Query psy2838
Match_columns 458
No_of_seqs 673 out of 2761
Neff 9.3
Searched_HMMs 46136
Date Fri Aug 16 18:11:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2838.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2838hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 99.9 1.6E-28 3.5E-33 245.4 2.6 59 321-379 880-938 (958)
2 KOG2462|consensus 99.9 1.8E-27 3.8E-32 211.6 6.0 133 237-371 131-266 (279)
3 KOG2462|consensus 99.9 1.9E-27 4.2E-32 211.4 5.4 135 178-314 128-265 (279)
4 KOG1074|consensus 99.9 1.7E-26 3.7E-31 231.0 3.6 141 209-349 606-936 (958)
5 KOG3608|consensus 99.9 1.6E-24 3.4E-29 197.1 6.9 225 147-374 131-378 (467)
6 KOG3608|consensus 99.9 1.3E-23 2.7E-28 191.3 9.0 208 179-389 133-365 (467)
7 KOG3623|consensus 99.9 3.4E-24 7.4E-29 210.9 3.8 109 149-257 209-330 (1007)
8 KOG3623|consensus 99.9 2.6E-22 5.6E-27 197.8 5.1 105 180-284 210-329 (1007)
9 KOG3576|consensus 99.7 2.1E-18 4.5E-23 145.8 2.7 115 262-376 115-240 (267)
10 KOG3576|consensus 99.7 3.1E-17 6.6E-22 138.8 2.3 86 177-262 114-199 (267)
11 PLN03086 PRLI-interacting fact 99.4 1.7E-12 3.6E-17 130.4 10.4 146 209-373 408-565 (567)
12 PLN03086 PRLI-interacting fact 99.4 6.2E-13 1.3E-17 133.5 7.0 148 179-345 406-565 (567)
13 KOG3993|consensus 99.1 5.2E-12 1.1E-16 118.7 -0.9 195 180-374 267-484 (500)
14 PF01352 KRAB: KRAB box; Inte 99.1 1.2E-12 2.7E-17 83.8 -4.1 36 43-78 1-37 (41)
15 PHA00733 hypothetical protein 99.1 1.7E-10 3.8E-15 94.9 4.9 80 292-374 40-125 (128)
16 KOG3993|consensus 99.0 1.9E-11 4.2E-16 114.9 -2.8 192 150-345 267-483 (500)
17 PHA00733 hypothetical protein 99.0 3.5E-10 7.5E-15 93.2 3.9 81 263-345 39-124 (128)
18 PHA02768 hypothetical protein; 98.8 3.2E-09 6.9E-14 71.8 1.6 42 293-336 6-47 (55)
19 PHA02768 hypothetical protein; 98.7 9.2E-09 2E-13 69.6 2.4 43 209-253 6-48 (55)
20 PF13465 zf-H2C2_2: Zinc-finge 98.4 2E-07 4.2E-12 53.8 1.6 26 307-332 1-26 (26)
21 PF13465 zf-H2C2_2: Zinc-finge 98.3 5.7E-07 1.2E-11 51.9 2.5 25 223-247 1-25 (26)
22 PF06524 NOA36: NOA36 protein; 98.1 2.6E-06 5.6E-11 75.7 4.8 95 259-372 137-233 (314)
23 PHA00732 hypothetical protein 98.1 1.6E-06 3.4E-11 64.7 2.4 45 293-342 2-46 (79)
24 PHA00616 hypothetical protein 98.1 1.5E-06 3.2E-11 56.0 1.9 31 349-379 2-32 (44)
25 PHA00616 hypothetical protein 98.1 1.6E-06 3.6E-11 55.7 1.4 32 293-324 2-33 (44)
26 PF05605 zf-Di19: Drought indu 98.0 7.6E-06 1.7E-10 56.6 4.4 51 320-373 2-54 (54)
27 PHA00732 hypothetical protein 98.0 4.4E-06 9.5E-11 62.3 2.7 44 209-257 2-45 (79)
28 PF05605 zf-Di19: Drought indu 97.9 1.7E-05 3.6E-10 54.9 4.4 50 180-232 2-53 (54)
29 KOG2231|consensus 97.6 0.00023 5.1E-09 73.2 9.5 48 293-344 183-236 (669)
