.+...|.+|...|.. ++| +.|. .|.+.|.++..|++|++.|.+++...|+.|
T Consensus 134 ~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~C 213 (467)
T KOG3608|consen 134 NFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHC 213 (467)
T ss_pred hhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchH
Confidence 3566 5799999999999999987742 112 4565 599999999999999999999999999999
Q ss_pred cccCCChhHHHHHHHhcC--CCCceecCccccccCChHHHHHHHHHhhcccCCCCCCccCCCchhhhchhHHHhhhhhhh
Q psy4830 72 DATFTTKQNLEVHMRTHT--GERPYQCEVCNKRFSQKSSLNTHKRIHINYLHTEDKPYHCTGCDAAFSRKQYLEVNHTTV 149 (292)
Q Consensus 72 ~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~ 149 (292)
|..|.++..|-.|++..+ ...+|.|..|.|.|.+...|..|+..|.+ -|+|+.|+.+....++|..|...
T Consensus 214 g~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn-------~ykCplCdmtc~~~ssL~~H~r~- 285 (467)
T KOG3608|consen 214 GELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN-------CYKCPLCDMTCSSASSLTTHIRY- 285 (467)
T ss_pred HHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh-------cccccccccCCCChHHHHHHHHh-
Confidence 999999999999987654 56789999999999999999999999864 48999999999888888644321
Q ss_pred hcccCCCCCCCcchhhhhcchhhhhhhcccCCCCCCccccccccccCCchHHHHHHhhhcCCCCccccc--cccccccch
Q psy4830 150 LAVMQPSLGNNTWSAKFLTSLFSHQVHMRTHTGERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDI--CDKRFAVKS 227 (292)
Q Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~--C~k~f~~~~ 227 (292)
.|..++||+|+.|++.|.+.+.|.+|..+|. +-.|+|+. |..+|.+..
T Consensus 286 -----------------------------rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~ 335 (467)
T KOG3608|consen 286 -----------------------------RHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYT 335 (467)
T ss_pred -----------------------------hhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHH
Confidence 4667899999999999999999999999998 67899998 999999999
Q ss_pred hhhhhhcccc-CC--cceeCCccccccCChhHHHHHhhhhcCCC
Q psy4830 228 YVTSHRWSHV-GD--KPFGCTSCHLTFTSKSQFAVHLRTHHTVG 268 (292)
Q Consensus 228 ~L~~H~~~h~-~~--~~~~C~~C~~~f~~~~~L~~H~~~hh~~~ 268 (292)
.|++|++.++ |. -+|.|..|++.|++..+|.+|++..|.-.
T Consensus 336 q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 336 QMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred HHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhccc
Confidence 9999998765 44 57999999999999999999998877543
No 6
>KOG1074|consensus
Probab=99.95 E-value=1.8e-28 Score=208.20 Aligned_cols=193 Identities=25% Similarity=0.458 Sum_probs=136.8
Q ss_pred ceecCccccccCChHHHHHHHHHhhcccCCCCCCccCCCchhhhchhHHHhhhhhhhhcccCCCCCCCc-----chhhhh
Q psy4830 93 PYQCEVCNKRFSQKSSLNTHKRIHINYLHTEDKPYHCTGCDAAFSRKQYLEVNHTTVLAVMQPSLGNNT-----WSAKFL 167 (292)
Q Consensus 93 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~ 167 (292)
|..|-+|-++.+-.+.|+.|.++| +|++||+|.+|+++|+++..|+.|+..+....... .... .+.+-+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtH-----tGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R-~q~ScP~~~ic~~kf 678 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTH-----TGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPAR-VQFSCPSTFICQKKF 678 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcc-----cCcCccccccccchhccccchhhcccccccCcccc-ccccCCchhhhcccc
Confidence 467999999999999999999985 59999999999999999999998876654332211 1111 111222
Q ss_pred cchhhhhhhcccCCCC-C------------CccccccccccCCchHHHHHHhhhcC----------------CC----Cc
Q psy4830 168 TSLFSHQVHMRTHTGE-R------------PFQCAVCSKRFTQKSSLNTHKRVHTG----------------ER----PY 214 (292)
Q Consensus 168 ~~~~~~~~h~~~~~~~-~------------~~~C~~C~k~f~~~~~L~~H~~~h~~----------------~~----~~ 214 (292)
.....++.|+++|.+. . .-+|..|.+.|.....+..++..|.+ +. +.
T Consensus 679 tn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~ 758 (958)
T KOG1074|consen 679 TNAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPP 758 (958)
T ss_pred cccccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCc
Confidence 2234556777777622 1 23688888888887777777665521 12 45
Q ss_pred cccccccccccchhhhhhhccc-----------------------cCC--------------------------------
Q psy4830 215 ACDICDKRFAVKSYVTSHRWSH-----------------------VGD-------------------------------- 239 (292)
Q Consensus 215 ~C~~C~k~f~~~~~L~~H~~~h-----------------------~~~-------------------------------- 239 (292)
.+..|+..+.....+..+-..+ +++
T Consensus 759 ~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~ 838 (958)
T KOG1074|consen 759 PENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLN 838 (958)
T ss_pred cccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccc
Confidence 5666777665544443331100 000
Q ss_pred ---------------------------------------cceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCCCCc
Q psy4830 240 ---------------------------------------KPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCGRSF 280 (292)
Q Consensus 240 ---------------------------------------~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~~~f 280 (292)
....|.+||+.|.+.+.|..|+++| +++++|.|.+|++.|
T Consensus 839 eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTH-tg~KPF~C~fC~~aF 917 (958)
T KOG1074|consen 839 EGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTH-TGPKPFFCHFCEEAF 917 (958)
T ss_pred cccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcC-CCCCCccchhhhhhh
Confidence 0257999999999999999999995 889999999999999
Q ss_pred cChHHHHhhhcC
Q psy4830 281 VRDSYLIRHQNK 292 (292)
Q Consensus 281 ~~~~~l~~H~rk 292 (292)
..+.+|+.||.+
T Consensus 918 ttrgnLKvHMgt 929 (958)
T KOG1074|consen 918 TTRGNLKVHMGT 929 (958)
T ss_pred hhhhhhhhhhcc
Confidence 999999999974
No 7
>KOG3623|consensus
Probab=99.95 E-value=4.8e-28 Score=202.57 Aligned_cols=106 Identities=32% Similarity=0.744 Sum_probs=96.2
Q ss_pred CccCCcchhhcCChhHHHHHHhhhc--CCCCcccccchhhcCChhHHHHHHhhcCCC-------------cceecccccc
Q psy4830 9 PYHCTACDASFCRKPYLEIHMRTHT--GERPFQCVVCLKRFSQKSALNTHKRMHIPY-------------IQYYCDACDA 73 (292)
Q Consensus 9 ~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------~~~~C~~C~~ 73 (292)
...|++|++.+.....|..|++.-+ .+..|.|..|.++|..+..|.+|+.+|.+. ..|+|.+||+
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 3679999999999999999998643 456799999999999999999999998643 3599999999
Q ss_pred cCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHHH
Q psy4830 74 TFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHKR 114 (292)
Q Consensus 74 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 114 (292)
.|..+..|+.|+++|.|++||.|+.|+|.|+...++..|+-
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 99999999999999999999999999999999999999974
No 8
>KOG3576|consensus
Probab=99.82 E-value=1.7e-21 Score=139.35 Aligned_cols=111 Identities=29% Similarity=0.605 Sum_probs=102.1
Q ss_pred CCCCCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHH
Q psy4830 181 TGERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVH 260 (292)
Q Consensus 181 ~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H 260 (292)
.+...|.|.+|+|.|....-|.+|++-|...+.|-|..||+.|.....|++|+++|+|.+||+|..|+|+|.++-+|..|
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCC----------CCCcccCCCCCCccChHHHHhhhc
Q psy4830 261 LRTHHTV----------GANHVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 261 ~~~hh~~----------~~~~~C~~C~~~f~~~~~l~~H~r 291 (292)
++..|+. .+.|+|+.||.+-.....+..|+.
T Consensus 193 l~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~ 233 (267)
T KOG3576|consen 193 LKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLK 233 (267)
T ss_pred HHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHH
Confidence 9988764 356899999999888888877753
No 9
>KOG3576|consensus
Probab=99.75 E-value=3.7e-19 Score=127.50 Aligned_cols=115 Identities=32% Similarity=0.622 Sum_probs=63.5
Q ss_pred CCCcccccchhhcCChhHHHHHHhhcCCCcceecccccccCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHHH
Q psy4830 35 ERPFQCVVCLKRFSQKSALNTHKRMHIPYIQYYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHKR 114 (292)
Q Consensus 35 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 114 (292)
...|.|.+|++.|.-...|.+|++-|.+.+.+-|..||+.|.+.-.|++|+++|+|.+||+|..|+++|+..-+|..|++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 34455666666666666666666666555556666666666666666666666666666666666666666666666654
Q ss_pred Hhhc------ccCCCCCCccCCCchhhhchhHHHhhhhhhh
Q psy4830 115 IHIN------YLHTEDKPYHCTGCDAAFSRKQYLEVNHTTV 149 (292)
Q Consensus 115 ~h~~------~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~ 149 (292)
.-.. +....++.|.|+.||.+-.....+..|...+
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhc
Confidence 3211 1112344566666665555554444444333
No 10
>KOG3623|consensus
Probab=99.70 E-value=2.4e-18 Score=145.07 Aligned_cols=80 Identities=39% Similarity=0.840 Sum_probs=73.9
Q ss_pred CCCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhh
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLR 262 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 262 (292)
+.+|.|+.|+|.|...++|.+|.--|+|.+||+|.+|.|.|+.+..|..|++.|.|||||.|..|+|.|+...++.+||.
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 45699999999999999999999999999999999999999999999999999999999999999999999999999985
No 11
>PHA00733 hypothetical protein
Probab=99.48 E-value=2.6e-14 Score=99.33 Aligned_cols=81 Identities=17% Similarity=0.304 Sum_probs=42.2
Q ss_pred CCCccccccccccCCchHHHHH--Hh---hhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHH
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTH--KR---VHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQF 257 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H--~~---~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L 257 (292)
.+++.|.+|.+.|.+...|..+ ++ .+.+.+||.|+.||+.|.+...|..|++.| +.+|.|++|+++|.....|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 4556666666666555554444 11 122344555555555555555555555543 2345555555555555555
Q ss_pred HHHhhhhc
Q psy4830 258 AVHLRTHH 265 (292)
Q Consensus 258 ~~H~~~hh 265 (292)
..|+...|
T Consensus 116 ~~H~~~~h 123 (128)
T PHA00733 116 LDHVCKKH 123 (128)
T ss_pred HHHHHHhc
Confidence 55555444
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.45 E-value=2.5e-13 Score=115.42 Aligned_cols=99 Identities=21% Similarity=0.433 Sum_probs=82.9
Q ss_pred CCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCC----------
Q psy4830 184 RPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS---------- 253 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~---------- 253 (292)
..+.|+.|++.|. ...|..|+.+++ +++.|+ ||+.+ .+..|..|+.+|.+.+++.|+.|++.|..
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 4478999999996 688999999985 789999 99755 67899999999999999999999999952
Q ss_pred hhHHHHHhhhhcCCCCCcccCCCCCCccChHHHHhhh
Q psy4830 254 KSQFAVHLRTHHTVGANHVCNVCGRSFVRDSYLIRHQ 290 (292)
Q Consensus 254 ~~~L~~H~~~hh~~~~~~~C~~C~~~f~~~~~l~~H~ 290 (292)
.+.|..|..+. +.+++.|..||+.+..+. |..|+
T Consensus 527 ~s~Lt~HE~~C--G~rt~~C~~Cgk~Vrlrd-m~~H~ 560 (567)
T PLN03086 527 LRGMSEHESIC--GSRTAPCDSCGRSVMLKE-MDIHQ 560 (567)
T ss_pred hhhHHHHHHhc--CCcceEccccCCeeeehh-HHHHH
Confidence 45899999884 678999999999887653 44454
No 13
>PHA00733 hypothetical protein
Probab=99.43 E-value=1e-13 Score=96.28 Aligned_cols=92 Identities=17% Similarity=0.357 Sum_probs=75.9
Q ss_pred chHHHHHHhhhcCCCCccccccccccccchhhhhh--h---ccccCCcceeCCccccccCChhHHHHHhhhhcCCCCCcc
Q psy4830 198 KSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSH--R---WSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHV 272 (292)
Q Consensus 198 ~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H--~---~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~ 272 (292)
...|.++-..-...+++.|.+|++.|.....|..+ + ..+.+++||.|+.||+.|.+..+|..|++.+ ..+|.
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h---~~~~~ 101 (128)
T PHA00733 25 LEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT---EHSKV 101 (128)
T ss_pred HHHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC---CcCcc
Confidence 45666665555557889999999999988777766 1 2344588999999999999999999999974 35799
Q ss_pred cCCCCCCccChHHHHhhhcC
Q psy4830 273 CNVCGRSFVRDSYLIRHQNK 292 (292)
Q Consensus 273 C~~C~~~f~~~~~l~~H~rk 292 (292)
|++|++.|.....|.+|+++
T Consensus 102 C~~CgK~F~~~~sL~~H~~~ 121 (128)
T PHA00733 102 CPVCGKEFRNTDSTLDHVCK 121 (128)
T ss_pred CCCCCCccCCHHHHHHHHHH
Confidence 99999999999999999874
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.41 E-value=8.1e-13 Score=112.38 Aligned_cols=146 Identities=20% Similarity=0.442 Sum_probs=107.1
Q ss_pred eecccccccCCChhHHHHHHHhcCCCCceecCc--cccccCChHHHHHHHHHhhcccCCCCCCccCCCchhhhchhHHHh
Q psy4830 66 YYCDACDATFTTKQNLEVHMRTHTGERPYQCEV--CNKRFSQKSSLNTHKRIHINYLHTEDKPYHCTGCDAAFSRKQYLE 143 (292)
Q Consensus 66 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~ 143 (292)
-.|+.|..... ...|..|.... ....-.|+. |+..|.. ..+. ..+.|+.|++.|. ...|.
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~r-~el~--------------~H~~C~~Cgk~f~-~s~Le 469 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYC-SRHNVVCPHDGCGIVLRV-EEAK--------------NHVHCEKCGQAFQ-QGEME 469 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhC-CCcceeCCcccccceeec-cccc--------------cCccCCCCCCccc-hHHHH
Confidence 46888877654 34566776432 233456874 8888843 2233 3357889988885 34443
Q ss_pred hhhhhhhcccCCCCCCCcchhhhhcchhhhhhhcccCCCCCCccccccccccCCchHHHHHHhhhcCCCCcccccccccc
Q psy4830 144 VNHTTVLAVMQPSLGNNTWSAKFLTSLFSHQVHMRTHTGERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRF 223 (292)
Q Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f 223 (292)
.|+.+++ .++.|+ ||+.+ .+..|..|+.+|.+++++.|+.|++.|
T Consensus 470 -------------------------------kH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v 514 (567)
T PLN03086 470 -------------------------------KHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMV 514 (567)
T ss_pred -------------------------------HHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCcc
Confidence 4555543 679999 99755 679999999999999999999999999
Q ss_pred cc----------chhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhcC
Q psy4830 224 AV----------KSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHT 266 (292)
Q Consensus 224 ~~----------~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~ 266 (292)
.. ...|..|..+. |.+++.|..||+.+.. ..|..|+...|.
T Consensus 515 ~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 515 QAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred ccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeee-hhHHHHHHHhhc
Confidence 52 35899999885 9999999999999887 468889877664
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.22 E-value=3.2e-12 Score=72.74 Aligned_cols=42 Identities=19% Similarity=0.453 Sum_probs=19.6
Q ss_pred ccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYV 229 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L 229 (292)
|+|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 444444444444444444444444 344444444444444433
No 16
>KOG3993|consensus
Probab=99.20 E-value=4.7e-12 Score=101.25 Aligned_cols=215 Identities=18% Similarity=0.254 Sum_probs=119.3
Q ss_pred CcccccchhhcCChhHHHHHHhhcCCCcceecccccccCCChhHHHHHHHhcCCCCcee--cCcccc-ccCChHHHHHHH
Q psy4830 37 PFQCVVCLKRFSQKSALNTHKRMHIPYIQYYCDACDATFTTKQNLEVHMRTHTGERPYQ--CEVCNK-RFSQKSSLNTHK 113 (292)
Q Consensus 37 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~--C~~C~~-~f~~~~~l~~H~ 113 (292)
.|.|.+|...|.+...|.+|.-.-+-...|+|++|++.|.-..+|..|.++|.....-. =..=.+ .-.+....+.=.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 37888888888888888888654444456888888888888888888888875321100 000000 000000000000
Q ss_pred HHhhcccCCCCCCccCCCchhhhchhHHHhhhhhhhhcccCCCCCCCcchhhhhcchhhhhhhcccCCCCCCcccccccc
Q psy4830 114 RIHINYLHTEDKPYHCTGCDAAFSRKQYLEVNHTTVLAVMQPSLGNNTWSAKFLTSLFSHQVHMRTHTGERPFQCAVCSK 193 (292)
Q Consensus 114 ~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~C~~C~k 193 (292)
+ ......+.-|.|..|++.|.+..+|+.|..++..........- +|..+. ...-.+-|+.|+-
T Consensus 347 r---sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~----~f~~s~----------~~~l~~~~~~~a~ 409 (500)
T KOG3993|consen 347 R---SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAP----KFLLSR----------VIPLMHFNQAVAT 409 (500)
T ss_pred c---cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhccc----Ccchhh----------ccccccccccccc
Confidence 0 0011234468888888888888888888766654332221100 000000 0001133444444
Q ss_pred ccCCchHHHHHHhhhcC-CCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhcCCC
Q psy4830 194 RFTQKSSLNTHKRVHTG-ERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHTVG 268 (292)
Q Consensus 194 ~f~~~~~L~~H~~~h~~-~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~ 268 (292)
.+...+.--.+...+.+ .....|++|+..+.++..--.+.+.-..+..|.|.+|.-+|.+...|.+|+...|..+
T Consensus 410 h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 410 HSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred ccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 44433322222222221 1123467777777777666666666666777888899999998889998887776543
No 17
>PHA02768 hypothetical protein; Provisional
Probab=99.20 E-value=7.8e-12 Score=71.17 Aligned_cols=44 Identities=16% Similarity=0.425 Sum_probs=41.0
Q ss_pred CccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHH
Q psy4830 213 PYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFA 258 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 258 (292)
-|+|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4899999999999999999999998 7999999999999888775
No 18
>KOG3993|consensus
Probab=99.02 E-value=5.6e-11 Score=95.19 Aligned_cols=194 Identities=19% Similarity=0.248 Sum_probs=124.2
Q ss_pred cceecccccccCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHHHHhhcccCC---CCCCccCCCchhhhchhH
Q psy4830 64 IQYYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHKRIHINYLHT---EDKPYHCTGCDAAFSRKQ 140 (292)
Q Consensus 64 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~---~~~~~~C~~C~~~f~~~~ 140 (292)
..|.|..|...|.+.-.|.+|.-.-.-.-.|+|+.|+|.|+-..+|..|.|.|--.... +..|-+ ....+.
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k-----~~~~~r- 339 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPK-----QAVETR- 339 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChh-----hhhhhh-
Confidence 35899999999999999999964322233599999999999999999999997421100 011100 000000
Q ss_pred HHhhhhhhhhcccCCCCCCCcchhhhhcchhhhhhhcccCCCCCCccccccccccCCchHHHHHHhhhcCCC--------
Q psy4830 141 YLEVNHTTVLAVMQPSLGNNTWSAKFLTSLFSHQVHMRTHTGERPFQCAVCSKRFTQKSSLNTHKRVHTGER-------- 212 (292)
Q Consensus 141 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~-------- 212 (292)
.+ .+... + .-....+..|.|.+|++.|.+...|+.|+.+|....