30 PF06524 NOA36: NOA36 protein; 97.6 0.00012 2.5E-09 65.5 5.8 85 286-393 136-226 (314)
31 PF12756 zf-C2H2_2: C2H2 type 97.5 4.8E-05 1E-09 60.1 2.5 74 294-372 1-74 (100)
32 PF00096 zf-C2H2: Zinc finger, 97.5 7.6E-05 1.7E-09 41.6 2.0 21 350-370 2-22 (23)
33 KOG1146|consensus 97.5 1.2E-05 2.5E-10 86.9 -2.7 49 321-369 735-790 (1406)
34 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00012 2.7E-09 41.0 2.3 24 349-372 1-24 (24)
35 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00014 3E-09 57.4 2.8 22 264-285 50-71 (100)
36 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00012 2.7E-09 41.0 1.7 23 321-343 1-23 (24)
37 COG5236 Uncharacterized conser 97.3 0.00034 7.5E-09 65.0 5.2 78 293-374 221-307 (493)
38 KOG2231|consensus 97.3 0.00041 9E-09 71.4 5.7 104 210-324 117-240 (669)
39 COG5189 SFP1 Putative transcri 97.1 0.00013 2.9E-09 66.9 0.4 23 317-339 395-417 (423)
40 KOG1146|consensus 97.0 0.00071 1.5E-08 73.7 5.0 106 153-259 439-612 (1406)
41 COG5236 Uncharacterized conser 97.0 0.0015 3.2E-08 60.9 5.8 128 209-346 152-307 (493)
42 PF13912 zf-C2H2_6: C2H2-type 97.0 0.00042 9.1E-09 40.2 1.5 20 321-340 2-21 (27)
43 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00058 1.3E-08 39.6 1.6 24 180-203 1-24 (27)
44 PF13909 zf-H2C2_5: C2H2-type 96.6 0.0013 2.8E-08 36.9 1.7 24 349-373 1-24 (24)
45 COG5189 SFP1 Putative transcri 96.6 0.0011 2.4E-08 61.1 1.8 70 178-257 347-419 (423)
46 KOG2482|consensus 96.5 0.0036 7.9E-08 58.4 4.8 51 321-371 280-357 (423)
47 KOG2785|consensus 96.2 0.0073 1.6E-07 57.6 5.3 52 320-371 166-243 (390)
48 PF09237 GAGA: GAGA factor; I 96.1 0.0042 9.1E-08 41.0 2.1 28 348-375 24-51 (54)
49 PF09237 GAGA: GAGA factor; I 96.1 0.0029 6.2E-08 41.8 1.3 31 317-347 21-51 (54)
50 smart00355 ZnF_C2H2 zinc finge 96.1 0.0057 1.2E-07 34.6 2.5 23 349-371 1-23 (26)
51 COG5048 FOG: Zn-finger [Genera 96.0 0.0019 4.2E-08 65.3 0.2 144 208-351 289-449 (467)
52 PF13909 zf-H2C2_5: C2H2-type 95.9 0.0042 9E-08 34.8 1.4 23 321-344 1-23 (24)
53 KOG2482|consensus 95.9 0.017 3.6E-07 54.1 5.9 22 321-342 335-356 (423)
54 smart00355 ZnF_C2H2 zinc finge 95.9 0.0063 1.4E-07 34.4 2.1 20 322-341 2-21 (26)
55 KOG2785|consensus 95.6 0.028 6.1E-07 53.7 6.4 50 293-342 167-242 (390)
56 PF12874 zf-met: Zinc-finger o 95.6 0.008 1.7E-07 34.0 1.8 20 294-313 2-21 (25)
57 COG5048 FOG: Zn-finger [Genera 95.6 0.002 4.4E-08 65.1 -1.3 159 179-338 288-463 (467)
58 PF12874 zf-met: Zinc-finger o 95.6 0.0058 1.3E-07 34.6 1.1 22 349-370 1-22 (25)
59 PRK04860 hypothetical protein; 95.2 0.012 2.6E-07 50.4 2.2 37 292-332 119-155 (160)