T Consensus 340 ae----------~~ea~-----------------r-sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~ 391 (500)
T KOG3993|consen 340 AE----------VQEAE-----------------R-SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPK 391 (500)
T ss_pred hh----------hhhcc-----------------c-cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccC
Confidence 00 00000 0 000123347999999999999999999988875321
Q ss_pred ---------CccccccccccccchhhhhhhccccCC-cceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCCCCccC
Q psy4830 213 ---------PYACDICDKRFAVKSYVTSHRWSHVGD-KPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCGRSFVR 282 (292)
Q Consensus 213 ---------~~~C~~C~k~f~~~~~L~~H~~~h~~~-~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~~~f~~ 282 (292)
.+-|+.|+-.+...+.--.+...+.+. ..-.|+.|+-.+.++..--.+.+.-+ ....|.|.+|...|.+
T Consensus 392 f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~-~~q~f~~ky~~atfys 470 (500)
T KOG3993|consen 392 FLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGI-AEQGFTCKYCPATFYS 470 (500)
T ss_pred cchhhcccccccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccc-hhhccccccchHhhhc
Confidence 133555555555444433443333322 23468889988888776666654422 3456899999999999
Q ss_pred hHHHHhhhcC
Q psy4830 283 DSYLIRHQNK 292 (292)
Q Consensus 283 ~~~l~~H~rk 292 (292)
..+|.+|++|
T Consensus 471 s~~ltrhin~ 480 (500)
T KOG3993|consen 471 SPGLTRHINK 480 (500)
T ss_pred CcchHhHhhh
Confidence 9999999864
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=99.00 E-value=1.8e-10 Score=56.24 Aligned_cols=24 Identities=54% Similarity=1.146 Sum_probs=12.9
Q ss_pred HHHHHhhhcCCCCccccccccccc
Q psy4830 201 LNTHKRVHTGERPYACDICDKRFA 224 (292)
Q Consensus 201 L~~H~~~h~~~~~~~C~~C~k~f~ 224 (292)
|.+|+++|++++||.|++|+++|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555553
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.97 E-value=2.1e-10 Score=55.99 Aligned_cols=24 Identities=33% Similarity=0.880 Sum_probs=17.1
Q ss_pred hhhhhccccCCcceeCCccccccC
Q psy4830 229 VTSHRWSHVGDKPFGCTSCHLTFT 252 (292)
Q Consensus 229 L~~H~~~h~~~~~~~C~~C~~~f~ 252 (292)
|..|+++|+|++||.|+.|+++|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 666777777777777777777765
No 21
>PHA00732 hypothetical protein
Probab=98.79 E-value=3.9e-09 Score=66.43 Aligned_cols=46 Identities=17% Similarity=0.423 Sum_probs=38.4
Q ss_pred Cccccccccccccchhhhhhhcc-ccCCcceeCCccccccCChhHHHHHhhhh
Q psy4830 213 PYACDICDKRFAVKSYVTSHRWS-HVGDKPFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
||.|++||+.|.+...|..|++. |.+ +.|+.||++|. .|..|+++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhccc
Confidence 68899999999999999999884 553 58999999997 588888765
No 22
>PHA00616 hypothetical protein
Probab=98.75 E-value=3.6e-09 Score=57.31 Aligned_cols=34 Identities=18% Similarity=0.321 Sum_probs=23.5
Q ss_pred CccccccccccCCchHHHHHHhhhcCCCCccccc
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDI 218 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~ 218 (292)
||+|+.||+.|..+++|.+|++.|++++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4667777777777777777777777777766654
No 23
>PHA00732 hypothetical protein
Probab=98.74 E-value=5.8e-09 Score=65.63 Aligned_cols=48 Identities=27% Similarity=0.594 Sum_probs=39.2
Q ss_pred CccccccccccCCchHHHHHHhh-hcCCCCccccccccccccchhhhhhhccccC
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRV-HTGERPYACDICDKRFAVKSYVTSHRWSHVG 238 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~-h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~ 238 (292)
||.|+.||+.|.+.++|..|++. |. ++.|+.||+.|. .|..|..++.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 58899999999999999999984 54 358999999998 47888866543
No 24
>PHA00616 hypothetical protein
Probab=98.65 E-value=1.5e-08 Score=54.86 Aligned_cols=35 Identities=17% Similarity=0.317 Sum_probs=28.8
Q ss_pred CccCCcchhhcCChhHHHHHHhhhcCCCCcccccc
Q psy4830 9 PYHCTACDASFCRKPYLEIHMRTHTGERPFQCVVC 43 (292)
Q Consensus 9 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C 43 (292)
||+|..||+.|...++|.+|++.|+|++++.|+.=
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 67888888888888888888888888888887653
No 25
>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=98.54 E-value=8.7e-08 Score=56.09 Aligned_cols=47 Identities=34% Similarity=0.579 Sum_probs=28.9
Q ss_pred eeCCccccccCChhHHHHHhhhhcCCC-CCcccCCCCCCccChHHHHhhhc
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHHTVG-ANHVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh~~~-~~~~C~~C~~~f~~~~~l~~H~r 291 (292)
|.||+|++ ..+...|..|+...|..+ +.+.||+|...+. .+|..||+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~ 50 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLN 50 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHH
Confidence 66777777 344566777766655543 3566777776544 36666654
No 26
>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=98.34 E-value=3.1e-07 Score=43.46 Aligned_cols=22 Identities=36% Similarity=0.803 Sum_probs=15.0
Q ss_pred eeCCccccccCChhHHHHHhhh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
|.|+.|++.|.++.+|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5666777777777777777665
No 27
>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=98.28 E-value=6.9e-07 Score=52.28 Aligned_cols=20 Identities=40% Similarity=0.609 Sum_probs=9.8
Q ss_pred ccccccccccCCchHHHHHHh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKR 206 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~ 206 (292)
|.||+|++ ..+...|..|..
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~ 22 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCE 22 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHH
Confidence 45555555 233445555543
No 28
>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=98.25 E-value=5.4e-07 Score=42.63 Aligned_cols=23 Identities=43% Similarity=1.003 Sum_probs=15.5
Q ss_pred ccccccccccCCchHHHHHHhhh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVH 208 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h 208 (292)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 46777777777777777776653
No 29
>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=98.19 E-value=1.2e-06 Score=41.88 Aligned_cols=24 Identities=50% Similarity=0.962 Sum_probs=16.5
Q ss_pred eeCCccccccCChhHHHHHhhhhc
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
|.|++|++.|.+...|..|++++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567777777777777777777764
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.15 E-value=1.3e-06 Score=58.76 Aligned_cols=73 Identities=23% Similarity=0.422 Sum_probs=21.9
Q ss_pred cccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhh
Q psy4830 187 QCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 187 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
+|..|+..|.+...|..|+...++-..- ....+.....+..+...-. ...+.|.+|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5899999999999999999765543211 1222234444444443322 23699999999999999999999975
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=98.09 E-value=2e-06 Score=42.42 Aligned_cols=25 Identities=44% Similarity=0.812 Sum_probs=17.8
Q ss_pred ceeCCccccccCChhHHHHHhhhhc
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
||.|..|++.|.+..+|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4677777777777777777776654
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.03 E-value=2e-06 Score=57.84 Aligned_cols=71 Identities=20% Similarity=0.330 Sum_probs=20.5
Q ss_pred cccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCCCCccChHHHHhhhc
Q psy4830 215 ACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 215 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~~~f~~~~~l~~H~r 291 (292)
+|.+|+..|.+...|..|+...++-.. + ....+.....|..+++.. ....+.|.+|++.|.+...|..||+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~--~~~~~~C~~C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKK--VKESFRCPYCNKTFRSREALQEHMR 71 (100)
T ss_dssp ------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHH
T ss_pred Ccccccccccccccccccccccccccc---c-cccccccccccccccccc--cCCCCCCCccCCCCcCHHHHHHHHc
Confidence 589999999999999999976655321 1 223334555666665542 3346999999999999999999996
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.99 E-value=1.9e-06 Score=67.18 Aligned_cols=22 Identities=27% Similarity=0.854 Sum_probs=11.2
Q ss_pred CCccccc--cccccccchhhhhhh
Q psy4830 212 RPYACDI--CDKRFAVKSYVTSHR 233 (292)
Q Consensus 212 ~~~~C~~--C~k~f~~~~~L~~H~ 233 (292)
+||+|++ |.|.+++...|+-|+
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~ 371 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHM 371 (423)
T ss_pred ceecCCCCCchhhhccccchhhhh
Confidence 4555544 555555555555554
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.95 E-value=3e-06 Score=66.13 Aligned_cols=53 Identities=21% Similarity=0.521 Sum_probs=45.6
Q ss_pred CCcceeCCc--cccccCChhHHHHHhhhhc------------------CCCCCcccCCCCCCccChHHHHhhh
Q psy4830 238 GDKPFGCTS--CHLTFTSKSQFAVHLRTHH------------------TVGANHVCNVCGRSFVRDSYLIRHQ 290 (292)
Q Consensus 238 ~~~~~~C~~--C~~~f~~~~~L~~H~~~hh------------------~~~~~~~C~~C~~~f~~~~~l~~H~ 290 (292)
++|||+|++ |+|++.+...|+-|+.-=| ...+||.|++|+|.|++...|+-|.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 459999988 9999999999999986433 1347999999999999999998875
No 35
>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=97.93 E-value=5.9e-06 Score=39.39 Aligned_cols=23 Identities=52% Similarity=1.038 Sum_probs=14.2
Q ss_pred ccccccccccCCchHHHHHHhhh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVH 208 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h 208 (292)
|.|++|++.|.+...|+.|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45777777777777777776654
No 36
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.90 E-value=6.6e-06 Score=40.52 Aligned_cols=24 Identities=50% Similarity=1.020 Sum_probs=14.3
Q ss_pred CccccccccccCCchHHHHHHhhh
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRVH 208 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~h 208 (292)
||.|+.|++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 355666666666666666666554
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.42 E-value=0.0001 Score=35.59 Aligned_cols=23 Identities=43% Similarity=0.870 Sum_probs=17.5
Q ss_pred eeCCccccccCChhHHHHHhhhh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
|.|+.|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46778888888888888887754
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.40 E-value=0.00014 Score=35.16 Aligned_cols=24 Identities=42% Similarity=0.830 Sum_probs=15.6
Q ss_pred ccccccccccCCchHHHHHHhhhc
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHT 209 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~ 209 (292)
|.|+.|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 456667777777777776666553
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.39 E-value=0.00021 Score=39.76 Aligned_cols=30 Identities=20% Similarity=0.456 Sum_probs=20.3
Q ss_pred CCcceeCCccccccCChhHHHHHhhhhcCC
Q psy4830 238 GDKPFGCTSCHLTFTSKSQFAVHLRTHHTV 267 (292)
Q Consensus 238 ~~~~~~C~~C~~~f~~~~~L~~H~~~hh~~ 267 (292)
.+.|-.|++|+..+.+..+|.+|+...|..
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 467888999999999999999998877653
No 40
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.36 E-value=0.00015 Score=34.37 Aligned_cols=23 Identities=35% Similarity=0.836 Sum_probs=16.2
Q ss_pred eeCCccccccCChhHHHHHhhhhc
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
|.|+.|+.... ...|.+|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 67888887777 778888887765
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.32 E-value=0.00022 Score=39.66 Aligned_cols=32 Identities=25% Similarity=0.600 Sum_probs=21.4
Q ss_pred CCCCccccccccccCCchHHHHHHhhhcCCCC
Q psy4830 182 GERPFQCAVCSKRFTQKSSLNTHKRVHTGERP 213 (292)
Q Consensus 182 ~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~ 213 (292)
.+.|-.|++|+..+.+..+|++|+.+.++.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 45678899999999988999999888777665
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.31 E-value=0.00016 Score=34.75 Aligned_cols=22 Identities=36% Similarity=0.816 Sum_probs=14.0
Q ss_pred eeCCccccccCChhHHHHHhhh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
|.|.+|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666654
No 43
>PRK04860 hypothetical protein; Provisional
Probab=97.20 E-value=0.00018 Score=52.17 Aligned_cols=38 Identities=32% Similarity=0.848 Sum_probs=28.3
Q ss_pred CccccccccccCCchHHHHHHhhhcCCCCccccccccccccc
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVK 226 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~ 226 (292)
+|.|. |+. ...++.+|.++|.++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57787 776 666777888888887788888887777644
No 44
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=97.19 E-value=0.00024 Score=34.81 Aligned_cols=21 Identities=24% Similarity=0.665 Sum_probs=14.9
Q ss_pred cccCCCCCCccChHHHHhhhc
Q psy4830 271 HVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 271 ~~C~~C~~~f~~~~~l~~H~r 291 (292)
|.|.+|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 567777777777777777764
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.16 E-value=0.00025 Score=34.02 Aligned_cols=22 Identities=41% Similarity=0.907 Sum_probs=13.3
Q ss_pred ccccccccccCCchHHHHHHhh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRV 207 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~ 207 (292)
|.|++|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666554
No 46
>PRK04860 hypothetical protein; Provisional
Probab=97.13 E-value=0.00015 Score=52.56 Aligned_cols=37 Identities=27% Similarity=0.630 Sum_probs=21.0
Q ss_pred CccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 213 PYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
+|.|. |+. ....+..|.++|+++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 45665 555 44455566666666666666666655543
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=97.02 E-value=0.00029 Score=34.53 Aligned_cols=22 Identities=32% Similarity=0.789 Sum_probs=13.9
Q ss_pred eeCCccccccCChhHHHHHhhh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
|.|..|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 4566666666666666666654
No 48
>KOG2231|consensus
Probab=96.94 E-value=0.0013 Score=57.93 Aligned_cols=69 Identities=22% Similarity=0.467 Sum_probs=44.9
Q ss_pred ccccccccccCCchHHHHHHhhhcCCCCcccccc------ccccccchhhhhhhccccCCcceeCC--ccc-cccCChhH
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHTGERPYACDIC------DKRFAVKSYVTSHRWSHVGDKPFGCT--SCH-LTFTSKSQ 256 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C------~k~f~~~~~L~~H~~~h~~~~~~~C~--~C~-~~f~~~~~ 256 (292)
-.|..|...|.....|.+|++.++ |.|..| +.-|.....|..|-+.++ |.|+ .|. +.|.....
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~~f~~~~~ 254 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTKKFYVAFE 254 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccceeeehhH
Confidence 468888888988889988887654 445555 355667777887776544 6676 453 34444434
Q ss_pred HHHHhh
Q psy4830 257 FAVHLR 262 (292)
Q Consensus 257 L~~H~~ 262 (292)
+..+++
T Consensus 255 ~ei~lk 260 (669)
T KOG2231|consen 255 LEIELK 260 (669)
T ss_pred HHHHHH
Confidence 444444
No 49
>KOG2785|consensus
Probab=96.84 E-value=0.0036 Score=50.87 Aligned_cols=111 Identities=19% Similarity=0.258 Sum_probs=75.5
Q ss_pred CCCCCccccccccccCCchHHHHHHhh--hc---------CC------CCcc-------------ccccccccccchhhh
Q psy4830 181 TGERPFQCAVCSKRFTQKSSLNTHKRV--HT---------GE------RPYA-------------CDICDKRFAVKSYVT 230 (292)
Q Consensus 181 ~~~~~~~C~~C~k~f~~~~~L~~H~~~--h~---------~~------~~~~-------------C~~C~k~f~~~~~L~ 230 (292)
.++-++.|.+|.+.|.+......|+.. |. ++ .... +..+...+.......
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~ 143 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSE 143 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccch
Confidence 355678999999999999999999753 21 00 0111 333333333322222
Q ss_pred hhhccc------------cCCcceeCCccccccCChhHHHHHhhhhcC----------------------CCCCcccCCC
Q psy4830 231 SHRWSH------------VGDKPFGCTSCHLTFTSKSQFAVHLRTHHT----------------------VGANHVCNVC 276 (292)
Q Consensus 231 ~H~~~h------------~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~----------------------~~~~~~C~~C 276 (292)
.+...- ...-|-.|-.|++.|.+...-..||-.+|+ .+..|.|-.|
T Consensus 144 e~~~dd~~Edi~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~C 223 (390)
T KOG2785|consen 144 EEEEDDEEEDIEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFC 223 (390)
T ss_pred hhccCcchhhhhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEe
Confidence 322110 112357899999999999999999999885 2345789999
Q ss_pred C---CCccChHHHHhhhc
Q psy4830 277 G---RSFVRDSYLIRHQN 291 (292)
Q Consensus 277 ~---~~f~~~~~l~~H~r 291 (292)
+ +.|.+-...+.||+
T Consensus 224 N~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 224 NELGRPFSSLEAVRAHMR 241 (390)
T ss_pred ccccCcccccHHHHHHHh
Confidence 9 99999999999996
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.82 E-value=0.00085 Score=31.75 Aligned_cols=23 Identities=35% Similarity=0.700 Sum_probs=13.4
Q ss_pred ccccccccccCCchHHHHHHhhhc
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHT 209 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~ 209 (292)
|+|+.|+.... ...|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666766665 666666666654
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.71 E-value=0.0016 Score=51.91 Aligned_cols=99 Identities=24% Similarity=0.500 Sum_probs=53.0
Q ss_pred ccccc--cccccCCchHHHHHHhhhcCCCCcccccccc---ccc------cchhhhhhhccccCCcce----eCCccccc
Q psy4830 186 FQCAV--CSKRFTQKSSLNTHKRVHTGERPYACDICDK---RFA------VKSYVTSHRWSHVGDKPF----GCTSCHLT 250 (292)
Q Consensus 186 ~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k---~f~------~~~~L~~H~~~h~~~~~~----~C~~C~~~ 250 (292)
|.|+. |..+...-..|..|.++-++ .+.|.+|-. .|. ++..|+.|...-..+.-| .|..|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 55653 55555555566667665443 244555532 222 345566665443222111 47777777
Q ss_pred cCChhHHHHHhhhhcCCCCCcccCCCCCC-------ccChHHHHhhhc
Q psy4830 251 FTSKSQFAVHLRTHHTVGANHVCNVCGRS-------FVRDSYLIRHQN 291 (292)
Q Consensus 251 f~~~~~L~~H~~~hh~~~~~~~C~~C~~~-------f~~~~~l~~H~r 291 (292)
|.+-..|..|+|..|. .|-+|+++ |.+-.+|..|.+
T Consensus 230 FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 230 FYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred ecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhh
Confidence 7777777777766543 25555543 555566666644
No 52
>KOG1146|consensus
Probab=96.46 E-value=0.0012 Score=61.83 Aligned_cols=104 Identities=20% Similarity=0.376 Sum_probs=77.2
Q ss_pred ccccccccCCchHHHHHHhh-hcCCCCccccccccccccchhhhhhhcccc-------------------------CCcc
Q psy4830 188 CAVCSKRFTQKSSLNTHKRV-HTGERPYACDICDKRFAVKSYVTSHRWSHV-------------------------GDKP 241 (292)
Q Consensus 188 C~~C~k~f~~~~~L~~H~~~-h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~-------------------------~~~~ 241 (292)
|..|+..+.....+..|+.+ +.-.+.|+|+.|+..|.....|..|+++-+ +.++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 44455556666666666543 555678999999999999999999998721 2358
Q ss_pred eeCCccccccCChhHHHHHhhhhcC------------------------------------------CCCCcccCCCCCC
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHHT------------------------------------------VGANHVCNVCGRS 279 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh~------------------------------------------~~~~~~C~~C~~~ 279 (292)
|.|..|..++..+.+|.+|++.--. ....+.|.+|++.
T Consensus 519 ~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~ye 598 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYE 598 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcch
Confidence 9999999999999999999864210 0124789999998
Q ss_pred ccChHHHHhhhc
Q psy4830 280 FVRDSYLIRHQN 291 (292)
Q Consensus 280 f~~~~~l~~H~r 291 (292)
-.-..+|..||.
T Consensus 599 tniarnlrihmt 610 (1406)
T KOG1146|consen 599 TNIARNLRIHMT 610 (1406)
T ss_pred hhhhhccccccc
Confidence 888888888874
No 53
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.33 E-value=0.0029 Score=30.18 Aligned_cols=20 Identities=25% Similarity=0.906 Sum_probs=15.0
Q ss_pred ccccccccccCCchHHHHHHh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKR 206 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~ 206 (292)
.+|+.||+.| ..+.|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4688888888 6677888765
No 54
>KOG2231|consensus
Probab=96.30 E-value=0.0045 Score=54.70 Aligned_cols=89 Identities=24% Similarity=0.414 Sum_probs=50.5
Q ss_pred CCchHHHHHHh-hhcCCCCcccccccc---------ccccchhhhhhhccccC-Cc----ceeCCccccccCChhHHHHH
Q psy4830 196 TQKSSLNTHKR-VHTGERPYACDICDK---------RFAVKSYVTSHRWSHVG-DK----PFGCTSCHLTFTSKSQFAVH 260 (292)
Q Consensus 196 ~~~~~L~~H~~-~h~~~~~~~C~~C~k---------~f~~~~~L~~H~~~h~~-~~----~~~C~~C~~~f~~~~~L~~H 260 (292)
.+...|+.|+. .|. .+.|.+|-. .--+...|..|+..--. ++ .-.|..|...|.....|..|
T Consensus 125 ~s~~~Lk~H~~~~H~---~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH 201 (669)
T KOG2231|consen 125 KSVENLKNHMRDQHK---LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRH 201 (669)
T ss_pred hHHHHHHHHHHHhhh---hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHh
Confidence 36777888874 342 233443321 22234556666543211 11 12577788888888888888
Q ss_pred hhhhcCCCCCcccCCC------CCCccChHHHHhhhcC
Q psy4830 261 LRTHHTVGANHVCNVC------GRSFVRDSYLIRHQNK 292 (292)
Q Consensus 261 ~~~hh~~~~~~~C~~C------~~~f~~~~~l~~H~rk 292 (292)
++..| |.|.+| +..|..-..|..|.|+
T Consensus 202 ~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 202 LRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred hccce-----eheeecCcccccchhcccchHHHHHhhh
Confidence 77665 345555 3556667777777653
No 55
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.92 E-value=0.0063 Score=29.02 Aligned_cols=19 Identities=21% Similarity=0.557 Sum_probs=10.5
Q ss_pred eCCccccccCChhHHHHHhh
Q psy4830 243 GCTSCHLTFTSKSQFAVHLR 262 (292)
Q Consensus 243 ~C~~C~~~f~~~~~L~~H~~ 262 (292)
.|+.||+.| ..+.|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455666666 4455555544
No 56
>KOG1146|consensus
Probab=95.90 E-value=0.0034 Score=58.95 Aligned_cols=76 Identities=20% Similarity=0.344 Sum_probs=61.4
Q ss_pred ccccccccccchhhhhhhc-cccCCcceeCCccccccCChhHHHHHhhhhcC------------------------CCCC
Q psy4830 216 CDICDKRFAVKSYVTSHRW-SHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHT------------------------VGAN 270 (292)
Q Consensus 216 C~~C~k~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~------------------------~~~~ 270 (292)
|.-|+..+.++..+..|+. .+.-.+.|+|+.|+..|.....|..|||..|. .+++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 4445566666666766654 45666899999999999999999999998542 3367
Q ss_pred cccCCCCCCccChHHHHhhhc
Q psy4830 271 HVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 271 ~~C~~C~~~f~~~~~l~~H~r 291 (292)
|.|..|..+++.+.+|.+||.
T Consensus 519 ~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ccceeeeeeeecchHHHHHHH
Confidence 999999999999999999985
No 57
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.80 E-value=0.0074 Score=31.48 Aligned_cols=21 Identities=19% Similarity=0.529 Sum_probs=12.4
Q ss_pred CcccCCCCCCccChHHHHhhh
Q psy4830 270 NHVCNVCGRSFVRDSYLIRHQ 290 (292)
Q Consensus 270 ~~~C~~C~~~f~~~~~l~~H~ 290 (292)
+|.|++|++.|.+...+..|+
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~ 23 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHL 23 (35)
T ss_pred CeEccccCCccCCHHHHHHHH
Confidence 355666666666666666554
No 58
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.48 E-value=0.011 Score=30.82 Aligned_cols=23 Identities=35% Similarity=0.714 Sum_probs=18.3
Q ss_pred ceeCCccccccCChhHHHHHhhh
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
+|.|++|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888754
No 59
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.37 E-value=0.0055 Score=52.98 Aligned_cols=53 Identities=32% Similarity=0.767 Sum_probs=41.9
Q ss_pred ceecccccccCCChhHHHHHHH--hcCCC--CceecC--ccccccCChHHHHHHHHHhh
Q psy4830 65 QYYCDACDATFTTKQNLEVHMR--THTGE--RPYQCE--VCNKRFSQKSSLNTHKRIHI 117 (292)
Q Consensus 65 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~ 117 (292)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc
Confidence 5678888888888888888888 68888 788888 68888888888877777654
No 60
>KOG2785|consensus
Probab=95.31 E-value=0.067 Score=43.82 Aligned_cols=76 Identities=21% Similarity=0.380 Sum_probs=44.9
Q ss_pred CcccccchhhcCChhHHHHHHhh--cC-------CCcceecccccccCCChhHHHHHHH---hcCCCCceecCccccccC
Q psy4830 37 PFQCVVCLKRFSQKSALNTHKRM--HI-------PYIQYYCDACDATFTTKQNLEVHMR---THTGERPYQCEVCNKRFS 104 (292)
Q Consensus 37 ~~~C~~C~~~f~~~~~l~~H~~~--h~-------~~~~~~C~~C~~~f~~~~~l~~H~~---~h~~~~~~~C~~C~~~f~ 104 (292)
.|.|.-|...|.+...-+.|+++ |. ...| ++=-..|..+..-..-.. .-.++.++.|.+|.+.|.
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lP---PItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~ 79 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLP---PITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFA 79 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCC---CcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhcccc
Confidence 47899999999998888888753 21 0111 111122222211111100 123455788999999999
Q ss_pred ChHHHHHHHHH
Q psy4830 105 QKSSLNTHKRI 115 (292)
Q Consensus 105 ~~~~l~~H~~~ 115 (292)
+......|+..
T Consensus 80 s~~a~~~hl~S 90 (390)
T KOG2785|consen 80 SPKAHENHLKS 90 (390)
T ss_pred ChhhHHHHHHH
Confidence 98888888764
No 61
>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=95.22 E-value=0.015 Score=29.82 Aligned_cols=10 Identities=60% Similarity=1.185 Sum_probs=6.1
Q ss_pred CCcccCCCCC
Q psy4830 269 ANHVCNVCGR 278 (292)
Q Consensus 269 ~~~~C~~C~~ 278 (292)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4566666665
No 62
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.78 E-value=0.013 Score=50.72 Aligned_cols=107 Identities=29% Similarity=0.513 Sum_probs=79.8
Q ss_pred CCccccccccccCCchHHHHHHh--hhcCC--CCcccc--ccccccccchhhhhhhccccCCcceeCCc--cccccC---
Q psy4830 184 RPFQCAVCSKRFTQKSSLNTHKR--VHTGE--RPYACD--ICDKRFAVKSYVTSHRWSHVGDKPFGCTS--CHLTFT--- 252 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~~~L~~H~~--~h~~~--~~~~C~--~C~k~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~--- 252 (292)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+..++.+.. +...+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 46899999999999999999999 89999 999999 89999999999999999998776655533 333333
Q ss_pred --------------------------------ChhHHHHHhhhhcCCC--CCcccCCCCCCccChHHHHhhhc
Q psy4830 253 --------------------------------SKSQFAVHLRTHHTVG--ANHVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 253 --------------------------------~~~~L~~H~~~hh~~~--~~~~C~~C~~~f~~~~~l~~H~r 291 (292)
....+..|...+ ... ..+.+..|.+.|.....+..|++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 439 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITH-LSFRPYNCKNPPCSKSFNRHYNLIPHKK 439 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccc-cccCCcCCCCCcchhhccCccccccccc
Confidence 333333333222 111 24667888888888888877765
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.72 E-value=0.036 Score=44.53 Aligned_cols=99 Identities=24% Similarity=0.479 Sum_probs=56.7
Q ss_pred ccCC--cchhhcCChhHHHHHHhhhcCCCCcccccchh---hcC------ChhHHHHHHhhcCCCcc----eeccccccc
Q psy4830 10 YHCT--ACDASFCRKPYLEIHMRTHTGERPFQCVVCLK---RFS------QKSALNTHKRMHIPYIQ----YYCDACDAT 74 (292)
Q Consensus 10 ~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f~------~~~~l~~H~~~h~~~~~----~~C~~C~~~ 74 (292)
|.|+ .|..+-.....|..|.+..++ .+-|.+|-. .|. ++..|..|...-..+.. -.|..|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 5665 366666667778888876544 245666532 222 23455566543322211 257777777
Q ss_pred CCChhHHHHHHHhcCCCCceecCcccc-------ccCChHHHHHHHH
Q psy4830 75 FTTKQNLEVHMRTHTGERPYQCEVCNK-------RFSQKSSLNTHKR 114 (292)
Q Consensus 75 f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~ 114 (292)
|.+...|..|++..+. .|-+|++ -|.+..+|..|.+
T Consensus 230 FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 230 FYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred ecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhh
Confidence 7777777777765442 3444443 3566666776654
No 64
>KOG2893|consensus
Probab=94.59 E-value=0.013 Score=44.38 Aligned_cols=46 Identities=24% Similarity=0.585 Sum_probs=35.1
Q ss_pred cccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhh-hccc
Q psy4830 187 QCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSH-RWSH 236 (292)
Q Consensus 187 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H-~~~h 236 (292)
.|-+|++.|....-|.+|++. +-|+|.+|-|...+-..|..| |.+|
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 488888888888888888764 458888888887777777777 3444
No 65
>KOG4173|consensus
Probab=94.27 E-value=0.016 Score=42.82 Aligned_cols=85 Identities=21% Similarity=0.515 Sum_probs=64.6
Q ss_pred CCccccc--cccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhcc----------ccCCcceeCC--cccc
Q psy4830 184 RPFQCAV--CSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWS----------HVGDKPFGCT--SCHL 249 (292)
Q Consensus 184 ~~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~----------h~~~~~~~C~--~C~~ 249 (292)
..|.|++ |...|.....+..|..+-++. .|..|.+.|.+...|..|+.. -.|...|.|- .|+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4577876 778898888888886554442 699999999999999988642 2356679994 4999
Q ss_pred ccCChhHHHHHhhhhcCCCCCc
Q psy4830 250 TFTSKSQFAVHLRTHHTVGANH 271 (292)
Q Consensus 250 ~f~~~~~L~~H~~~hh~~~~~~ 271 (292)
.|.+...-+.|+-..|.-...|
T Consensus 155 KFkT~r~RkdH~I~~Hk~Pa~f 176 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHKYPADF 176 (253)
T ss_pred hhhhhhhhhhHHHHhccCCcce
Confidence 9999999999987666544443
No 66
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.20 E-value=0.092 Score=35.34 Aligned_cols=79 Identities=19% Similarity=0.439 Sum_probs=39.6
Q ss_pred CCcccccchhhcCChhHHHHHHhhcCCC------------cceecccccccCCChhHHHHHHHhcCCCCceecCcccccc
Q psy4830 36 RPFQCVVCLKRFSQKSALNTHKRMHIPY------------IQYYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRF 103 (292)
Q Consensus 36 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 103 (292)
-|..|++||-..-....|.+----=.+. ....|-.|...|........ ..-.....|.|+.|...|
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~F 91 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVF 91 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCcc
Confidence 4566777776666665555431100000 11237777777765421110 001123357777777777
Q ss_pred CChHHHHHHHHHh
Q psy4830 104 SQKSSLNTHKRIH 116 (292)
Q Consensus 104 ~~~~~l~~H~~~h 116 (292)
-..-..-.|...|
T Consensus 92 C~dCD~fiHe~Lh 104 (112)
T TIGR00622 92 CVDCDVFVHESLH 104 (112)
T ss_pred ccccchhhhhhcc
Confidence 7666666665543
No 67
>KOG2482|consensus
Probab=93.62 E-value=0.058 Score=43.35 Aligned_cols=105 Identities=24% Similarity=0.415 Sum_probs=66.9
Q ss_pred CccccccccccCCchHHHHHHhh--hcCCCCcccccccccc------ccchhhhhhh----ccc---------------c
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRV--HTGERPYACDICDKRF------AVKSYVTSHR----WSH---------------V 237 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~--h~~~~~~~C~~C~k~f------~~~~~L~~H~----~~h---------------~ 237 (292)
.+.|-.|.+.|+.+..|+.||+. |..-.|-. ..=++-| ..++.+..|. .+- .
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPkn-reYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed 273 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKN-REYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNED 273 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCc-cccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcC
Confidence 47899999999999999999975 32211100 0001101 0011111111 000 1
Q ss_pred CCcc--eeCCccccccCChhHHHHHhhhhcCCC--------------------------CCcccCCCCCCccChHHHHhh
Q psy4830 238 GDKP--FGCTSCHLTFTSKSQFAVHLRTHHTVG--------------------------ANHVCNVCGRSFVRDSYLIRH 289 (292)
Q Consensus 238 ~~~~--~~C~~C~~~f~~~~~L~~H~~~hh~~~--------------------------~~~~C~~C~~~f~~~~~l~~H 289 (292)
+..+ .+|-.|....-+...|..||++.|.-+ ..-.|..|+-.|.....|..|
T Consensus 274 ~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~h 353 (423)
T KOG2482|consen 274 DAEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIH 353 (423)
T ss_pred CCCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhh
Confidence 1123 589999999999999999999887311 123599999999999999999
Q ss_pred h
Q psy4830 290 Q 290 (292)
Q Consensus 290 ~ 290 (292)
|
T Consensus 354 m 354 (423)
T KOG2482|consen 354 M 354 (423)
T ss_pred c
Confidence 8
No 68
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.09 E-value=0.3 Score=32.97 Aligned_cols=84 Identities=20% Similarity=0.370 Sum_probs=55.1
Q ss_pred CCCccccccccccCCchHHHHHHhhhc--------------CCCCccccccccccccchhhhhhhccccCCcceeCCccc
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHT--------------GERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCH 248 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~--------------~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~ 248 (292)
+-|..|++||-+......|.+-. |+ ....-.|--|+..|........ ..-.....|.|+.|.
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCK 88 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCC
Confidence 35788999999999888887742 21 0111248888888876532110 001223478899999
Q ss_pred cccCChhHHHHHhhhhcCCCCCcccCCCC
Q psy4830 249 LTFTSKSQFAVHLRTHHTVGANHVCNVCG 277 (292)
Q Consensus 249 ~~f~~~~~L~~H~~~hh~~~~~~~C~~C~ 277 (292)
..|-..-+.-.|...| .|+-|.
T Consensus 89 ~~FC~dCD~fiHe~Lh-------~CPGC~ 110 (112)
T TIGR00622 89 NVFCVDCDVFVHESLH-------CCPGCI 110 (112)
T ss_pred Cccccccchhhhhhcc-------CCcCCC
Confidence 9998888888887664 377665
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.81 E-value=0.054 Score=30.80 Aligned_cols=32 Identities=19% Similarity=0.575 Sum_probs=25.1
Q ss_pred cccCCcceeCCccccccCChhHHHHHhhhhcC
Q psy4830 235 SHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHT 266 (292)
Q Consensus 235 ~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~ 266 (292)
.-.||.-+.||-||..|....++.+|....|.
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 34567778899999999988888888876653
No 70
>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=92.63 E-value=0.11 Score=26.78 Aligned_cols=26 Identities=23% Similarity=0.654 Sum_probs=15.6
Q ss_pred ceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCCCC
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCGRS 279 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~~~ 279 (292)
.|.|.+||..+... ..|-.|++||..
T Consensus 2 ~~~C~~CG~i~~g~-------------~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGE-------------EAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECC-------------cCCCcCcCCCCc
Confidence 36777777655331 245677777763
No 71
>KOG2893|consensus
Probab=92.61 E-value=0.034 Score=42.18 Aligned_cols=46 Identities=26% Similarity=0.567 Sum_probs=38.9
Q ss_pred ccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhc
Q psy4830 216 CDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 216 C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
|-+|++.|.....|.+|++ .|.|+|.+|.|...+--.|..|-...|
T Consensus 13 cwycnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhh
Confidence 9999999999999999876 467999999999988888888854433
No 72
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=92.31 E-value=0.058 Score=41.59 Aligned_cols=13 Identities=15% Similarity=0.496 Sum_probs=9.5
Q ss_pred eeCCccccccCCh
Q psy4830 242 FGCTSCHLTFTSK 254 (292)
Q Consensus 242 ~~C~~C~~~f~~~ 254 (292)
..||.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4688888877654
No 73
>KOG4173|consensus
Probab=92.13 E-value=0.041 Score=40.78 Aligned_cols=76 Identities=21% Similarity=0.425 Sum_probs=61.1
Q ss_pred CCccccc--cccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhcC---------CCCCcccCC--CCC
Q psy4830 212 RPYACDI--CDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHT---------VGANHVCNV--CGR 278 (292)
Q Consensus 212 ~~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~---------~~~~~~C~~--C~~ 278 (292)
..|.|++ |...|........|-.+-++. .|.+|.+.|.+.--|..|+..-|. +...|+|-+ |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4578887 888999988888887554442 799999999999999999876552 334688965 999
Q ss_pred CccChHHHHhhh
Q psy4830 279 SFVRDSYLIRHQ 290 (292)
Q Consensus 279 ~f~~~~~l~~H~ 290 (292)
.|.+...-..||
T Consensus 155 KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 155 KFKTSRDRKDHM 166 (253)
T ss_pred hhhhhhhhhhHH
Confidence 999999988886
No 74
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=91.85 E-value=0.12 Score=34.77 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=6.2
Q ss_pred ceeCCccccccCC
Q psy4830 241 PFGCTSCHLTFTS 253 (292)
Q Consensus 241 ~~~C~~C~~~f~~ 253 (292)
|-.||.||..|.-
T Consensus 26 PivCP~CG~~~~~ 38 (108)
T PF09538_consen 26 PIVCPKCGTEFPP 38 (108)
T ss_pred CccCCCCCCccCc
Confidence 4445555544443
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.68 E-value=0.098 Score=29.76 Aligned_cols=26 Identities=23% Similarity=0.489 Sum_probs=14.4
Q ss_pred CCCCccCCcchhhcCChhHHHHHHhh
Q psy4830 6 GNKPYHCTACDASFCRKPYLEIHMRT 31 (292)
Q Consensus 6 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 31 (292)
|+--+.|+-|+..|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 44445566666666555555555543
No 76
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=91.25 E-value=0.2 Score=29.16 Aligned_cols=11 Identities=36% Similarity=0.757 Sum_probs=6.4
Q ss_pred CCCcccCCCCC
Q psy4830 268 GANHVCNVCGR 278 (292)
Q Consensus 268 ~~~~~C~~C~~ 278 (292)
+.+|.|+.||.
T Consensus 48 g~~Y~Cp~CGF 58 (61)
T COG2888 48 GNPYRCPKCGF 58 (61)
T ss_pred CCceECCCcCc
Confidence 35566666654
No 77
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=90.34 E-value=0.18 Score=26.75 Aligned_cols=11 Identities=27% Similarity=0.896 Sum_probs=5.1
Q ss_pred eCCccccccCC
Q psy4830 243 GCTSCHLTFTS 253 (292)
Q Consensus 243 ~C~~C~~~f~~ 253 (292)
.|+.|+..|.-
T Consensus 4 ~CP~C~~~~~v 14 (38)
T TIGR02098 4 QCPNCKTSFRV 14 (38)
T ss_pred ECCCCCCEEEe
Confidence 44555444443
No 78
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=89.95 E-value=0.25 Score=25.88 Aligned_cols=11 Identities=36% Similarity=0.975 Sum_probs=5.6
Q ss_pred CcccCCCCCCc
Q psy4830 270 NHVCNVCGRSF 280 (292)
Q Consensus 270 ~~~C~~C~~~f 280 (292)
..+|+.|+..|
T Consensus 25 ~v~C~~C~~~f 35 (36)
T PF13717_consen 25 KVRCSKCGHVF 35 (36)
T ss_pred EEECCCCCCEe
Confidence 44555555544
No 79
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=89.09 E-value=0.28 Score=35.77 Aligned_cols=10 Identities=50% Similarity=1.208 Sum_probs=5.4
Q ss_pred CCCcccCCCC
Q psy4830 268 GANHVCNVCG 277 (292)
Q Consensus 268 ~~~~~C~~C~ 277 (292)
+.|-+||+||
T Consensus 147 e~P~~CPiCg 156 (166)
T COG1592 147 EAPEVCPICG 156 (166)
T ss_pred CCCCcCCCCC
Confidence 4455555555
No 80
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=88.63 E-value=0.086 Score=40.68 Aligned_cols=44 Identities=27% Similarity=0.584 Sum_probs=31.2
Q ss_pred CCCccccccccccCCchHHHHHHhhh----------cCCCC-----ccccccccccccc
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVH----------TGERP-----YACDICDKRFAVK 226 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h----------~~~~~-----~~C~~C~k~f~~~ 226 (292)
++.+.||+|+..|.++.-+....++- .+..| ..||.||.+|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 35689999999999887666665431 12222 4699999988754
No 81
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=88.47 E-value=0.31 Score=27.15 Aligned_cols=10 Identities=20% Similarity=0.793 Sum_probs=5.0
Q ss_pred eeCCcccccc
Q psy4830 242 FGCTSCHLTF 251 (292)
Q Consensus 242 ~~C~~C~~~f 251 (292)
|.|+.||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4555555444
No 82
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=88.16 E-value=0.48 Score=26.15 Aligned_cols=27 Identities=22% Similarity=0.405 Sum_probs=15.2
Q ss_pred CCcceeCCccccccCCh----hHHHHHhhhh
Q psy4830 238 GDKPFGCTSCHLTFTSK----SQFAVHLRTH 264 (292)
Q Consensus 238 ~~~~~~C~~C~~~f~~~----~~L~~H~~~h 264 (292)
++....|..|++.+... ++|..|++..
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~ 43 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKKK 43 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHHT
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhhh
Confidence 34556788888777664 6788887543
No 83
>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=87.51 E-value=0.33 Score=23.29 Aligned_cols=8 Identities=38% Similarity=1.186 Sum_probs=3.2
Q ss_pred CCcccccc
Q psy4830 244 CTSCHLTF 251 (292)
Q Consensus 244 C~~C~~~f 251 (292)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444333
No 84
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=87.48 E-value=0.35 Score=32.64 Aligned_cols=30 Identities=23% Similarity=0.683 Sum_probs=19.0
Q ss_pred ccccccccccCCchHHHHHHhhhcCCCCccccccccccccc
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVK 226 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~ 226 (292)
..|+.||++|... +..|..|+.||..|...
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4677777777542 23566677777777655
No 85
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=87.41 E-value=0.31 Score=36.34 Aligned_cols=17 Identities=24% Similarity=0.575 Sum_probs=9.1
Q ss_pred Cccccccccccccchhh
Q psy4830 213 PYACDICDKRFAVKSYV 229 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L 229 (292)
-|.|+.|+.+|+...++
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 45555555555555444
No 86
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=86.80 E-value=0.6 Score=34.10 Aligned_cols=17 Identities=18% Similarity=0.305 Sum_probs=8.5
Q ss_pred Cccccccccccccchhh
Q psy4830 213 PYACDICDKRFAVKSYV 229 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L 229 (292)
-|.|+.|+.+|+...++
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 34555555555544444
No 87
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=86.54 E-value=0.55 Score=32.28 Aligned_cols=30 Identities=13% Similarity=0.165 Sum_probs=16.0
Q ss_pred ccccccccccccchhhhhhhccccCCcceeCCccccccCCh
Q psy4830 214 YACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 214 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 254 (292)
..|+.||++|... +..|-.|+.||..|...