60 PF12171 zf-C2H2_jaz: Zinc-fin 95.0 0.0062 1.3E-07 35.3 -0.2 21 349-369 2-22 (27)
61 PRK04860 hypothetical protein; 94.9 0.017 3.7E-07 49.5 2.2 26 222-247 129-154 (160)
62 PF12171 zf-C2H2_jaz: Zinc-fin 94.4 0.017 3.7E-07 33.4 0.7 21 293-313 2-22 (27)
63 KOG4173|consensus 94.2 0.021 4.6E-07 49.5 1.2 29 317-345 141-171 (253)
64 KOG2893|consensus 94.1 0.02 4.4E-07 50.7 1.0 49 209-261 11-59 (341)
65 KOG4173|consensus 93.1 0.031 6.8E-07 48.5 0.4 52 178-232 77-130 (253)
66 cd07765 KRAB_A-box KRAB (Krupp 93.1 0.0079 1.7E-07 36.2 -2.6 29 43-71 1-29 (40)
67 TIGR00622 ssl1 transcription f 92.5 0.14 3.1E-06 40.6 3.3 23 293-315 82-104 (112)
68 KOG2893|consensus 92.5 0.028 6.1E-07 49.9 -0.7 46 295-344 13-58 (341)
69 PF12013 DUF3505: Protein of u 91.8 0.26 5.6E-06 39.5 4.2 25 349-373 81-109 (109)
70 smart00451 ZnF_U1 U1-like zinc 91.2 0.17 3.6E-06 31.1 1.9 23 348-370 3-25 (35)
71 PF13913 zf-C2HC_2: zinc-finge 90.9 0.21 4.6E-06 28.2 2.0 19 350-369 4-22 (25)
72 PF13913 zf-C2HC_2: zinc-finge 90.4 0.25 5.5E-06 27.9 2.0 18 210-228 4-21 (25)
73 PF12013 DUF3505: Protein of u 89.5 0.45 9.7E-06 38.1 3.7 24 209-233 12-35 (109)
74 PF09538 FYDLN_acid: Protein o 89.3 0.74 1.6E-05 36.6 4.6 29 321-360 10-38 (108)
75 smart00451 ZnF_U1 U1-like zinc 88.0 0.43 9.4E-06 29.2 2.1 22 293-314 4-25 (35)
76 COG4049 Uncharacterized protei 87.6 0.25 5.3E-06 33.3 0.8 27 347-373 16-42 (65)
77 cd00350 rubredoxin_like Rubred 87.2 0.36 7.7E-06 29.4 1.3 11 293-303 2-12 (33)
78 TIGR00622 ssl1 transcription f 86.0 1.3 2.8E-05 35.2 4.2 45 238-284 57-101 (112)
79 COG4049 Uncharacterized protei 85.5 0.34 7.4E-06 32.7 0.6 30 316-345 13-42 (65)
80 KOG2186|consensus 85.0 0.36 7.7E-06 43.7 0.7 46 209-257 4-49 (276)
81 PF09538 FYDLN_acid: Protein o 84.2 0.57 1.2E-05 37.2 1.5 34 289-333 6-39 (108)
82 KOG0943|consensus 82.0 1.5 3.3E-05 48.2 3.9 10 178-187 1255-1264(3015)
83 PF02892 zf-BED: BED zinc fing 80.8 1.1 2.3E-05 29.3 1.6 24 349-372 17-44 (45)
84 KOG1832|consensus 80.7 0.72 1.6E-05 49.2 1.1 14 352-365 1303-1316(1516)
85 PF09986 DUF2225: Uncharacteri 78.7 0.47 1E-05 43.0 -0.9 13 293-305 6-18 (214)
86 KOG2186|consensus 78.7 1 2.2E-05 40.8 1.3 55 264-321 3-57 (276)
87 TIGR02300 FYDLN_acid conserved 74.5 1.8 4E-05 35.0 1.5 14 348-361 26-39 (129)
88 PF09986 DUF2225: Uncharacteri 73.4 1.7 3.8E-05 39.3 1.3 23 235-257 4-26 (214)
89 PF04959 ARS2: Arsenite-resist 73.2 1.5 3.2E-05 39.5 0.8 26 320-345 77-102 (214)
90 cd00729 rubredoxin_SM Rubredox 72.6 2.2 4.7E-05 26.1 1.2 10 293-302 3-12 (34)
91 PF13717 zinc_ribbon_4: zinc-r 72.6 3.3 7.1E-05 25.7 2.0 10 238-247 4-13 (36)
92 PF13719 zinc_ribbon_5: zinc-r 72.4 3.2 7E-05 25.9 2.0 9 239-247 5-13 (37)