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 3566666666432 22455666666665444
No 88
>KOG2186|consensus
Probab=86.38 E-value=0.4 Score=37.10 Aligned_cols=45 Identities=22% Similarity=0.517 Sum_probs=21.9
Q ss_pred ccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhh
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHR 233 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~ 233 (292)
|.|.+||....- ..|.+|+..-++ .-|.|-.|++.|.. .....|.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 455555555432 344445544444 34555555555555 3334443
No 89
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=86.22 E-value=0.31 Score=35.27 Aligned_cols=12 Identities=33% Similarity=0.725 Sum_probs=5.9
Q ss_pred eeCCccccccCC
Q psy4830 242 FGCTSCHLTFTS 253 (292)
Q Consensus 242 ~~C~~C~~~f~~ 253 (292)
++|+.||++|.+
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 445555555544
No 90
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=86.13 E-value=0.34 Score=33.50 Aligned_cols=13 Identities=54% Similarity=0.963 Sum_probs=7.4
Q ss_pred ccCCCCCCccChH
Q psy4830 272 VCNVCGRSFVRDS 284 (292)
Q Consensus 272 ~C~~C~~~f~~~~ 284 (292)
+||+|.-+|++.+
T Consensus 123 vCPvCkTSFKss~ 135 (140)
T PF05290_consen 123 VCPVCKTSFKSSS 135 (140)
T ss_pred CCCcccccccccc
Confidence 3666666665543
No 91
>KOG2482|consensus
Probab=85.97 E-value=0.91 Score=36.85 Aligned_cols=139 Identities=19% Similarity=0.362 Sum_probs=80.5
Q ss_pred CccCCcchhhcC-ChhHHHHHHhhhcC----------------------CCCcccccchhhcCChhHHHHHHhhc--CCC
Q psy4830 9 PYHCTACDASFC-RKPYLEIHMRTHTG----------------------ERPFQCVVCLKRFSQKSALNTHKRMH--IPY 63 (292)
Q Consensus 9 ~~~C~~C~~~f~-~~~~l~~H~~~h~~----------------------~~~~~C~~C~~~f~~~~~l~~H~~~h--~~~ 63 (292)
...|-.|...+. +++....|+-.-++ -..+.|-.|.+.|+++..|+.||+.. ...
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrri 223 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRI 223 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCccc
Confidence 346888877654 45566666643221 02378999999999999999999753 211
Q ss_pred cc--------eecc--cccccCCCh-hHHHHHHHhc--C-------------CCCc--eecCccccccCChHHHHHHHHH
Q psy4830 64 IQ--------YYCD--ACDATFTTK-QNLEVHMRTH--T-------------GERP--YQCEVCNKRFSQKSSLNTHKRI 115 (292)
Q Consensus 64 ~~--------~~C~--~C~~~f~~~-~~l~~H~~~h--~-------------~~~~--~~C~~C~~~f~~~~~l~~H~~~ 115 (292)
.| |.-. .=|++.... ..+. +.+- . +..+ ..|-.|.....+...|..||++
T Consensus 224 nPknreYDkfyiINY~ev~ks~t~~~~e~d--ret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~ 301 (423)
T KOG2482|consen 224 NPKNREYDKFYIINYLEVGKSWTIVHSEDD--RETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKI 301 (423)
T ss_pred CCCccccceEEEEeHhhcCCccchhhhhhh--hhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHH
Confidence 11 1100 111211111 1110 1110 0 1122 5899999888888899999876
Q ss_pred hhcc----------------------cCCCCCCccCCCchhhhchhHHHhhhhhhh
Q psy4830 116 HINY----------------------LHTEDKPYHCTGCDAAFSRKQYLEVNHTTV 149 (292)
Q Consensus 116 h~~~----------------------~~~~~~~~~C~~C~~~f~~~~~l~~~~~~~ 149 (292)
-+.. .........|-.|+-.|..+..|..|+...
T Consensus 302 vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 302 VHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 4321 111122346889999999999888877543
No 92
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=85.85 E-value=0.62 Score=25.67 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=5.4
Q ss_pred ccccccccccc
Q psy4830 214 YACDICDKRFA 224 (292)
Q Consensus 214 ~~C~~C~k~f~ 224 (292)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555555443
No 93
>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=85.41 E-value=0.75 Score=22.05 Aligned_cols=19 Identities=21% Similarity=0.511 Sum_probs=11.7
Q ss_pred eCCccccccCChhHHHHHhh
Q psy4830 243 GCTSCHLTFTSKSQFAVHLR 262 (292)
Q Consensus 243 ~C~~C~~~f~~~~~L~~H~~ 262 (292)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466676666 4456666654
No 94
>PHA00626 hypothetical protein
Probab=85.15 E-value=0.44 Score=27.30 Aligned_cols=14 Identities=14% Similarity=0.496 Sum_probs=8.7
Q ss_pred cceeCCccccccCC
Q psy4830 240 KPFGCTSCHLTFTS 253 (292)
Q Consensus 240 ~~~~C~~C~~~f~~ 253 (292)
..|+|+.||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 45666666666654
No 95
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=85.11 E-value=0.46 Score=34.69 Aligned_cols=11 Identities=36% Similarity=0.884 Sum_probs=6.0
Q ss_pred CCcceeCCccc
Q psy4830 238 GDKPFGCTSCH 248 (292)
Q Consensus 238 ~~~~~~C~~C~ 248 (292)
|+.|-+||+||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 44555555555
No 96
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=85.05 E-value=0.78 Score=26.82 Aligned_cols=10 Identities=30% Similarity=0.680 Sum_probs=6.2
Q ss_pred CCcccCCCCC
Q psy4830 269 ANHVCNVCGR 278 (292)
Q Consensus 269 ~~~~C~~C~~ 278 (292)
.+|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4566666664
No 97
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=85.00 E-value=0.79 Score=24.14 Aligned_cols=10 Identities=30% Similarity=0.906 Sum_probs=4.1
Q ss_pred eecCcccccc
Q psy4830 94 YQCEVCNKRF 103 (292)
Q Consensus 94 ~~C~~C~~~f 103 (292)
.+|+.|+..|
T Consensus 26 vrC~~C~~~f 35 (37)
T PF13719_consen 26 VRCPKCGHVF 35 (37)
T ss_pred EECCCCCcEe
Confidence 3444444333
No 98
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=84.80 E-value=0.93 Score=32.70 Aligned_cols=15 Identities=20% Similarity=0.698 Sum_probs=7.6
Q ss_pred Cccccccccccccch
Q psy4830 213 PYACDICDKRFAVKS 227 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~ 227 (292)
-|.|+.|+..|....
T Consensus 99 ~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 99 YYKCPNCQSKYTFLE 113 (147)
T ss_pred EEECcCCCCEeeHHH
Confidence 455555555555433
No 99
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=84.59 E-value=0.92 Score=32.72 Aligned_cols=14 Identities=21% Similarity=0.762 Sum_probs=7.5
Q ss_pred CCccccccccccCC
Q psy4830 184 RPFQCAVCSKRFTQ 197 (292)
Q Consensus 184 ~~~~C~~C~k~f~~ 197 (292)
..|.|+.|+..|..
T Consensus 98 ~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 98 AYYKCPNCQSKYTF 111 (147)
T ss_pred cEEECcCCCCEeeH
Confidence 34555555555554
No 100
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=84.40 E-value=1.1 Score=30.40 Aligned_cols=25 Identities=28% Similarity=0.571 Sum_probs=23.2
Q ss_pred eeC----CccccccCChhHHHHHhhhhcC
Q psy4830 242 FGC----TSCHLTFTSKSQFAVHLRTHHT 266 (292)
Q Consensus 242 ~~C----~~C~~~f~~~~~L~~H~~~hh~ 266 (292)
|.| +.|+..+.+...+..|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998874
No 101
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=84.11 E-value=0.36 Score=26.00 Aligned_cols=10 Identities=40% Similarity=1.122 Sum_probs=4.1
Q ss_pred eeCCcccccc
Q psy4830 242 FGCTSCHLTF 251 (292)
Q Consensus 242 ~~C~~C~~~f 251 (292)
|.|+.||..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 3444444433
No 102
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=83.95 E-value=0.36 Score=27.67 Aligned_cols=9 Identities=44% Similarity=1.401 Sum_probs=3.4
Q ss_pred ccccccccc
Q psy4830 187 QCAVCSKRF 195 (292)
Q Consensus 187 ~C~~C~k~f 195 (292)
.|..||..|
T Consensus 7 ~C~~Cg~~f 15 (52)
T TIGR02605 7 RCTACGHRF 15 (52)
T ss_pred EeCCCCCEe
Confidence 333333333
No 103
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=82.70 E-value=0.76 Score=34.32 Aligned_cols=36 Identities=22% Similarity=0.530 Sum_probs=28.3
Q ss_pred CCCCCccccccccccCCchHHHHHHhhhcCCCCcccccccccccc
Q psy4830 181 TGERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAV 225 (292)
Q Consensus 181 ~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~ 225 (292)
....-|.|+.|+..|+....+. .-|.|+.||.....
T Consensus 113 ~~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred cCCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 3446799999999999887763 36999999986543
No 104
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=82.57 E-value=1 Score=32.86 Aligned_cols=30 Identities=20% Similarity=0.526 Sum_probs=15.3
Q ss_pred cceecccccccCCChhHHHHHHHhcCCCCceecCccccc
Q psy4830 64 IQYYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKR 102 (292)
Q Consensus 64 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 102 (292)
.-|.|+.|+..|+....+. ..|.|+.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 3455555555555554443 13556666554
No 105
>KOG2186|consensus
Probab=80.57 E-value=1.5 Score=34.08 Aligned_cols=45 Identities=24% Similarity=0.616 Sum_probs=20.3
Q ss_pred eecccccccCCChhHHHHHHHhcCCCCceecCccccccCChHHHHHHH
Q psy4830 66 YYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKRFSQKSSLNTHK 113 (292)
Q Consensus 66 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 113 (292)
|.|..||..... ..+.+|+..-.+ ..|.|-.|++.|.. .++..|.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 445555544332 233445544444 33555555555544 3344443
No 106
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=80.42 E-value=1.5 Score=24.88 Aligned_cols=23 Identities=26% Similarity=0.489 Sum_probs=16.0
Q ss_pred ceeCCccccccCCh-----hHHHHHhhh
Q psy4830 241 PFGCTSCHLTFTSK-----SQFAVHLRT 263 (292)
Q Consensus 241 ~~~C~~C~~~f~~~-----~~L~~H~~~ 263 (292)
.-.|..|++.++.. ++|.+|++.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 35677777777654 578888773
No 107
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=79.93 E-value=0.69 Score=28.55 Aligned_cols=14 Identities=29% Similarity=0.747 Sum_probs=6.3
Q ss_pred cceeCC--ccccccCC
Q psy4830 240 KPFGCT--SCHLTFTS 253 (292)
Q Consensus 240 ~~~~C~--~C~~~f~~ 253 (292)
.-+.|. .||.+|..
T Consensus 26 ~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 26 RYHQCQNVNCSATFIT 41 (72)
T ss_pred eeeecCCCCCCCEEEE
Confidence 334444 44444443
No 108
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=79.82 E-value=1.6 Score=22.11 Aligned_cols=11 Identities=18% Similarity=0.606 Sum_probs=4.9
Q ss_pred eeCCccccccC
Q psy4830 242 FGCTSCHLTFT 252 (292)
Q Consensus 242 ~~C~~C~~~f~ 252 (292)
|.|..||..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 34555554443
No 109
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=79.69 E-value=1.5 Score=30.22 Aligned_cols=35 Identities=14% Similarity=0.279 Sum_probs=26.8
Q ss_pred CccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhh
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVT 230 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~ 230 (292)
...|+.||++|... +..|..|+.||..|.....++
T Consensus 9 Kr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCcccccc-----------CCCCccCCCcCCccCcchhhc
Confidence 35799999999753 346899999999987664443
No 110
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=79.67 E-value=0.89 Score=24.74 Aligned_cols=12 Identities=33% Similarity=1.013 Sum_probs=9.8
Q ss_pred CccCCCchhhhc
Q psy4830 126 PYHCTGCDAAFS 137 (292)
Q Consensus 126 ~~~C~~C~~~f~ 137 (292)
.|.|..||..|.
T Consensus 5 ey~C~~Cg~~fe 16 (42)
T PF09723_consen 5 EYRCEECGHEFE 16 (42)
T ss_pred EEEeCCCCCEEE
Confidence 378999998885
No 111
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=79.34 E-value=0.99 Score=25.39 Aligned_cols=10 Identities=30% Similarity=1.119 Sum_probs=3.8
Q ss_pred cccccccccc
Q psy4830 186 FQCAVCSKRF 195 (292)
Q Consensus 186 ~~C~~C~k~f 195 (292)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 3333333333
No 112
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=77.90 E-value=1.4 Score=30.94 Aligned_cols=24 Identities=38% Similarity=0.677 Sum_probs=15.2
Q ss_pred cceeCCccccccCChhHHHHHhhhhcC
Q psy4830 240 KPFGCTSCHLTFTSKSQFAVHLRTHHT 266 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~~H~~~hh~ 266 (292)
.-..|-+||+.|.. |++|++.||+
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-
T ss_pred CeeEEccCCcccch---HHHHHHHccC
Confidence 34689999998866 5899999865
No 113
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=77.68 E-value=0.6 Score=36.28 Aligned_cols=13 Identities=38% Similarity=0.897 Sum_probs=7.8
Q ss_pred cCCCCcccccchh
Q psy4830 33 TGERPFQCVVCLK 45 (292)
Q Consensus 33 ~~~~~~~C~~C~~ 45 (292)
+|.+.|+|.+|..
T Consensus 138 hGGrif~CsfC~~ 150 (314)
T PF06524_consen 138 HGGRIFKCSFCDN 150 (314)
T ss_pred CCCeEEEeecCCC
Confidence 3556666666654
No 114
>KOG2807|consensus
Probab=76.69 E-value=3.9 Score=33.15 Aligned_cols=18 Identities=22% Similarity=0.525 Sum_probs=9.6
Q ss_pred ceecccccccCCChhHHH
Q psy4830 65 QYYCDACDATFTTKQNLE 82 (292)
Q Consensus 65 ~~~C~~C~~~f~~~~~l~ 82 (292)
|-.|++|+-+......|.
T Consensus 290 P~eCpiC~ltLVss~hLA 307 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLA 307 (378)
T ss_pred CccCCccceeEecchHHH
Confidence 445666655555554444
No 115
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=76.11 E-value=1.1 Score=22.32 Aligned_cols=9 Identities=44% Similarity=0.936 Sum_probs=4.5
Q ss_pred CCcccCCCC
Q psy4830 269 ANHVCNVCG 277 (292)
Q Consensus 269 ~~~~C~~C~ 277 (292)
..|.|+.|+
T Consensus 18 ~~~vCp~C~ 26 (30)
T PF08274_consen 18 ELLVCPECG 26 (30)
T ss_dssp SSEEETTTT
T ss_pred CEEeCCccc
Confidence 345555554
No 116
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=76.08 E-value=1.6 Score=27.82 Aligned_cols=32 Identities=16% Similarity=0.512 Sum_probs=18.3
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
.+|.|+.|++. .+.++ +..-+.|..||..|.-
T Consensus 34 ~~~~Cp~C~~~--------~VkR~--a~GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRT--------TVKRI--ATGIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCc--------ceeee--ccCeEEcCCCCCeecc
Confidence 35777777764 12222 2335677777777753
No 117
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=76.00 E-value=2.7 Score=38.76 Aligned_cols=13 Identities=23% Similarity=0.560 Sum_probs=8.0
Q ss_pred CCCCcccCCCCCC
Q psy4830 267 VGANHVCNVCGRS 279 (292)
Q Consensus 267 ~~~~~~C~~C~~~ 279 (292)
...|..|+.||-.
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 3456677777654
No 118
>PRK04023 DNA polymerase II large subunit; Validated
Probab=75.42 E-value=3.4 Score=39.08 Aligned_cols=50 Identities=22% Similarity=0.596 Sum_probs=32.3
Q ss_pred CCccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhh
Q psy4830 184 RPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
....|+.||... -.+.|+.||.. .+..+.|+.|+..
T Consensus 625 g~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~~------------- 660 (1121)
T PRK04023 625 GRRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGIE------------- 660 (1121)
T ss_pred cCccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccCc-------------
Confidence 346789998863 23678888865 2445778888421
Q ss_pred hcCCCCCcccCCCCCCcc
Q psy4830 264 HHTVGANHVCNVCGRSFV 281 (292)
Q Consensus 264 hh~~~~~~~C~~C~~~f~ 281 (292)
..++.|+.||..-.
T Consensus 661 ----~~~y~CPKCG~El~ 674 (1121)
T PRK04023 661 ----VEEDECEKCGREPT 674 (1121)
T ss_pred ----CCCCcCCCCCCCCC
Confidence 23466888886543
No 119
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=74.94 E-value=2.4 Score=33.14 Aligned_cols=25 Identities=24% Similarity=0.619 Sum_probs=12.5
Q ss_pred cceeCCccccccCChhHHHHHhhhh
Q psy4830 240 KPFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
++++||.||.....-.+|..-.|+|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCcccccccceeeeecc
Confidence 4555555555555555554444443
No 120
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=74.67 E-value=2.5 Score=28.66 Aligned_cols=26 Identities=23% Similarity=0.364 Sum_probs=23.3
Q ss_pred Cccc----cccccccccchhhhhhhccccC
Q psy4830 213 PYAC----DICDKRFAVKSYVTSHRWSHVG 238 (292)
Q Consensus 213 ~~~C----~~C~k~f~~~~~L~~H~~~h~~ 238 (292)
-|.| +.|+..+.+...+..|.+.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3899 9999999999999999987764
No 121
>KOG2071|consensus
Probab=74.00 E-value=2.9 Score=36.91 Aligned_cols=28 Identities=32% Similarity=0.691 Sum_probs=22.5
Q ss_pred CCceecCccccccCChHHHHHHHHHhhc
Q psy4830 91 ERPYQCEVCNKRFSQKSSLNTHKRIHIN 118 (292)
Q Consensus 91 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 118 (292)
..+..|..||..|........||.+|..
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhh
Confidence 4567899999999988888888877753
No 122
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=73.81 E-value=2.9 Score=24.61 Aligned_cols=21 Identities=24% Similarity=0.619 Sum_probs=9.7
Q ss_pred hhHHHHHHHhcCCCCceecCc
Q psy4830 78 KQNLEVHMRTHTGERPYQCEV 98 (292)
Q Consensus 78 ~~~l~~H~~~h~~~~~~~C~~ 98 (292)
+..|..|+...-..++..|+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHHccCCCCcEECCC
Confidence 334555555444444455555
No 123
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=73.71 E-value=3.3 Score=33.26 Aligned_cols=23 Identities=30% Similarity=0.797 Sum_probs=11.7
Q ss_pred ceecCccccccCChHHHHHHHHH
Q psy4830 93 PYQCEVCNKRFSQKSSLNTHKRI 115 (292)
Q Consensus 93 ~~~C~~C~~~f~~~~~l~~H~~~ 115 (292)
.|.|+.|...|-.--..-.|...
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHH
Confidence 35555555555554444444443
No 124
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=73.49 E-value=1.7 Score=20.32 Aligned_cols=8 Identities=50% Similarity=1.481 Sum_probs=4.9
Q ss_pred ceeCCccc
Q psy4830 241 PFGCTSCH 248 (292)
Q Consensus 241 ~~~C~~C~ 248 (292)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 46666665
No 125
>PF14353 CpXC: CpXC protein
Probab=72.96 E-value=0.79 Score=32.18 Aligned_cols=19 Identities=21% Similarity=0.677 Sum_probs=9.7
Q ss_pred ccccccccccccchhhhhh
Q psy4830 214 YACDICDKRFAVKSYVTSH 232 (292)
Q Consensus 214 ~~C~~C~k~f~~~~~L~~H 232 (292)
|.|+.||..|.-...+.-|
T Consensus 39 ~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EECCCCCCceecCCCEEEE
Confidence 4555555555544444443
No 126
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.08 E-value=2.6 Score=28.04 Aligned_cols=12 Identities=8% Similarity=0.188 Sum_probs=6.4
Q ss_pred cceeCCcccccc
Q psy4830 240 KPFGCTSCHLTF 251 (292)
Q Consensus 240 ~~~~C~~C~~~f 251 (292)
.|..|+.||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 345555555555
No 127
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=71.11 E-value=0.93 Score=29.61 Aligned_cols=11 Identities=55% Similarity=1.074 Sum_probs=5.7
Q ss_pred cccCCCCCCcc
Q psy4830 271 HVCNVCGRSFV 281 (292)
Q Consensus 271 ~~C~~C~~~f~ 281 (292)
-.|.+||.+|.
T Consensus 47 ~~Cg~CGls~e 57 (104)
T COG4888 47 AVCGNCGLSFE 57 (104)
T ss_pred EEcccCcceEE
Confidence 34555555553
No 128
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=70.72 E-value=6.1 Score=32.42 Aligned_cols=22 Identities=23% Similarity=0.526 Sum_probs=16.4
Q ss_pred ceecCccccccCChHHHHHHHH
Q psy4830 93 PYQCEVCNKRFSQKSSLNTHKR 114 (292)
Q Consensus 93 ~~~C~~C~~~f~~~~~l~~H~~ 114 (292)
.+-|+.|++-|.....+..|+.
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHHh
Confidence 3568888888887777777764
No 129
>PF12907 zf-met2: Zinc-binding
Probab=69.82 E-value=2.8 Score=22.52 Aligned_cols=27 Identities=26% Similarity=0.516 Sum_probs=15.6
Q ss_pred eeCCccccccC---ChhHHHHHhhhhcCCC
Q psy4830 242 FGCTSCHLTFT---SKSQFAVHLRTHHTVG 268 (292)
Q Consensus 242 ~~C~~C~~~f~---~~~~L~~H~~~hh~~~ 268 (292)
+.|.+|-.+|. +...|..|....|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 45667764443 3455777766656543
No 130
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=68.76 E-value=2.4 Score=22.19 Aligned_cols=9 Identities=22% Similarity=0.944 Sum_probs=4.6
Q ss_pred ccccccccc
Q psy4830 187 QCAVCSKRF 195 (292)
Q Consensus 187 ~C~~C~k~f 195 (292)
.|+.||+.|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 355555554
No 131
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=67.16 E-value=6.1 Score=31.83 Aligned_cols=47 Identities=21% Similarity=0.463 Sum_probs=24.9
Q ss_pred ccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhh
Q psy4830 216 CDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 216 C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
|-.|.-.|+....-..- .-+....|.|+.|...|-.--+.-.|...|
T Consensus 365 Cf~CQ~~fp~~~~~~~~--~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQGPFPKPPVSPFD--ESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceeccCCCCCCCCCccc--ccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 66666666543211100 011223577777777777777766665554
No 132
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=66.88 E-value=1.2 Score=27.54 Aligned_cols=14 Identities=14% Similarity=0.470 Sum_probs=5.4
Q ss_pred Cccccccccccccc
Q psy4830 213 PYACDICDKRFAVK 226 (292)
Q Consensus 213 ~~~C~~C~k~f~~~ 226 (292)
...|..|+..++..
T Consensus 41 ~v~Cg~C~~~~~~~ 54 (71)
T PF05495_consen 41 RVICGKCRTEQPID 54 (71)
T ss_dssp EEEETTT--EEES-
T ss_pred CeECCCCCCccChh
Confidence 44455555544443
No 133
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=66.58 E-value=2.6 Score=24.41 Aligned_cols=10 Identities=20% Similarity=0.823 Sum_probs=5.2
Q ss_pred cccccccccc
Q psy4830 214 YACDICDKRF 223 (292)
Q Consensus 214 ~~C~~C~k~f 223 (292)
+.|+.||..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 3455555544
No 134
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=66.33 E-value=3.7 Score=28.61 Aligned_cols=12 Identities=33% Similarity=0.927 Sum_probs=5.5
Q ss_pred ccccccccccCC
Q psy4830 186 FQCAVCSKRFTQ 197 (292)
Q Consensus 186 ~~C~~C~k~f~~ 197 (292)
++|..||+.|..
T Consensus 2 H~Ct~Cg~~f~d 13 (131)
T PF09845_consen 2 HQCTKCGRVFED 13 (131)
T ss_pred cccCcCCCCcCC
Confidence 344444444443
No 135
>PF15269 zf-C2H2_7: Zinc-finger
Probab=65.93 E-value=4 Score=22.19 Aligned_cols=20 Identities=30% Similarity=0.687 Sum_probs=9.3
Q ss_pred eeCCccccccCChhHHHHHh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHL 261 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~ 261 (292)
|+|-.|+.+...++.|-.||
T Consensus 21 ykcfqcpftc~~kshl~nhm 40 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHM 40 (54)
T ss_pred ceeecCCcccchHHHHHHHH
Confidence 44444444444444444443
No 136
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=65.88 E-value=9.5 Score=21.11 Aligned_cols=9 Identities=22% Similarity=0.995 Sum_probs=4.0
Q ss_pred cceeCCccc
Q psy4830 240 KPFGCTSCH 248 (292)
Q Consensus 240 ~~~~C~~C~ 248 (292)
..|.|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 344444443
No 137
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=64.83 E-value=4.5 Score=37.36 Aligned_cols=13 Identities=31% Similarity=0.769 Sum_probs=8.1
Q ss_pred CCCCccCCCchhh
Q psy4830 123 EDKPYHCTGCDAA 135 (292)
Q Consensus 123 ~~~~~~C~~C~~~ 135 (292)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4456667777654
No 138
>KOG4167|consensus
Probab=64.57 E-value=2.3 Score=38.41 Aligned_cols=24 Identities=29% Similarity=0.647 Sum_probs=12.0
Q ss_pred CccCCcchhhcCChhHHHHHHhhh
Q psy4830 9 PYHCTACDASFCRKPYLEIHMRTH 32 (292)
Q Consensus 9 ~~~C~~C~~~f~~~~~l~~H~~~h 32 (292)
.|.|.+|++.|....++..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 344555555555545555555544
No 139
>KOG4167|consensus
Probab=63.57 E-value=1.7 Score=39.16 Aligned_cols=25 Identities=28% Similarity=0.568 Sum_probs=23.4
Q ss_pred ceeCCccccccCChhHHHHHhhhhc
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
-|.|..|+|.|....++..||++|-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 5999999999999999999999984
No 140
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=63.33 E-value=4.9 Score=23.19 Aligned_cols=9 Identities=33% Similarity=0.910 Sum_probs=4.5
Q ss_pred eCCcccccc
Q psy4830 243 GCTSCHLTF 251 (292)
Q Consensus 243 ~C~~C~~~f 251 (292)
.|+.||+.|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 455555554
No 141
>KOG4124|consensus
Probab=62.58 E-value=1.6 Score=35.58 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=12.4
Q ss_pred CCcccCCCCCCccChHHHH
Q psy4830 269 ANHVCNVCGRSFVRDSYLI 287 (292)
Q Consensus 269 ~~~~C~~C~~~f~~~~~l~ 287 (292)
++|.|++|.++++....|.
T Consensus 397 k~~r~~i~~~~~k~~~~l~ 415 (442)
T KOG4124|consen 397 KPYRCEVCSKRYKNLNGLK 415 (442)
T ss_pred CcccChhhhhhhccCCCCC
Confidence 5677777777766655544
No 142
>KOG2593|consensus
Probab=62.32 E-value=8.4 Score=32.76 Aligned_cols=36 Identities=19% Similarity=0.534 Sum_probs=19.1
Q ss_pred CCCcccccchhhcCChhHHHHHHhhcCCCcceecccccc
Q psy4830 35 ERPFQCVVCLKRFSQKSALNTHKRMHIPYIQYYCDACDA 73 (292)
Q Consensus 35 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 73 (292)
...|.|+.|.+.|.....+.. +-.....|.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 345677777776665544432 122233566666654
No 143
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=61.34 E-value=6.5 Score=21.25 Aligned_cols=11 Identities=36% Similarity=0.833 Sum_probs=5.3
Q ss_pred CCccccccCCh
Q psy4830 244 CTSCHLTFTSK 254 (292)
Q Consensus 244 C~~C~~~f~~~ 254 (292)
|++||+.|+-+
T Consensus 11 C~~C~rpf~WR 21 (42)
T PF10013_consen 11 CPVCGRPFTWR 21 (42)
T ss_pred CcccCCcchHH
Confidence 44555544443
No 144
>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=61.02 E-value=3.9 Score=22.28 Aligned_cols=9 Identities=44% Similarity=0.918 Sum_probs=3.8
Q ss_pred cccCCCCCC
Q psy4830 271 HVCNVCGRS 279 (292)
Q Consensus 271 ~~C~~C~~~ 279 (292)
+.|+.||..
T Consensus 20 ~vC~~CG~V 28 (43)
T PF08271_consen 20 LVCPNCGLV 28 (43)
T ss_dssp EEETTT-BB
T ss_pred EECCCCCCE
Confidence 445555443
No 145
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=60.91 E-value=5.7 Score=25.53 Aligned_cols=27 Identities=33% Similarity=0.728 Sum_probs=17.9
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccc
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCH 248 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~ 248 (292)
+|-.|..||..|.... -.+|-.|+.|.
T Consensus 57 ~Pa~CkkCGfef~~~~----------ik~pSRCP~CK 83 (97)
T COG3357 57 RPARCKKCGFEFRDDK----------IKKPSRCPKCK 83 (97)
T ss_pred cChhhcccCccccccc----------cCCcccCCcch
Confidence 4677888888887521 13466788874
No 146
>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=60.28 E-value=5.7 Score=24.21 Aligned_cols=10 Identities=40% Similarity=1.361 Sum_probs=3.5
Q ss_pred cccccccccC
Q psy4830 187 QCAVCSKRFT 196 (292)
Q Consensus 187 ~C~~C~k~f~ 196 (292)
.|..|++.|.
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 4666666663
No 147
>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=59.41 E-value=8.7 Score=19.80 Aligned_cols=11 Identities=27% Similarity=0.776 Sum_probs=3.9
Q ss_pred eCCccccccCC
Q psy4830 243 GCTSCHLTFTS 253 (292)
Q Consensus 243 ~C~~C~~~f~~ 253 (292)
.|..|++.|..
T Consensus 5 ~C~eC~~~f~d 15 (34)
T PF01286_consen 5 KCDECGKPFMD 15 (34)
T ss_dssp E-TTT--EES-
T ss_pred hHhHhCCHHHH
Confidence 45555555554
No 148
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=58.95 E-value=7.2 Score=30.05 Aligned_cols=28 Identities=21% Similarity=0.571 Sum_probs=15.4
Q ss_pred CCccccccccccccchhhhhhhccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGD 239 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~ 239 (292)
..|.|++|+|.|.-..-..+|+...+.+
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 3466666666666666666666655554
No 149
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 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 C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=58.51 E-value=2.9 Score=20.43 Aligned_cols=17 Identities=41% Similarity=0.831 Sum_probs=7.7
Q ss_pred cccccccccCCchHHHHH
Q psy4830 187 QCAVCSKRFTQKSSLNTH 204 (292)
Q Consensus 187 ~C~~C~k~f~~~~~L~~H 204 (292)
.|-.|++.| .....+.|
T Consensus 2 sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EETTTTEEE-EGGGTTT-
T ss_pred eeecCCCCc-CcCCcCCC
Confidence 455555555 33344444
No 150
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=57.98 E-value=5.2 Score=21.48 Aligned_cols=10 Identities=30% Similarity=0.916 Sum_probs=5.0
Q ss_pred eeCCcccccc
Q psy4830 242 FGCTSCHLTF 251 (292)
Q Consensus 242 ~~C~~C~~~f 251 (292)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5555555443
No 151
>PRK04023 DNA polymerase II large subunit; Validated
Probab=57.30 E-value=8.6 Score=36.58 Aligned_cols=14 Identities=29% Similarity=0.828 Sum_probs=8.4
Q ss_pred cceeCCccccccCC
Q psy4830 240 KPFGCTSCHLTFTS 253 (292)
Q Consensus 240 ~~~~C~~C~~~f~~ 253 (292)
+.|.|..||..|.+
T Consensus 1036 Q~fRC~kC~~kYRR 1049 (1121)
T PRK04023 1036 QEFRCTKCGAKYRR 1049 (1121)
T ss_pred cceeecccCccccc
Confidence 34666666666644
No 152
>KOG2593|consensus
Probab=57.07 E-value=12 Score=31.80 Aligned_cols=38 Identities=21% Similarity=0.571 Sum_probs=22.7
Q ss_pred CCcceecccccccCCChhHHHHHHHhcCCCCceecCccccc
Q psy4830 62 PYIQYYCDACDATFTTKQNLEVHMRTHTGERPYQCEVCNKR 102 (292)
Q Consensus 62 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 102 (292)
....|.|+.|.+.|.....++ ..-.....|.|..|+-.
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred ccccccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 344577888887777655543 22233345777777643
No 153
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (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 eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=56.75 E-value=2.9 Score=22.31 Aligned_cols=10 Identities=20% Similarity=0.843 Sum_probs=5.8
Q ss_pred eeCCcccccc
Q psy4830 242 FGCTSCHLTF 251 (292)
Q Consensus 242 ~~C~~C~~~f 251 (292)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 5666666544
No 154
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=56.53 E-value=6.8 Score=27.29 Aligned_cols=22 Identities=27% Similarity=0.338 Sum_probs=17.0
Q ss_pred eeCCccccccCChhHHHHHhhhhcC
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHHT 266 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh~ 266 (292)
..|-.+|+.|. +|++|+.+|++
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccC
Confidence 57888888884 48888888764
No 155
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=55.49 E-value=14 Score=36.26 Aligned_cols=54 Identities=17% Similarity=0.497 Sum_probs=33.0
Q ss_pred CccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhh
Q psy4830 185 PFQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
.+.|+.||..-. ...|+.||... +.+|.|+.||.......
T Consensus 667 ~rkCPkCG~~t~----------------~~fCP~CGs~t---------------e~vy~CPsCGaev~~de--------- 706 (1337)
T PRK14714 667 RRRCPSCGTETY----------------ENRCPDCGTHT---------------EPVYVCPDCGAEVPPDE--------- 706 (1337)
T ss_pred EEECCCCCCccc----------------cccCcccCCcC---------------CCceeCccCCCccCCCc---------
Confidence 378999987321 12688888653 23578888887644311
Q ss_pred cCCCCCcccCCCCCCcc
Q psy4830 265 HTVGANHVCNVCGRSFV 281 (292)
Q Consensus 265 h~~~~~~~C~~C~~~f~ 281 (292)
+ . ...|+.|+....
T Consensus 707 -s-~-a~~CP~CGtplv 720 (1337)
T PRK14714 707 -S-G-RVECPRCDVELT 720 (1337)
T ss_pred -c-c-cccCCCCCCccc
Confidence 1 1 346888885443
No 156
>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=54.92 E-value=6.6 Score=22.42 Aligned_cols=19 Identities=32% Similarity=0.756 Sum_probs=5.3
Q ss_pred ccccccccccccchhhhhh
Q psy4830 214 YACDICDKRFAVKSYVTSH 232 (292)
Q Consensus 214 ~~C~~C~k~f~~~~~L~~H 232 (292)
|+|+.|...|=..-.+-.|
T Consensus 22 y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp E--TTTT--B-HHHHHTTT
T ss_pred EECCCCCCccccCcChhhh
Confidence 3333333333333333333
No 157
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=54.88 E-value=11 Score=21.82 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=8.4
Q ss_pred CcceeCCccccccC
Q psy4830 239 DKPFGCTSCHLTFT 252 (292)
Q Consensus 239 ~~~~~C~~C~~~f~ 252 (292)
.-.|.|+.||-.+.
T Consensus 12 ~v~~~Cp~cGipth 25 (55)
T PF13824_consen 12 HVNFECPDCGIPTH 25 (55)
T ss_pred ccCCcCCCCCCcCc
Confidence 34567777775544
No 158
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=54.77 E-value=10 Score=20.35 Aligned_cols=19 Identities=16% Similarity=0.270 Sum_probs=10.6
Q ss_pred cceeCCccccccCChhHHH
Q psy4830 240 KPFGCTSCHLTFTSKSQFA 258 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~ 258 (292)
..+.|+.|+-.+.....|.
T Consensus 18 ~id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 18 EIDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEEECCCCCeEEccHHHHH
Confidence 3455666665555555544
No 159
>KOG2636|consensus
Probab=54.72 E-value=8 Score=32.94 Aligned_cols=26 Identities=23% Similarity=0.508 Sum_probs=21.0
Q ss_pred cCCCCCcccCCCC-CCccChHHHHhhh
Q psy4830 265 HTVGANHVCNVCG-RSFVRDSYLIRHQ 290 (292)
Q Consensus 265 h~~~~~~~C~~C~-~~f~~~~~l~~H~ 290 (292)
|+.+..|.|.||| +++.-+..+.+|-
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHh
Confidence 4677889999998 8888888888774
No 160
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=54.36 E-value=5 Score=25.98 Aligned_cols=32 Identities=22% Similarity=0.531 Sum_probs=19.4
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
..|.|+.||+.-... .+...+.|..|++.|+-
T Consensus 35 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 35 AKYFCPFCGKHAVKR----------QAVGIWRCKGCKKTVAG 66 (90)
T ss_pred CCccCCCCCCCceee----------eeeEEEEcCCCCCEEeC
Confidence 467888887532111 12346788888887754
No 161
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=54.35 E-value=18 Score=26.16 Aligned_cols=41 Identities=27% Similarity=0.446 Sum_probs=17.4
Q ss_pred CCcceeCCccccccC------ChhHHHHHhhhh-cC----------CCCCcccCCCCC
Q psy4830 238 GDKPFGCTSCHLTFT------SKSQFAVHLRTH-HT----------VGANHVCNVCGR 278 (292)
Q Consensus 238 ~~~~~~C~~C~~~f~------~~~~L~~H~~~h-h~----------~~~~~~C~~C~~ 278 (292)
..-..+|..|++.|- +.+.+..|+..- |. ++...+|-.||-
T Consensus 11 p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 11 PSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred cccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 344456777776663 345556664322 21 234577888875
No 162
>KOG2807|consensus
Probab=53.99 E-value=25 Score=28.81 Aligned_cols=24 Identities=25% Similarity=0.562 Sum_probs=15.1
Q ss_pred ceeCCccccccCChhHHHHHhhhh
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
.|.|+.|...|-.--+.-.|-..|
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred cEEchhccceeeccchHHHHhhhh
Confidence 466777776676666666665443
No 163
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=53.38 E-value=8 Score=21.99 Aligned_cols=8 Identities=25% Similarity=0.928 Sum_probs=3.6
Q ss_pred cccccccc
Q psy4830 214 YACDICDK 221 (292)
Q Consensus 214 ~~C~~C~k 221 (292)
+.|..||.
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 44444443
No 164
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=51.76 E-value=4.9 Score=26.04 Aligned_cols=32 Identities=22% Similarity=0.595 Sum_probs=19.4
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
..|.|+.|++.-.. -.+...+.|..|++.|+-
T Consensus 34 a~y~CpfCgk~~vk----------R~a~GIW~C~~C~~~~AG 65 (91)
T TIGR00280 34 AKYVCPFCGKKTVK----------RGSTGIWTCRKCGAKFAG 65 (91)
T ss_pred cCccCCCCCCCceE----------EEeeEEEEcCCCCCEEeC
Confidence 46788888753211 112345788888887754
No 165
>KOG4124|consensus
Probab=51.74 E-value=4.6 Score=33.06 Aligned_cols=23 Identities=22% Similarity=0.648 Sum_probs=14.9
Q ss_pred CcceeCCccccccCChhHHHHHh
Q psy4830 239 DKPFGCTSCHLTFTSKSQFAVHL 261 (292)
Q Consensus 239 ~~~~~C~~C~~~f~~~~~L~~H~ 261 (292)
.|+|.|++|.+++.....|.-|.
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCcccChhhhhhhccCCCCCcee
Confidence 46677777777776666555553
No 166
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=51.58 E-value=18 Score=28.25 Aligned_cols=16 Identities=25% Similarity=0.688 Sum_probs=12.1
Q ss_pred CCccccccccccCCch
Q psy4830 184 RPFQCAVCSKRFTQKS 199 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~~ 199 (292)
..|.|+.|+..|....
T Consensus 154 aef~C~~C~h~F~G~~ 169 (278)
T PF15135_consen 154 AEFHCPKCRHNFRGFA 169 (278)
T ss_pred eeeecccccccchhhh
Confidence 3588999998887643
No 167
>KOG3408|consensus
Probab=51.38 E-value=9.9 Score=26.00 Aligned_cols=24 Identities=25% Similarity=0.564 Sum_probs=18.3
Q ss_pred cceeCCccccccCChhHHHHHhhh
Q psy4830 240 KPFGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
..|.|-.|.+-|.+...|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 357788888888888888888765
No 168
>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=51.38 E-value=9.8 Score=22.01 Aligned_cols=9 Identities=56% Similarity=1.154 Sum_probs=4.8
Q ss_pred ccccccccC
Q psy4830 188 CAVCSKRFT 196 (292)
Q Consensus 188 C~~C~k~f~ 196 (292)
|..|++.|.
T Consensus 5 C~~C~~~F~ 13 (57)
T cd00065 5 CMGCGKPFT 13 (57)
T ss_pred CcccCcccc
Confidence 555555554
No 169
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=50.98 E-value=3 Score=27.00 Aligned_cols=32 Identities=22% Similarity=0.547 Sum_probs=18.6
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
..|.|+.||+.-.. +.- .-.+.|..|++.|+-
T Consensus 34 ~ky~Cp~Cgk~~vk--------R~a--~GIW~C~~C~~~~AG 65 (90)
T PF01780_consen 34 AKYTCPFCGKTSVK--------RVA--TGIWKCKKCGKKFAG 65 (90)
T ss_dssp S-BEESSSSSSEEE--------EEE--TTEEEETTTTEEEE-
T ss_pred CCCcCCCCCCceeE--------Eee--eEEeecCCCCCEEeC
Confidence 46788888875321 112 234788888887753
No 170
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=50.21 E-value=8.5 Score=20.51 Aligned_cols=14 Identities=29% Similarity=0.698 Sum_probs=11.9
Q ss_pred ceeCCccccccCCh
Q psy4830 241 PFGCTSCHLTFTSK 254 (292)
Q Consensus 241 ~~~C~~C~~~f~~~ 254 (292)
||.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78999999999764
No 171
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=50.06 E-value=8.5 Score=26.41 Aligned_cols=13 Identities=15% Similarity=0.575 Sum_probs=7.6
Q ss_pred Ccccccccccccc
Q psy4830 213 PYACDICDKRFAV 225 (292)
Q Consensus 213 ~~~C~~C~k~f~~ 225 (292)
...|..||..|..
T Consensus 70 ~~~C~~Cg~~~~~ 82 (115)
T TIGR00100 70 ECECEDCSEEVSP 82 (115)
T ss_pred EEEcccCCCEEec
Confidence 3556666665554
No 172
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=49.70 E-value=10 Score=20.26 Aligned_cols=10 Identities=30% Similarity=0.727 Sum_probs=4.2
Q ss_pred CcceeCCccc
Q psy4830 239 DKPFGCTSCH 248 (292)
Q Consensus 239 ~~~~~C~~C~ 248 (292)
.+.+.|++|+
T Consensus 22 ~~~w~C~~C~ 31 (40)
T PF04810_consen 22 GKTWICNFCG 31 (40)
T ss_dssp TTEEEETTT-
T ss_pred CCEEECcCCC
Confidence 3444455444
No 173
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=49.33 E-value=8.7 Score=27.54 Aligned_cols=7 Identities=29% Similarity=1.156 Sum_probs=2.8
Q ss_pred ceeCCcc
Q psy4830 241 PFGCTSC 247 (292)
Q Consensus 241 ~~~C~~C 247 (292)
.|.|..|
T Consensus 140 ~YrC~~C 146 (156)
T COG3091 140 VYRCGKC 146 (156)
T ss_pred eEEeccC
Confidence 3444444
No 174
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=49.09 E-value=9.8 Score=26.03 Aligned_cols=12 Identities=17% Similarity=0.227 Sum_probs=6.9
Q ss_pred Cccccccccccc
Q psy4830 213 PYACDICDKRFA 224 (292)
Q Consensus 213 ~~~C~~C~k~f~ 224 (292)
...|..||..|.
T Consensus 70 ~~~C~~Cg~~~~ 81 (113)
T PRK12380 70 QAWCWDCSQVVE 81 (113)
T ss_pred EEEcccCCCEEe
Confidence 355666665554
No 175
>KOG3408|consensus
Probab=48.57 E-value=9.1 Score=26.16 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=22.6
Q ss_pred CCCCCcccCCCCCCccChHHHHhhhc
Q psy4830 266 TVGANHVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 266 ~~~~~~~C~~C~~~f~~~~~l~~H~r 291 (292)
.+...|.|-.|.+-|.+...|..|.|
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHh
Confidence 34567999999999999999999975
No 176
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=48.48 E-value=7.9 Score=27.45 Aligned_cols=15 Identities=20% Similarity=0.658 Sum_probs=10.3
Q ss_pred CCccccccccccCCc
Q psy4830 184 RPFQCAVCSKRFTQK 198 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~ 198 (292)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 457788888777653
No 177
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.74 E-value=7.8 Score=29.85 Aligned_cols=14 Identities=29% Similarity=1.023 Sum_probs=7.4
Q ss_pred CccccccccccCCc
Q psy4830 185 PFQCAVCSKRFTQK 198 (292)
Q Consensus 185 ~~~C~~C~k~f~~~ 198 (292)
.+.||+|+-.|...
T Consensus 19 ~ieCPvC~tkFkke 32 (267)
T COG1655 19 TIECPVCNTKFKKE 32 (267)
T ss_pred eeccCcccchhhhh
Confidence 35555555555543
No 178
>KOG0717|consensus
Probab=46.64 E-value=11 Score=32.42 Aligned_cols=22 Identities=27% Similarity=0.581 Sum_probs=18.3
Q ss_pred eeCCccccccCChhHHHHHhhh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
+.|.+|+|+|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7788999999988888888654
No 179
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=46.52 E-value=15 Score=22.27 Aligned_cols=12 Identities=25% Similarity=0.913 Sum_probs=6.1
Q ss_pred cceeCCcccccc
Q psy4830 240 KPFGCTSCHLTF 251 (292)
Q Consensus 240 ~~~~C~~C~~~f 251 (292)
+.|.|+.||..+
T Consensus 45 r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 45 RVFTCPNCGFEM 56 (69)
T ss_pred ceEEcCCCCCEE
Confidence 345555555443
No 180
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=46.19 E-value=28 Score=18.76 Aligned_cols=10 Identities=20% Similarity=0.863 Sum_probs=5.3
Q ss_pred cCCcchhhcC
Q psy4830 11 HCTACDASFC 20 (292)
Q Consensus 11 ~C~~C~~~f~ 20 (292)
.|+.||..|.
T Consensus 15 ~C~~CgM~Y~ 24 (41)
T PF13878_consen 15 TCPTCGMLYS 24 (41)
T ss_pred CCCCCCCEEC
Confidence 4555555554
No 181
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.78 E-value=13 Score=23.03 Aligned_cols=10 Identities=50% Similarity=1.444 Sum_probs=6.1
Q ss_pred eecCcccccc
Q psy4830 94 YQCEVCNKRF 103 (292)
Q Consensus 94 ~~C~~C~~~f 103 (292)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 5666666554
No 182
>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=45.51 E-value=8.9 Score=20.88 Aligned_cols=15 Identities=40% Similarity=0.886 Sum_probs=9.7
Q ss_pred cceeCCccccccCCh
Q psy4830 240 KPFGCTSCHLTFTSK 254 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~ 254 (292)
-|+.|+.|++.|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 478999999999764
No 183
>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 PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=44.67 E-value=14 Score=19.34 Aligned_cols=18 Identities=22% Similarity=0.599 Sum_probs=9.2
Q ss_pred hhhhccccCCcceeCCcc
Q psy4830 230 TSHRWSHVGDKPFGCTSC 247 (292)
Q Consensus 230 ~~H~~~h~~~~~~~C~~C 247 (292)
.+|-....|...|.|..|
T Consensus 18 ~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCCEeEecCcC
Confidence 344444445555666555
No 185
>KOG1701|consensus
Probab=44.62 E-value=15 Score=31.24 Aligned_cols=39 Identities=18% Similarity=0.413 Sum_probs=21.0
Q ss_pred cccccccccccchhhhhhhccccCC-----cceeCCccccccCC
Q psy4830 215 ACDICDKRFAVKSYVTSHRWSHVGD-----KPFGCTSCHLTFTS 253 (292)
Q Consensus 215 ~C~~C~k~f~~~~~L~~H~~~h~~~-----~~~~C~~C~~~f~~ 253 (292)
+|.+|++-..-...-..=+++-.-+ .=|+|+.|+.-.+.
T Consensus 396 rCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS~ 439 (468)
T KOG1701|consen 396 RCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLSS 439 (468)
T ss_pred chhhccCCccCCCCCcceEEEEEccccccccceehhhcCccccc
Confidence 5888877554433333223322222 24778888876663
No 186
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=44.45 E-value=6.9 Score=25.35 Aligned_cols=32 Identities=22% Similarity=0.618 Sum_probs=19.3
Q ss_pred CCccccccccccccchhhhhhhccccCCcceeCCccccccCC
Q psy4830 212 RPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTS 253 (292)
Q Consensus 212 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 253 (292)
..|.|+.|++.-... .+...+.|..|++.|+-
T Consensus 35 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPKVKR----------VGTGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCCCCCCceEE----------EEEEEEEcCCCCCEEeC
Confidence 467888887542211 12345778888887754
No 187
>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=44.00 E-value=21 Score=31.78 Aligned_cols=10 Identities=20% Similarity=0.713 Sum_probs=5.8
Q ss_pred CcceeCCccc
Q psy4830 239 DKPFGCTSCH 248 (292)
Q Consensus 239 ~~~~~C~~C~ 248 (292)
+....|..||
T Consensus 238 ~~~l~Ch~Cg 247 (505)
T TIGR00595 238 EGKLRCHYCG 247 (505)
T ss_pred CCeEEcCCCc
Confidence 4455666666
No 188
>KOG0717|consensus
Probab=43.83 E-value=11 Score=32.43 Aligned_cols=21 Identities=38% Similarity=0.736 Sum_probs=19.3
Q ss_pred cccCCCCCCccChHHHHhhhc
Q psy4830 271 HVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 271 ~~C~~C~~~f~~~~~l~~H~r 291 (292)
+.|.+|+++|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 779999999999999999964
No 189
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=43.47 E-value=8 Score=29.81 Aligned_cols=30 Identities=20% Similarity=0.408 Sum_probs=22.4
Q ss_pred CCCCCccccccccccCCchHHHHHHhhhcC
Q psy4830 181 TGERPFQCAVCSKRFTQKSSLNTHKRVHTG 210 (292)
Q Consensus 181 ~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~ 210 (292)
..+..|.|+.|+|.|.-..-...|+..-+.
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 345579999999999999999999876443
No 190
>PRK00420 hypothetical protein; Validated
Probab=43.14 E-value=17 Score=24.73 Aligned_cols=9 Identities=11% Similarity=0.099 Sum_probs=4.6
Q ss_pred eeCCccccc
Q psy4830 242 FGCTSCHLT 250 (292)
Q Consensus 242 ~~C~~C~~~ 250 (292)
..|+.||..
T Consensus 41 ~~Cp~Cg~~ 49 (112)
T PRK00420 41 VVCPVHGKV 49 (112)
T ss_pred eECCCCCCe
Confidence 455555543
No 191
>KOG1280|consensus
Probab=42.87 E-value=25 Score=29.08 Aligned_cols=23 Identities=17% Similarity=0.317 Sum_probs=12.4
Q ss_pred Cccccccccccccchhhhhhhcc
Q psy4830 213 PYACDICDKRFAVKSYVTSHRWS 235 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L~~H~~~ 235 (292)
.|.|++|++.=.+...|..|...
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s 101 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLS 101 (381)
T ss_pred cccCCcccccccchhHHHHHhhh
Confidence 45555555555555555555443
No 192
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=42.74 E-value=12 Score=21.15 Aligned_cols=39 Identities=18% Similarity=0.342 Sum_probs=22.0
Q ss_pred CcceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCC
Q psy4830 239 DKPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCG 277 (292)
Q Consensus 239 ~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~ 277 (292)
++.+.|..||..|.--..=..-....--...|-.|+.|.
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR 40 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCR 40 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHH
Confidence 577899999988876543333322210112355576664
No 193
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=42.59 E-value=28 Score=32.05 Aligned_cols=9 Identities=22% Similarity=0.796 Sum_probs=5.5
Q ss_pred ccccccccc
Q psy4830 215 ACDICDKRF 223 (292)
Q Consensus 215 ~C~~C~k~f 223 (292)
-|+.||..+
T Consensus 17 FC~~CG~~l 25 (645)
T PRK14559 17 FCQKCGTSL 25 (645)
T ss_pred cccccCCCC
Confidence 366666655
No 194
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=42.10 E-value=13 Score=25.61 Aligned_cols=13 Identities=23% Similarity=0.593 Sum_probs=7.7
Q ss_pred Ccccccccccccc
Q psy4830 213 PYACDICDKRFAV 225 (292)
Q Consensus 213 ~~~C~~C~k~f~~ 225 (292)
.+.|..||..|..
T Consensus 71 ~~~C~~Cg~~~~~ 83 (117)
T PRK00564 71 ELECKDCSHVFKP 83 (117)
T ss_pred EEEhhhCCCcccc
Confidence 3567777655543
No 195
>KOG2636|consensus
Probab=41.47 E-value=18 Score=31.03 Aligned_cols=26 Identities=19% Similarity=0.487 Sum_probs=16.3
Q ss_pred hcCCCCcccccch-hhcCChhHHHHHH
Q psy4830 32 HTGERPFQCVVCL-KRFSQKSALNTHK 57 (292)
Q Consensus 32 h~~~~~~~C~~C~-~~f~~~~~l~~H~ 57 (292)
|.-...|.|.+|| +++..+.++.+|-
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHh
Confidence 4444556777776 6666666666664
No 196
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=41.20 E-value=20 Score=31.30 Aligned_cols=26 Identities=19% Similarity=0.534 Sum_probs=18.5
Q ss_pred eeCCccccccCChhHHHHHhhhhcCC
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHHTV 267 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh~~ 267 (292)
..|+.|.+.|.+...+..|+..-|.+
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 56777777777777777777665544
No 197
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=39.52 E-value=20 Score=20.63 Aligned_cols=17 Identities=12% Similarity=0.444 Sum_probs=11.9
Q ss_pred CccccccccccCCchHH
Q psy4830 185 PFQCAVCSKRFTQKSSL 201 (292)
Q Consensus 185 ~~~C~~C~k~f~~~~~L 201 (292)
-++|+.||-.|...-..
T Consensus 28 ~W~C~~Cgh~w~~~v~~ 44 (55)
T PF14311_consen 28 WWKCPKCGHEWKASVND 44 (55)
T ss_pred EEECCCCCCeeEccHhh
Confidence 47888888877665443
No 198
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=39.45 E-value=14 Score=18.16 Aligned_cols=8 Identities=25% Similarity=1.057 Sum_probs=2.8
Q ss_pred ceeCCccc
Q psy4830 241 PFGCTSCH 248 (292)
Q Consensus 241 ~~~C~~C~ 248 (292)
.|.|..|+
T Consensus 15 ~Y~C~~Cd 22 (30)
T PF07649_consen 15 FYRCSECD 22 (30)
T ss_dssp EEE-TTT-
T ss_pred eEECccCC
Confidence 34444444
No 199
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=39.10 E-value=10 Score=21.84 Aligned_cols=13 Identities=31% Similarity=0.963 Sum_probs=6.6
Q ss_pred ccCCCCCCccChH
Q psy4830 272 VCNVCGRSFVRDS 284 (292)
Q Consensus 272 ~C~~C~~~f~~~~ 284 (292)
.||+|+..|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 7888888887543
No 200
>KOG1842|consensus
Probab=38.63 E-value=17 Score=31.11 Aligned_cols=24 Identities=33% Similarity=0.609 Sum_probs=12.3
Q ss_pred eeCCccccccCChhHHHHHhhhhc
Q psy4830 242 FGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
|.||+|.+-|.+...|..|...-|
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhc
Confidence 455555555555555555554444
No 201
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=38.52 E-value=19 Score=29.77 Aligned_cols=26 Identities=23% Similarity=0.557 Sum_probs=20.8
Q ss_pred cCCCCCcccCCCC-CCccChHHHHhhh
Q psy4830 265 HTVGANHVCNVCG-RSFVRDSYLIRHQ 290 (292)
Q Consensus 265 h~~~~~~~C~~C~-~~f~~~~~l~~H~ 290 (292)
|+.+..|.|.+|| +++.-+..+.+|.
T Consensus 369 hgLd~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 369 HGLDIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred cCCCcceeeeecccccccchHHHHhhh
Confidence 5778889999999 7887777777763
No 202
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=38.28 E-value=17 Score=24.36 Aligned_cols=29 Identities=17% Similarity=0.630 Sum_probs=16.9
Q ss_pred cccccccccccchhhhhhhccccCCcceeCCccccccCCh
Q psy4830 215 ACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 215 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 254 (292)
.|+.|+..|.+.. ...|.|+.|+..+...
T Consensus 4 ~CP~C~seytY~d-----------g~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHD-----------GTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEec-----------CCeeECcccccccccc
Confidence 4667766665432 2346777777666544
No 203
>KOG0782|consensus
Probab=38.26 E-value=3.7 Score=36.03 Aligned_cols=27 Identities=26% Similarity=0.543 Sum_probs=11.5
Q ss_pred hhhhhhccccCCcceeCCccccccCCh
Q psy4830 228 YVTSHRWSHVGDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 228 ~L~~H~~~h~~~~~~~C~~C~~~f~~~ 254 (292)
.+.+|-.+|.....=+|..|||+|.++
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQK 266 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQK 266 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhh
Confidence 344444444333333455555555443
No 204
>KOG4727|consensus
Probab=38.16 E-value=16 Score=26.76 Aligned_cols=20 Identities=20% Similarity=0.557 Sum_probs=11.9
Q ss_pred eeCCccccccCChhHHHHHh
Q psy4830 242 FGCTSCHLTFTSKSQFAVHL 261 (292)
Q Consensus 242 ~~C~~C~~~f~~~~~L~~H~ 261 (292)
|-|.+|+-+|....++..|+
T Consensus 76 yyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred eeeeecceeehhhHHHHHHh
Confidence 55666666666665555554
No 205
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=38.14 E-value=14 Score=25.18 Aligned_cols=12 Identities=25% Similarity=0.623 Sum_probs=6.4
Q ss_pred cccccccccccc
Q psy4830 214 YACDICDKRFAV 225 (292)
Q Consensus 214 ~~C~~C~k~f~~ 225 (292)
..|..||..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 71 ARCRDCGHEFEP 82 (113)
T ss_dssp EEETTTS-EEEC
T ss_pred EECCCCCCEEec
Confidence 456666666554
No 206
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=37.94 E-value=17 Score=24.09 Aligned_cols=17 Identities=35% Similarity=0.722 Sum_probs=10.4
Q ss_pred cccCCcceeCCccccccC
Q psy4830 235 SHVGDKPFGCTSCHLTFT 252 (292)
Q Consensus 235 ~h~~~~~~~C~~C~~~f~ 252 (292)
.+.| +|+.|+.||..|.
T Consensus 74 l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 74 LEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EeCC-CceeCCCCCcEEE
Confidence 3444 5677777776664
No 207
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=37.78 E-value=30 Score=18.32 Aligned_cols=10 Identities=20% Similarity=0.750 Sum_probs=2.5
Q ss_pred cccCCCCCCc
Q psy4830 271 HVCNVCGRSF 280 (292)
Q Consensus 271 ~~C~~C~~~f 280 (292)
|-|+.|+..|
T Consensus 4 yyCdyC~~~~ 13 (38)
T PF06220_consen 4 YYCDYCKKYL 13 (38)
T ss_dssp -B-TTT--B-
T ss_pred eeccccccee
Confidence 4455555544
No 208
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=37.72 E-value=16 Score=19.68 Aligned_cols=12 Identities=33% Similarity=1.046 Sum_probs=9.5
Q ss_pred CCcccccccccc
Q psy4830 184 RPFQCAVCSKRF 195 (292)
Q Consensus 184 ~~~~C~~C~k~f 195 (292)
++-.|++||..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 467899998877
No 209
>PRK12496 hypothetical protein; Provisional
Probab=37.66 E-value=26 Score=25.87 Aligned_cols=12 Identities=17% Similarity=0.581 Sum_probs=8.5
Q ss_pred eeCCccccccCC
Q psy4830 242 FGCTSCHLTFTS 253 (292)
Q Consensus 242 ~~C~~C~~~f~~ 253 (292)
|.|+-|++.|..
T Consensus 128 ~~C~gC~~~~~~ 139 (164)
T PRK12496 128 KVCKGCKKKYPE 139 (164)
T ss_pred EECCCCCccccC
Confidence 678888777743
No 210
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=37.22 E-value=26 Score=19.73 Aligned_cols=14 Identities=21% Similarity=0.472 Sum_probs=8.8
Q ss_pred ceeCCccccccCCh
Q psy4830 241 PFGCTSCHLTFTSK 254 (292)
Q Consensus 241 ~~~C~~C~~~f~~~ 254 (292)
.+.|+.||..+.-.
T Consensus 20 ~~vC~~Cg~~~~~~ 33 (52)
T smart00661 20 RFVCRKCGYEEPIE 33 (52)
T ss_pred EEECCcCCCeEECC
Confidence 56777777655443
No 211
>COG1773 Rubredoxin [Energy production and conversion]
Probab=37.14 E-value=13 Score=21.54 Aligned_cols=12 Identities=33% Similarity=0.855 Sum_probs=6.5
Q ss_pred CcccCCCCCCcc
Q psy4830 270 NHVCNVCGRSFV 281 (292)
Q Consensus 270 ~~~C~~C~~~f~ 281 (292)
.|+|.+||..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 355666655543
No 212
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=36.82 E-value=15 Score=26.68 Aligned_cols=6 Identities=33% Similarity=1.342 Sum_probs=2.3
Q ss_pred cccccc
Q psy4830 187 QCAVCS 192 (292)
Q Consensus 187 ~C~~C~ 192 (292)
.|+.|+
T Consensus 125 ~C~~C~ 130 (157)
T PF10263_consen 125 RCPSCG 130 (157)
T ss_pred EcCCCC
Confidence 333333
No 213
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=36.79 E-value=21 Score=30.56 Aligned_cols=13 Identities=23% Similarity=0.575 Sum_probs=6.0
Q ss_pred ceeCCccccccCC
Q psy4830 241 PFGCTSCHLTFTS 253 (292)
Q Consensus 241 ~~~C~~C~~~f~~ 253 (292)
-|+|+.||..+..
T Consensus 367 g~rC~kCg~~~~~ 379 (421)
T COG1571 367 GFRCKKCGTRARE 379 (421)
T ss_pred CcccccccccCCc
Confidence 4444444444443
No 214
>PRK10220 hypothetical protein; Provisional
Probab=36.14 E-value=24 Score=23.69 Aligned_cols=29 Identities=14% Similarity=0.603 Sum_probs=16.7
Q ss_pred cccccccccccchhhhhhhccccCCcceeCCccccccCCh
Q psy4830 215 ACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 215 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 254 (292)
.|+.|+..|.+.. ...|.|+.|+..+...
T Consensus 5 ~CP~C~seytY~d-----------~~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 5 HCPKCNSEYTYED-----------NGMYICPECAHEWNDA 33 (111)
T ss_pred cCCCCCCcceEcC-----------CCeEECCcccCcCCcc
Confidence 4666766665432 2346777777666544
No 215
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=35.75 E-value=25 Score=24.10 Aligned_cols=12 Identities=17% Similarity=0.606 Sum_probs=6.7
Q ss_pred Cccccccccccc
Q psy4830 213 PYACDICDKRFA 224 (292)
Q Consensus 213 ~~~C~~C~k~f~ 224 (292)
...|..||..|.
T Consensus 70 ~~~C~~Cg~~~~ 81 (114)
T PRK03681 70 ECWCETCQQYVT 81 (114)
T ss_pred EEEcccCCCeee
Confidence 355666665443
No 216
>KOG1280|consensus
Probab=35.02 E-value=38 Score=28.06 Aligned_cols=38 Identities=21% Similarity=0.462 Sum_probs=27.7
Q ss_pred CCCccccccccccCCchHHHHHHhhhcCCCC--ccccccc
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHTGERP--YACDICD 220 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~--~~C~~C~ 220 (292)
+..|.|++|+++=.+...|..|+..-+.+-+ ..|++|+
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 4479999999998899999999865443332 3456555
No 217
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=34.44 E-value=13 Score=28.14 Aligned_cols=24 Identities=17% Similarity=0.463 Sum_probs=0.0
Q ss_pred ccCCcceeCCccc-cccCChhHHHH
Q psy4830 236 HVGDKPFGCTSCH-LTFTSKSQFAV 259 (292)
Q Consensus 236 h~~~~~~~C~~C~-~~f~~~~~L~~ 259 (292)
|--...|.|.+|| .+|.-+..+.+
T Consensus 96 hGL~~ey~CEICGN~~Y~GrkaFek 120 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQSYKGRKAFEK 120 (196)
T ss_dssp -------------------------
T ss_pred hCCCCeeeeEeCCCcceecHHHHHH
Confidence 3334567788876 33434444444
No 218
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=34.06 E-value=11 Score=34.38 Aligned_cols=54 Identities=30% Similarity=0.642 Sum_probs=24.3
Q ss_pred ccccccccCCchHHHHHHhhhcCCCCc-cccccccccccchhhhhhhccccCCcceeCCccc
Q psy4830 188 CAVCSKRFTQKSSLNTHKRVHTGERPY-ACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCH 248 (292)
Q Consensus 188 C~~C~k~f~~~~~L~~H~~~h~~~~~~-~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~ 248 (292)
|..||-+|+--..|--- |-.+.-+.| -|+.|.+.+....+-+-|. .|..|+.||
T Consensus 126 CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CG 180 (750)
T COG0068 126 CTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFHA------QPIACPKCG 180 (750)
T ss_pred cCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCcccccccc------ccccCcccC
Confidence 66666666544333221 111222222 2566665555555444442 344566665
No 219
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=34.02 E-value=19 Score=18.54 Aligned_cols=7 Identities=29% Similarity=1.023 Sum_probs=3.3
Q ss_pred eeCCccc
Q psy4830 242 FGCTSCH 248 (292)
Q Consensus 242 ~~C~~C~ 248 (292)
+.|+.||
T Consensus 23 ~vC~~Cg 29 (34)
T PF14803_consen 23 LVCPACG 29 (34)
T ss_dssp EEETTTT
T ss_pred eECCCCC
Confidence 4444444
No 220
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=33.59 E-value=16 Score=26.37 Aligned_cols=8 Identities=25% Similarity=0.987 Sum_probs=4.0
Q ss_pred cccccccc
Q psy4830 214 YACDICDK 221 (292)
Q Consensus 214 ~~C~~C~k 221 (292)
|.|..||.
T Consensus 113 l~C~~Cg~ 120 (146)
T PF07295_consen 113 LVCENCGH 120 (146)
T ss_pred EecccCCC
Confidence 45555553
No 221
>KOG0782|consensus
Probab=33.10 E-value=14 Score=32.76 Aligned_cols=53 Identities=25% Similarity=0.537 Sum_probs=37.9
Q ss_pred CchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCC-cceeCCccccccCChh
Q psy4830 197 QKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGD-KPFGCTSCHLTFTSKS 255 (292)
Q Consensus 197 ~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~-~~~~C~~C~~~f~~~~ 255 (292)
..+.|.+|-.+|.....=+|..|||.|..+..+ |..+ -...|..|...|..+.
T Consensus 237 rE~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccccchHHhHhhHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcch
Confidence 345788887777665556899999999876543 3333 2468999999988765
No 222
>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=33.06 E-value=32 Score=17.58 Aligned_cols=22 Identities=32% Similarity=0.611 Sum_probs=12.6
Q ss_pred ceeCCccccccCChhHHHHHhhh
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
.+.|+.|++.+.. +-+..|+..
T Consensus 4 ~~~C~nC~R~v~a-~RfA~HLek 25 (33)
T PF08209_consen 4 YVECPNCGRPVAA-SRFAPHLEK 25 (33)
T ss_dssp EEE-TTTSSEEEG-GGHHHHHHH
T ss_pred eEECCCCcCCcch-hhhHHHHHH
Confidence 3677777776543 456666544
No 223
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=32.85 E-value=19 Score=25.84 Aligned_cols=11 Identities=36% Similarity=0.905 Sum_probs=6.3
Q ss_pred ccccccccccc
Q psy4830 215 ACDICDKRFAV 225 (292)
Q Consensus 215 ~C~~C~k~f~~ 225 (292)
.|+.||.+|++
T Consensus 30 eC~~C~~RFTT 40 (156)
T COG1327 30 ECLECGERFTT 40 (156)
T ss_pred cccccccccch
Confidence 45555555555
No 224
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=32.66 E-value=16 Score=21.25 Aligned_cols=36 Identities=19% Similarity=0.462 Sum_probs=16.6
Q ss_pred cccccccccccchh-hhhhhccccCCcceeCCccccc
Q psy4830 215 ACDICDKRFAVKSY-VTSHRWSHVGDKPFGCTSCHLT 250 (292)
Q Consensus 215 ~C~~C~k~f~~~~~-L~~H~~~h~~~~~~~C~~C~~~ 250 (292)
+|-+|++.+.-... +..=...-.....|-|+.|...
T Consensus 4 kC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 4 KCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred EEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 57777776543221 1111111123345777777543
No 225
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=32.49 E-value=26 Score=30.54 Aligned_cols=21 Identities=19% Similarity=0.577 Sum_probs=19.2
Q ss_pred cccCCCCCCccChHHHHhhhc
Q psy4830 271 HVCNVCGRSFVRDSYLIRHQN 291 (292)
Q Consensus 271 ~~C~~C~~~f~~~~~l~~H~r 291 (292)
+.|+.|++.|.....+..||.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~ 78 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHME 78 (466)
T ss_pred eeCCcccceeCCHHHHHHHHH
Confidence 679999999999999999974
No 226
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=32.11 E-value=8.9 Score=34.97 Aligned_cols=29 Identities=21% Similarity=0.474 Sum_probs=15.4
Q ss_pred ccccchhhcCChhHHHHHHhhcCCCcceecccccc
Q psy4830 39 QCVVCLKRFSQKSALNTHKRMHIPYIQYYCDACDA 73 (292)
Q Consensus 39 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 73 (292)
.|+.|.+.|.+..+-+-|. .+..|+.||-
T Consensus 153 lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred CCHHHHHHhcCcccccccc------ccccCcccCC
Confidence 3666666666555544442 2345666653
No 227
>KOG0978|consensus
Probab=32.03 E-value=22 Score=32.70 Aligned_cols=12 Identities=33% Similarity=1.146 Sum_probs=8.3
Q ss_pred ccccccccccCC
Q psy4830 186 FQCAVCSKRFTQ 197 (292)
Q Consensus 186 ~~C~~C~k~f~~ 197 (292)
..|+.|+..+..
T Consensus 644 LkCs~Cn~R~Kd 655 (698)
T KOG0978|consen 644 LKCSVCNTRWKD 655 (698)
T ss_pred eeCCCccCchhh
Confidence 568888865544
No 228
>PRK05978 hypothetical protein; Provisional
Probab=31.99 E-value=23 Score=25.54 Aligned_cols=10 Identities=30% Similarity=0.989 Sum_probs=5.9
Q ss_pred cccccccccc
Q psy4830 215 ACDICDKRFA 224 (292)
Q Consensus 215 ~C~~C~k~f~ 224 (292)
.|+.||..|.
T Consensus 54 ~C~~CG~~~~ 63 (148)
T PRK05978 54 HCAACGEDFT 63 (148)
T ss_pred CccccCCccc
Confidence 4666666554
No 229
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.89 E-value=37 Score=31.48 Aligned_cols=10 Identities=30% Similarity=0.880 Sum_probs=6.9
Q ss_pred CcccCCCCCC
Q psy4830 270 NHVCNVCGRS 279 (292)
Q Consensus 270 ~~~C~~C~~~ 279 (292)
+..|+.||-.
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5678888754
No 230
>KOG2071|consensus
Probab=31.87 E-value=32 Score=30.79 Aligned_cols=27 Identities=30% Similarity=0.678 Sum_probs=23.0
Q ss_pred CCCccccccccccCCchHHHHHHhhhc
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHT 209 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~ 209 (292)
..+-+|..||.+|........||..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 456789999999999999988887774
No 231
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=30.60 E-value=25 Score=23.41 Aligned_cols=8 Identities=38% Similarity=1.157 Sum_probs=4.8
Q ss_pred Cccccccc
Q psy4830 185 PFQCAVCS 192 (292)
Q Consensus 185 ~~~C~~C~ 192 (292)
.|.|+.||
T Consensus 21 ~f~CP~Cg 28 (99)
T PRK14892 21 IFECPRCG 28 (99)
T ss_pred EeECCCCC
Confidence 45666666
No 232
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.50 E-value=26 Score=30.07 Aligned_cols=14 Identities=14% Similarity=0.558 Sum_probs=7.4
Q ss_pred ceecccccccCCCh
Q psy4830 65 QYYCDACDATFTTK 78 (292)
Q Consensus 65 ~~~C~~C~~~f~~~ 78 (292)
-|+|+.|+..+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 45555555555443
No 233
>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=30.14 E-value=25 Score=17.90 Aligned_cols=8 Identities=38% Similarity=1.236 Sum_probs=3.2
Q ss_pred cccCCCCC
Q psy4830 271 HVCNVCGR 278 (292)
Q Consensus 271 ~~C~~C~~ 278 (292)
|.|..|+.
T Consensus 28 f~C~~C~~ 35 (39)
T smart00132 28 FKCSKCGK 35 (39)
T ss_pred CCCcccCC
Confidence 33444443
No 234
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=29.93 E-value=63 Score=18.80 Aligned_cols=16 Identities=25% Similarity=0.542 Sum_probs=8.7
Q ss_pred ccCCCCCCccChHHHH
Q psy4830 272 VCNVCGRSFVRDSYLI 287 (292)
Q Consensus 272 ~C~~C~~~f~~~~~l~ 287 (292)
-|-.||..|.+...|.
T Consensus 29 YC~~Cg~~Y~d~~dL~ 44 (55)
T PF13821_consen 29 YCFWCGTKYDDEEDLE 44 (55)
T ss_pred eeeeeCCccCCHHHHH
Confidence 3555555555555554
No 235
>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=29.80 E-value=13 Score=30.30 Aligned_cols=77 Identities=23% Similarity=0.449 Sum_probs=29.4
Q ss_pred ccccccccccCCchHHHHHHhhhcCCCCccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhc
Q psy4830 186 FQCAVCSKRFTQKSSLNTHKRVHTGERPYACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHH 265 (292)
Q Consensus 186 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh 265 (292)
-.|++||..= ..+.|..-.. .|.+-..|..|+-.... ....|+.||..-...-.+-. ... -
T Consensus 173 g~CPvCGs~P-~~s~l~~~~~--~G~R~L~Cs~C~t~W~~--------------~R~~Cp~Cg~~~~~~l~~~~-~e~-~ 233 (290)
T PF04216_consen 173 GYCPVCGSPP-VLSVLRGGER--EGKRYLHCSLCGTEWRF--------------VRIKCPYCGNTDHEKLEYFT-VEG-E 233 (290)
T ss_dssp SS-TTT---E-EEEEEE--------EEEEEETTT--EEE----------------TTS-TTT---SS-EEE---------
T ss_pred CcCCCCCCcC-ceEEEecCCC--CccEEEEcCCCCCeeee--------------cCCCCcCCCCCCCcceeeEe-cCC-C
Confidence 3699998632 1222211111 25667789999854321 23479999977554432221 000 0
Q ss_pred CCCCCcccCCCCCCcc
Q psy4830 266 TVGANHVCNVCGRSFV 281 (292)
Q Consensus 266 ~~~~~~~C~~C~~~f~ 281 (292)
...+-+.|..|+--++
T Consensus 234 ~~~rve~C~~C~~YlK 249 (290)
T PF04216_consen 234 PAYRVEVCESCGSYLK 249 (290)
T ss_dssp -SEEEEEETTTTEEEE
T ss_pred CcEEEEECCcccchHH
Confidence 1123467999985544
No 236
>KOG4727|consensus
Probab=29.20 E-value=30 Score=25.35 Aligned_cols=21 Identities=29% Similarity=0.498 Sum_probs=18.4
Q ss_pred Cccccccccccccchhhhhhh
Q psy4830 213 PYACDICDKRFAVKSYVTSHR 233 (292)
Q Consensus 213 ~~~C~~C~k~f~~~~~L~~H~ 233 (292)
-|-|++|+-+|....++..|+
T Consensus 75 GyyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 75 GYYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred ceeeeecceeehhhHHHHHHh
Confidence 588999999999988888874
No 237
>KOG3214|consensus
Probab=28.94 E-value=19 Score=23.66 Aligned_cols=14 Identities=29% Similarity=0.712 Sum_probs=7.8
Q ss_pred cccCCCCCCccChH
Q psy4830 271 HVCNVCGRSFVRDS 284 (292)
Q Consensus 271 ~~C~~C~~~f~~~~ 284 (292)
..|.+|+.+|.+..
T Consensus 48 ~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 48 ASCRICEESFQTTI 61 (109)
T ss_pred eeeeehhhhhccch
Confidence 34666666665543
No 238
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=28.85 E-value=47 Score=19.45 Aligned_cols=10 Identities=20% Similarity=0.571 Sum_probs=3.1
Q ss_pred cccccccccc
Q psy4830 215 ACDICDKRFA 224 (292)
Q Consensus 215 ~C~~C~k~f~ 224 (292)
....||-.|.
T Consensus 26 ~s~~C~H~fe 35 (57)
T PF11789_consen 26 KSKKCGHTFE 35 (57)
T ss_dssp EESSS--EEE
T ss_pred CcCCCCCeec
Confidence 3334444443
No 239
>KOG0978|consensus
Probab=28.83 E-value=16 Score=33.48 Aligned_cols=18 Identities=22% Similarity=0.438 Sum_probs=10.5
Q ss_pred ccCCCCCCccChHHHHhh
Q psy4830 272 VCNVCGRSFVRDSYLIRH 289 (292)
Q Consensus 272 ~C~~C~~~f~~~~~l~~H 289 (292)
+||.|+.+|.-.+-+..|
T Consensus 680 KCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 680 KCPKCNAAFGANDVHRIH 697 (698)
T ss_pred CCCCCCCCCCcccccccC
Confidence 466666666655554443
No 240
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.69 E-value=26 Score=24.61 Aligned_cols=17 Identities=41% Similarity=0.894 Sum_probs=13.7
Q ss_pred CCcceeCCccccccCCh
Q psy4830 238 GDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 238 ~~~~~~C~~C~~~f~~~ 254 (292)
|...|.|+.|+++|...
T Consensus 50 ~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 50 GHQRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccccCCcCcceeee
Confidence 35679999999999754
No 241
>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=28.66 E-value=9.3 Score=21.30 Aligned_cols=14 Identities=36% Similarity=0.636 Sum_probs=7.4
Q ss_pred cceeCCc--cccccCC
Q psy4830 240 KPFGCTS--CHLTFTS 253 (292)
Q Consensus 240 ~~~~C~~--C~~~f~~ 253 (292)
.-|.|.. ||.+|..
T Consensus 24 ~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 24 LYCQCTNPECGHTFVA 39 (47)
T ss_pred EEEEECCCcCCCEEEE
Confidence 3455644 6666543
No 242
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.58 E-value=40 Score=19.91 Aligned_cols=8 Identities=38% Similarity=1.182 Sum_probs=4.0
Q ss_pred ceecCccc
Q psy4830 93 PYQCEVCN 100 (292)
Q Consensus 93 ~~~C~~C~ 100 (292)
.|.|+.|.
T Consensus 31 tymC~eC~ 38 (68)
T COG4896 31 TYMCPECE 38 (68)
T ss_pred eEechhhH
Confidence 35555554
No 243
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=28.50 E-value=25 Score=19.99 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=6.2
Q ss_pred cccCCCCCCcc
Q psy4830 271 HVCNVCGRSFV 281 (292)
Q Consensus 271 ~~C~~C~~~f~ 281 (292)
|+|.+||..|.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 55666665554
No 244
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=28.45 E-value=45 Score=22.35 Aligned_cols=8 Identities=38% Similarity=1.219 Sum_probs=3.8
Q ss_pred Cccccccc
Q psy4830 185 PFQCAVCS 192 (292)
Q Consensus 185 ~~~C~~C~ 192 (292)
|..|+.||
T Consensus 2 p~~CpYCg 9 (102)
T PF11672_consen 2 PIICPYCG 9 (102)
T ss_pred CcccCCCC
Confidence 33455554
No 245
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.41 E-value=25 Score=19.57 Aligned_cols=13 Identities=38% Similarity=0.946 Sum_probs=7.7
Q ss_pred ccCCCCCCccChH
Q psy4830 272 VCNVCGRSFVRDS 284 (292)
Q Consensus 272 ~C~~C~~~f~~~~ 284 (292)
.|++|+..|+...
T Consensus 14 ICpvCqRPFsWRk 26 (54)
T COG4338 14 ICPVCQRPFSWRK 26 (54)
T ss_pred hhhhhcCchHHHH
Confidence 3666666666543
No 246
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=27.80 E-value=26 Score=26.63 Aligned_cols=11 Identities=18% Similarity=0.368 Sum_probs=5.7
Q ss_pred eeCCccccccC
Q psy4830 242 FGCTSCHLTFT 252 (292)
Q Consensus 242 ~~C~~C~~~f~ 252 (292)
|.|+.||....
T Consensus 31 f~C~~CGyr~~ 41 (192)
T TIGR00310 31 TICEHCGYRSN 41 (192)
T ss_pred EECCCCCCccc
Confidence 45555554443
No 247
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=27.18 E-value=36 Score=22.54 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=6.2
Q ss_pred Ccccccccccccc
Q psy4830 213 PYACDICDKRFAV 225 (292)
Q Consensus 213 ~~~C~~C~k~f~~ 225 (292)
|++|..||..|..
T Consensus 2 pH~CtrCG~vf~~ 14 (112)
T COG3364 2 PHQCTRCGEVFDD 14 (112)
T ss_pred Cceeccccccccc
Confidence 3445555555543
No 248
>PLN02294 cytochrome c oxidase subunit Vb
Probab=26.84 E-value=30 Score=25.46 Aligned_cols=13 Identities=31% Similarity=0.708 Sum_probs=6.9
Q ss_pred CCcccCCCCCCcc
Q psy4830 269 ANHVCNVCGRSFV 281 (292)
Q Consensus 269 ~~~~C~~C~~~f~ 281 (292)
+++.|+.||..|.
T Consensus 140 kp~RCpeCG~~fk 152 (174)
T PLN02294 140 KSFECPVCTQYFE 152 (174)
T ss_pred CceeCCCCCCEEE
Confidence 4555555555554
No 249
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=26.79 E-value=23 Score=19.85 Aligned_cols=11 Identities=36% Similarity=0.842 Sum_probs=6.3
Q ss_pred cccCCCCCCcc
Q psy4830 271 HVCNVCGRSFV 281 (292)
Q Consensus 271 ~~C~~C~~~f~ 281 (292)
|+|.+|+..|.
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 55666665543
No 250
>COG4640 Predicted membrane protein [Function unknown]
Probab=26.75 E-value=43 Score=28.36 Aligned_cols=19 Identities=37% Similarity=0.585 Sum_probs=10.9
Q ss_pred ceeCCccccccCChhHHHH
Q psy4830 241 PFGCTSCHLTFTSKSQFAV 259 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~ 259 (292)
.+.|+.||..|....++..
T Consensus 15 ~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 15 DVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred cccccccCCcCCchhhhhh
Confidence 3446666666666554443
No 251
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=25.86 E-value=33 Score=17.97 Aligned_cols=12 Identities=17% Similarity=0.534 Sum_probs=6.3
Q ss_pred cceeCCcccccc
Q psy4830 240 KPFGCTSCHLTF 251 (292)
Q Consensus 240 ~~~~C~~C~~~f 251 (292)
+-|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 458888888654
No 252
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=25.81 E-value=40 Score=27.28 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=18.6
Q ss_pred CcceeCCccccccCChhHHHHHhh
Q psy4830 239 DKPFGCTSCHLTFTSKSQFAVHLR 262 (292)
Q Consensus 239 ~~~~~C~~C~~~f~~~~~L~~H~~ 262 (292)
+..|.|+.|=+-|.+...|.+|+.
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLA 69 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHH
Confidence 456888888888888888888864
No 253
>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=25.68 E-value=1.1e+02 Score=17.74 Aligned_cols=46 Identities=13% Similarity=0.161 Sum_probs=27.3
Q ss_pred ccccccccccccchhhhhhhccccCCcceeCCccccccCChhHHHHHhhhhcCCCCCcccCCCCCCccC
Q psy4830 214 YACDICDKRFAVKSYVTSHRWSHVGDKPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVCGRSFVR 282 (292)
Q Consensus 214 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C~~~f~~ 282 (292)
+.|++|+..+... ....||..|.. ..+..+++. ...|++|++.+..
T Consensus 2 ~~Cpi~~~~~~~P----------------v~~~~G~v~~~-~~i~~~~~~------~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP----------------VILPSGQTYER-RAIEKWLLS------HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC----------------EECCCCCEEeH-HHHHHHHHH------CCCCCCCcCCCCh
Confidence 5688888776542 12345655643 455555544 1368888888744
No 254
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.63 E-value=70 Score=23.93 Aligned_cols=11 Identities=18% Similarity=0.833 Sum_probs=4.9
Q ss_pred Ccccccccccc
Q psy4830 185 PFQCAVCSKRF 195 (292)
Q Consensus 185 ~~~C~~C~k~f 195 (292)
-|.|+.|.-.|
T Consensus 113 ~y~C~~~~~r~ 123 (176)
T COG1675 113 YYVCPNCHVKY 123 (176)
T ss_pred ceeCCCCCCcc
Confidence 34454444433
No 255
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=25.57 E-value=46 Score=22.57 Aligned_cols=10 Identities=20% Similarity=0.654 Sum_probs=4.9
Q ss_pred ceeCCccccc
Q psy4830 241 PFGCTSCHLT 250 (292)
Q Consensus 241 ~~~C~~C~~~ 250 (292)
...||.|++.
T Consensus 69 ~V~CP~C~K~ 78 (114)
T PF11023_consen 69 QVECPNCGKQ 78 (114)
T ss_pred eeECCCCCCh
Confidence 3445555543
No 256
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.39 E-value=32 Score=23.65 Aligned_cols=41 Identities=22% Similarity=0.332 Sum_probs=22.7
Q ss_pred ccccccccccccchhhhhhhc-cccCCcceeCCccccccCCh
Q psy4830 214 YACDICDKRFAVKSYVTSHRW-SHVGDKPFGCTSCHLTFTSK 254 (292)
Q Consensus 214 ~~C~~C~k~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~f~~~ 254 (292)
-+|++|............=.- -+.-+.|--|..||+.|..-
T Consensus 40 ~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwt 81 (160)
T COG4306 40 TQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWT 81 (160)
T ss_pred hcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcH
Confidence 468888876554433322111 12223466688888888764
No 257
>KOG1842|consensus
Probab=25.39 E-value=47 Score=28.62 Aligned_cols=26 Identities=15% Similarity=0.245 Sum_probs=22.4
Q ss_pred CccCCcchhhcCChhHHHHHHhhhcC
Q psy4830 9 PYHCTACDASFCRKPYLEIHMRTHTG 34 (292)
Q Consensus 9 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 34 (292)
.|.|++|...|.+.+.|..|....++
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcc
Confidence 58999999999999999999976443
No 258
>PTZ00448 hypothetical protein; Provisional
Probab=25.09 E-value=48 Score=27.89 Aligned_cols=23 Identities=17% Similarity=0.454 Sum_probs=18.1
Q ss_pred CccCCcchhhcCChhHHHHHHhh
Q psy4830 9 PYHCTACDASFCRKPYLEIHMRT 31 (292)
Q Consensus 9 ~~~C~~C~~~f~~~~~l~~H~~~ 31 (292)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57788888888877778888775
No 259
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=24.87 E-value=35 Score=23.56 Aligned_cols=19 Identities=11% Similarity=0.268 Sum_probs=11.0
Q ss_pred ceeCCccccccCChhHHHH
Q psy4830 241 PFGCTSCHLTFTSKSQFAV 259 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~ 259 (292)
-+.|+.||..+.+......
T Consensus 31 ~~~C~~CGe~~~~~e~~~~ 49 (127)
T TIGR03830 31 GWYCPACGEELLDPEESKR 49 (127)
T ss_pred eeECCCCCCEEEcHHHHHH
Confidence 3566667666666554443
No 260
>KOG4377|consensus
Probab=24.74 E-value=67 Score=27.40 Aligned_cols=104 Identities=26% Similarity=0.415 Sum_probs=64.5
Q ss_pred CCCccc--cccccccCCchHHHHHHhhhcCC------------CCccc--cccccccccchhhhhhhccccCC-------
Q psy4830 183 ERPFQC--AVCSKRFTQKSSLNTHKRVHTGE------------RPYAC--DICDKRFAVKSYVTSHRWSHVGD------- 239 (292)
Q Consensus 183 ~~~~~C--~~C~k~f~~~~~L~~H~~~h~~~------------~~~~C--~~C~k~f~~~~~L~~H~~~h~~~------- 239 (292)
..-|.| +.|+..+..+..+.+|..+|... ..|.| .+|.+ +-+....|...|+..
T Consensus 269 rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrr 345 (480)
T KOG4377|consen 269 REHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRR 345 (480)
T ss_pred chhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceec
Confidence 345677 56998888899999999887532 12556 46888 445566777666432
Q ss_pred cceeCCccccccCChhHHHHHhhhhcCCC----------------CC------------cccC--CCCCCccChHHHHhh
Q psy4830 240 KPFGCTSCHLTFTSKSQFAVHLRTHHTVG----------------AN------------HVCN--VCGRSFVRDSYLIRH 289 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~~H~~~hh~~~----------------~~------------~~C~--~C~~~f~~~~~l~~H 289 (292)
--|.|.-||=++..+ ...|...| ..+ -+ |-|. -|+..|.+.+.|..|
T Consensus 346 thfhC~r~gCTdtfK--~~khk~yh-~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~sh 422 (480)
T KOG4377|consen 346 THFHCQRIGCTDTFK--DSKHKPYH-YKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASH 422 (480)
T ss_pred ceeEEeccCCccccc--cccccccc-cCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhh
Confidence 147898877444433 34443322 110 01 2233 288889999999888
Q ss_pred hcC
Q psy4830 290 QNK 292 (292)
Q Consensus 290 ~rk 292 (292)
.||
T Consensus 423 krk 425 (480)
T KOG4377|consen 423 KRK 425 (480)
T ss_pred hhh
Confidence 775
No 261
>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=24.66 E-value=52 Score=17.66 Aligned_cols=30 Identities=23% Similarity=0.533 Sum_probs=13.7
Q ss_pred CcceeCCccccccCChhHHHHHhhhhcCCCCCcccCCC
Q psy4830 239 DKPFGCTSCHLTFTSKSQFAVHLRTHHTVGANHVCNVC 276 (292)
Q Consensus 239 ~~~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~C~~C 276 (292)
+.....+ |+-.|-..- |..-++.. ..||+|
T Consensus 14 ~~~~~l~-C~H~fh~~C-i~~~~~~~------~~CP~C 43 (44)
T PF13639_consen 14 EKVVKLP-CGHVFHRSC-IKEWLKRN------NSCPVC 43 (44)
T ss_dssp SCEEEET-TSEEEEHHH-HHHHHHHS------SB-TTT
T ss_pred CeEEEcc-CCCeeCHHH-HHHHHHhC------CcCCcc
Confidence 3344444 666555432 44444432 267666
No 262
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=24.52 E-value=27 Score=23.22 Aligned_cols=22 Identities=18% Similarity=0.374 Sum_probs=16.4
Q ss_pred cceeCCccccccCChhHHHHHh
Q psy4830 240 KPFGCTSCHLTFTSKSQFAVHL 261 (292)
Q Consensus 240 ~~~~C~~C~~~f~~~~~L~~H~ 261 (292)
..+.|-.|.+-|.+...|..|.
T Consensus 54 GqhYCieCaryf~t~~aL~~Hk 75 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHK 75 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHh
Confidence 3467888888888888887774
No 263
>PRK04351 hypothetical protein; Provisional
Probab=24.44 E-value=30 Score=25.02 Aligned_cols=13 Identities=15% Similarity=0.406 Sum_probs=6.7
Q ss_pred CCcccCCCCCCcc
Q psy4830 269 ANHVCNVCGRSFV 281 (292)
Q Consensus 269 ~~~~C~~C~~~f~ 281 (292)
..|.|..|+-.+.
T Consensus 131 ~~yrCg~C~g~L~ 143 (149)
T PRK04351 131 KRYRCGKCRGKLK 143 (149)
T ss_pred CcEEeCCCCcEee
Confidence 3455655554443
No 264
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=24.32 E-value=24 Score=22.48 Aligned_cols=9 Identities=33% Similarity=1.224 Sum_probs=2.3
Q ss_pred CCccccccc
Q psy4830 184 RPFQCAVCS 192 (292)
Q Consensus 184 ~~~~C~~C~ 192 (292)
+.|.|+.|+
T Consensus 21 ~~F~CPfC~ 29 (81)
T PF05129_consen 21 KVFDCPFCN 29 (81)
T ss_dssp S----TTT-
T ss_pred ceEcCCcCC
Confidence 446666665
No 265
>PTZ00448 hypothetical protein; Provisional
Probab=24.17 E-value=50 Score=27.79 Aligned_cols=24 Identities=21% Similarity=0.598 Sum_probs=20.0
Q ss_pred ceeCCccccccCChhHHHHHhhhh
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRTH 264 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~h 264 (292)
.|.|..|+..|.+....+.|+++-
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 578999999998888888888763
No 266
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.71 E-value=35 Score=23.80 Aligned_cols=14 Identities=14% Similarity=0.330 Sum_probs=9.1
Q ss_pred CCccccccccccCCc
Q psy4830 184 RPFQCAVCSKRFTQK 198 (292)
Q Consensus 184 ~~~~C~~C~k~f~~~ 198 (292)
..+.| .||..|...
T Consensus 69 ~~~~C-~Cg~~~~~~ 82 (124)
T PRK00762 69 VEIEC-ECGYEGVVD 82 (124)
T ss_pred eeEEe-eCcCccccc
Confidence 34678 888776544
No 267
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=23.69 E-value=59 Score=17.62 Aligned_cols=8 Identities=38% Similarity=1.049 Sum_probs=3.4
Q ss_pred cccccccc
Q psy4830 215 ACDICDKR 222 (292)
Q Consensus 215 ~C~~C~k~ 222 (292)
.|.+|++.
T Consensus 13 ~C~~C~~~ 20 (49)
T smart00109 13 KCCVCRKS 20 (49)
T ss_pred Cccccccc
Confidence 34444443
No 268
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=23.27 E-value=42 Score=18.32 Aligned_cols=7 Identities=29% Similarity=0.785 Sum_probs=3.6
Q ss_pred ccccccc
Q psy4830 214 YACDICD 220 (292)
Q Consensus 214 ~~C~~C~ 220 (292)
..|+.||
T Consensus 3 ~~Cp~Cg 9 (47)
T PF14690_consen 3 PRCPHCG 9 (47)
T ss_pred ccCCCcC
Confidence 4455555
No 269
>PHA02998 RNA polymerase subunit; Provisional
Probab=23.13 E-value=39 Score=25.06 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=4.7
Q ss_pred eeCCcccccc
Q psy4830 242 FGCTSCHLTF 251 (292)
Q Consensus 242 ~~C~~C~~~f 251 (292)
|.|..||..|
T Consensus 172 YkC~~CG~~w 181 (195)
T PHA02998 172 HACRDCKKHF 181 (195)
T ss_pred EEcCCCCCcc
Confidence 4444444444
No 270
>PF12773 DZR: Double zinc ribbon
Probab=22.94 E-value=49 Score=18.41 Aligned_cols=10 Identities=20% Similarity=0.647 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy4830 215 ACDICDKRFA 224 (292)
Q Consensus 215 ~C~~C~k~f~ 224 (292)
.|+.||....
T Consensus 14 fC~~CG~~l~ 23 (50)
T PF12773_consen 14 FCPHCGTPLP 23 (50)
T ss_pred CChhhcCChh
Confidence 3666665544
No 271
>KOG3362|consensus
Probab=22.16 E-value=28 Score=24.66 Aligned_cols=23 Identities=22% Similarity=0.525 Sum_probs=15.9
Q ss_pred ceeCCccccccCChhHHHHHhhh
Q psy4830 241 PFGCTSCHLTFTSKSQFAVHLRT 263 (292)
Q Consensus 241 ~~~C~~C~~~f~~~~~L~~H~~~ 263 (292)
+|.|..||-.+-+..-|..|..+
T Consensus 129 ~ysC~~CG~kyCsv~C~~~HneT 151 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHNET 151 (156)
T ss_pred hhHHHhcCCceeechhhhhcccc
Confidence 46777777777777777776543
No 272
>KOG3002|consensus
Probab=21.89 E-value=77 Score=26.06 Aligned_cols=81 Identities=16% Similarity=0.202 Sum_probs=53.7
Q ss_pred CCCccccccccccCCchHHHHHHhhhcCCCCcccc----ccccccccchhhhhhhccccCCcceeCCccc---cccCChh
Q psy4830 183 ERPFQCAVCSKRFTQKSSLNTHKRVHTGERPYACD----ICDKRFAVKSYVTSHRWSHVGDKPFGCTSCH---LTFTSKS 255 (292)
Q Consensus 183 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~C~----~C~k~f~~~~~L~~H~~~h~~~~~~~C~~C~---~~f~~~~ 255 (292)
+....|+.|...+.... .++|..-.....+.|+ -|.++|..... ..|.+.-.. .||.||.=+ +--....
T Consensus 78 ~~~~~CP~Cr~~~g~~R--~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f-~~~~CP~p~~~C~~~G~~~ 153 (299)
T KOG3002|consen 78 KVSNKCPTCRLPIGNIR--CRAMEKVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEF-RPCSCPVPGAECKYTGSYK 153 (299)
T ss_pred hhcccCCccccccccHH--HHHHHHHHHhceecccccccCCceeeccccc-ccccccccc-CCcCCCCCcccCCccCcHH
Confidence 34578999998888553 3444443445567787 49999998777 677766555 677776531 2234456
Q ss_pred HHHHHhhhhcCC
Q psy4830 256 QFAVHLRTHHTV 267 (292)
Q Consensus 256 ~L~~H~~~hh~~ 267 (292)
.|..|.+.-|..
T Consensus 154 ~l~~H~~~~hk~ 165 (299)
T KOG3002|consen 154 DLYAHLNDTHKS 165 (299)
T ss_pred HHHHHHHhhChh
Confidence 888898776654
No 273
>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=21.68 E-value=1.3e+02 Score=15.37 Aligned_cols=9 Identities=22% Similarity=0.899 Sum_probs=5.3
Q ss_pred cccCCCCCC
Q psy4830 271 HVCNVCGRS 279 (292)
Q Consensus 271 ~~C~~C~~~ 279 (292)
..|++|...
T Consensus 36 ~~Cp~C~~~ 44 (45)
T cd00162 36 NTCPLCRTP 44 (45)
T ss_pred CCCCCCCCc
Confidence 457777653
No 274
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.50 E-value=83 Score=29.38 Aligned_cols=10 Identities=30% Similarity=0.929 Sum_probs=5.4
Q ss_pred CcccCCCCCC
Q psy4830 270 NHVCNVCGRS 279 (292)
Q Consensus 270 ~~~C~~C~~~ 279 (292)
+..|+.||..
T Consensus 421 ~~~Cp~Cg~~ 430 (679)
T PRK05580 421 PKACPECGST 430 (679)
T ss_pred CCCCCCCcCC
Confidence 4456666543
No 275
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.37 E-value=48 Score=19.69 Aligned_cols=12 Identities=25% Similarity=0.733 Sum_probs=7.6
Q ss_pred CcccCCCCCCcc
Q psy4830 270 NHVCNVCGRSFV 281 (292)
Q Consensus 270 ~~~C~~C~~~f~ 281 (292)
.-.|++|+..|.
T Consensus 48 ev~CPYC~t~y~ 59 (62)
T COG4391 48 EVVCPYCSTRYR 59 (62)
T ss_pred cEecCccccEEE
Confidence 445777776664
No 276
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=21.22 E-value=43 Score=22.90 Aligned_cols=10 Identities=40% Similarity=1.142 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy4830 214 YACDICDKRF 223 (292)
Q Consensus 214 ~~C~~C~k~f 223 (292)
|.|..||.++
T Consensus 101 y~C~~Cg~~w 110 (113)
T COG1594 101 YKCTRCGYRW 110 (113)
T ss_pred EEecccCCEe
Confidence 5555555544
No 277
>PRK12860 transcriptional activator FlhC; Provisional
Probab=21.03 E-value=58 Score=24.62 Aligned_cols=31 Identities=16% Similarity=0.156 Sum_probs=14.4
Q ss_pred cccCCchHHHHHHhhhcCCCCccccccccccc
Q psy4830 193 KRFTQKSSLNTHKRVHTGERPYACDICDKRFA 224 (292)
Q Consensus 193 k~f~~~~~L~~H~~~h~~~~~~~C~~C~k~f~ 224 (292)
-.|.....|.+.+..- .-..-.|..||-.|.
T Consensus 115 Ls~tRAw~LvRf~~s~-~L~l~~C~~Cgg~fv 145 (189)
T PRK12860 115 LDLTRAWTLVRFFDAG-MLQLARCCRCGGKFV 145 (189)
T ss_pred ecHHHHHHHHHHhcCC-CeeeccCCCCCCCee
Confidence 3444555555554422 112344666665554
No 278
>PRK01343 zinc-binding protein; Provisional
Probab=21.01 E-value=57 Score=19.15 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=7.1
Q ss_pred cccCCCCCCcc
Q psy4830 271 HVCNVCGRSFV 281 (292)
Q Consensus 271 ~~C~~C~~~f~ 281 (292)
..|++|++.+.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 45777777654
No 279
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=20.99 E-value=42 Score=20.49 Aligned_cols=10 Identities=40% Similarity=0.664 Sum_probs=4.6
Q ss_pred cceeCCccccc
Q psy4830 240 KPFGCTSCHLT 250 (292)
Q Consensus 240 ~~~~C~~C~~~ 250 (292)
+.-+| +||++
T Consensus 19 kTkkC-~CG~~ 28 (68)
T PF09082_consen 19 KTKKC-VCGKT 28 (68)
T ss_dssp SEEEE-TTTEE
T ss_pred ceeEe-cCCCe
Confidence 33445 55544
No 280
>PF01844 HNH: HNH endonuclease; InterPro: IPR002711 HNH endonuclease is found in bacteria and viruses [, , ]. This family includes pyocins, colicins and anaredoxins.; GO: 0003676 nucleic acid binding, 0004519 endonuclease activity; PDB: 2QGP_C.
Probab=20.96 E-value=23 Score=19.26 Aligned_cols=11 Identities=27% Similarity=0.848 Sum_probs=3.0
Q ss_pred cCCCCCCccCh
Q psy4830 273 CNVCGRSFVRD 283 (292)
Q Consensus 273 C~~C~~~f~~~ 283 (292)
|++|++.|...
T Consensus 1 C~~C~~~~~~~ 11 (47)
T PF01844_consen 1 CQYCGKPGSDN 11 (47)
T ss_dssp -TTT--B--GG
T ss_pred CCCCCCcCccC
Confidence 45555555443
No 281
>PLN03239 histone acetyltransferase; Provisional
Probab=20.71 E-value=47 Score=27.75 Aligned_cols=23 Identities=22% Similarity=0.235 Sum_probs=15.1
Q ss_pred CcceeCCccccccCChhHHHHHh
Q psy4830 239 DKPFGCTSCHLTFTSKSQFAVHL 261 (292)
Q Consensus 239 ~~~~~C~~C~~~f~~~~~L~~H~ 261 (292)
+..|.|+.|-+-|.+...|.+|+
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~ 126 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQ 126 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHH
Confidence 34567777777666666666664
No 282
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=20.70 E-value=42 Score=19.54 Aligned_cols=11 Identities=27% Similarity=0.760 Sum_probs=3.4
Q ss_pred cceeCCccccc
Q psy4830 240 KPFGCTSCHLT 250 (292)
Q Consensus 240 ~~~~C~~C~~~ 250 (292)
+.|.|++||.+
T Consensus 32 r~y~Cp~CgAt 42 (55)
T PF05741_consen 32 RKYVCPICGAT 42 (55)
T ss_dssp GG---TTT---
T ss_pred hcCcCCCCcCc
Confidence 34778888754
No 283
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=20.30 E-value=48 Score=17.29 Aligned_cols=6 Identities=33% Similarity=1.420 Sum_probs=2.6
Q ss_pred cccccc
Q psy4830 216 CDICDK 221 (292)
Q Consensus 216 C~~C~k 221 (292)
|++|+.
T Consensus 11 C~~C~~ 16 (36)
T PF11781_consen 11 CPVCGS 16 (36)
T ss_pred CCCCCC
Confidence 444443
No 284
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=20.29 E-value=77 Score=17.79 Aligned_cols=10 Identities=50% Similarity=1.145 Sum_probs=4.1
Q ss_pred Cccccccccc
Q psy4830 213 PYACDICDKR 222 (292)
Q Consensus 213 ~~~C~~C~k~ 222 (292)
|-.|.+|++.
T Consensus 11 ~~~C~~C~~~ 20 (53)
T PF00130_consen 11 PTYCDVCGKF 20 (53)
T ss_dssp TEB-TTSSSB
T ss_pred CCCCcccCcc
Confidence 3445555443
No 285
>KOG4118|consensus
Probab=20.17 E-value=83 Score=18.90 Aligned_cols=26 Identities=19% Similarity=0.526 Sum_probs=15.4
Q ss_pred cccccchhhcCChhHHHHHHhhcCCC
Q psy4830 38 FQCVVCLKRFSQKSALNTHKRMHIPY 63 (292)
Q Consensus 38 ~~C~~C~~~f~~~~~l~~H~~~h~~~ 63 (292)
|+|.+|-........+..|...-++.
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk 64 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPK 64 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCC
Confidence 56666666666666666665544443
Done!