93 TIGR02300 FYDLN_acid conserved 72.4 7.5 0.00016 31.5 4.5 31 346-387 7-37 (129)
94 PF10571 UPF0547: Uncharacteri 72.3 2.5 5.5E-05 24.1 1.3 10 350-359 16-25 (26)
95 COG2888 Predicted Zn-ribbon RN 71.7 3.1 6.7E-05 28.7 1.9 9 348-356 50-58 (61)
96 KOG4124|consensus 69.8 0.74 1.6E-05 43.6 -1.9 51 206-257 176-233 (442)
97 PF02892 zf-BED: BED zinc fing 69.4 3.3 7.2E-05 26.9 1.7 24 319-342 15-42 (45)
98 smart00531 TFIIE Transcription 69.3 5.2 0.00011 33.9 3.2 11 293-303 100-110 (147)
99 TIGR02098 MJ0042_CXXC MJ0042 f 69.2 3.7 8.1E-05 25.6 1.8 9 238-246 4-12 (38)
100 KOG1189|consensus 69.0 4.8 0.0001 42.4 3.4 20 44-63 434-453 (960)
101 PRK00464 nrdR transcriptional 67.8 2.4 5.1E-05 36.1 0.8 16 237-252 29-44 (154)
102 PRK00464 nrdR transcriptional 67.5 1.2 2.6E-05 37.9 -1.0 12 349-360 29-40 (154)
103 PRK14890 putative Zn-ribbon RN 66.8 3.7 8.1E-05 28.4 1.5 9 348-356 48-56 (59)
104 PF02176 zf-TRAF: TRAF-type zi 65.6 5.1 0.00011 27.8 2.1 6 264-269 38-43 (60)
105 smart00659 RPOLCX RNA polymera 64.6 3.4 7.4E-05 26.9 0.9 11 293-303 3-13 (44)
106 PF12907 zf-met2: Zinc-binding 64.2 5.2 0.00011 25.4 1.7 12 334-345 18-29 (40)
107 KOG2807|consensus 64.2 5.5 0.00012 37.7 2.5 85 236-355 276-374 (378)
108 TIGR00373 conserved hypothetic 64.0 6.7 0.00014 33.7 2.9 16 293-308 110-125 (158)
109 smart00614 ZnF_BED BED zinc fi 64.0 5.2 0.00011 26.8 1.8 25 349-373 19-48 (50)
110 PF02176 zf-TRAF: TRAF-type zi 61.8 2.9 6.3E-05 29.1 0.2 24 335-358 25-52 (60)
111 COG1592 Rubrerythrin [Energy p 61.2 5 0.00011 34.5 1.6 23 292-327 134-156 (166)
112 PF15269 zf-C2H2_7: Zinc-finge 60.0 6.9 0.00015 25.2 1.6 23 349-371 21-43 (54)
113 PF09723 Zn-ribbon_8: Zinc rib 59.5 2.9 6.4E-05 26.9 -0.1 11 293-303 6-16 (42)
114 TIGR00373 conserved hypothetic 58.9 8.7 0.00019 33.0 2.7 16 209-224 110-125 (158)
115 KOG1832|consensus 58.5 3.5 7.7E-05 44.2 0.3 9 326-334 1305-1313(1516)
116 PHA00626 hypothetical protein 58.5 5.8 0.00013 27.0 1.2 10 265-274 24-33 (59)
117 PRK06266 transcription initiat 58.4 7.9 0.00017 33.9 2.4 15 293-307 118-132 (178)
118 PRK00398 rpoP DNA-directed RNA 58.1 6.8 0.00015 25.7 1.5 9 237-245 4-12 (46)
119 TIGR02605 CxxC_CxxC_SSSS putat 56.3 5.5 0.00012 26.8 0.9 10 237-246 6-15 (52)
120 smart00834 CxxC_CXXC_SSSS Puta 55.5 5.8 0.00013 25.1 0.8 11 237-247 6-16 (41)
121 PF15269 zf-C2H2_7: Zinc-finge 55.3 8.8 0.00019 24.7 1.6 23 180-202 20-42 (54)
122 COG5151 SSL1 RNA polymerase II 55.1 3.8 8.2E-05 38.3 -0.1 74 263-341 321-409 (421)
123 PRK04023 DNA polymerase II lar 54.9 10 0.00022 41.7 2.9 24 67-97 408-431 (1121)
124 KOG1701|consensus 54.3 3.1 6.6E-05 40.8 -0.9 41 210-250 276-316 (468)
125 smart00734 ZnF_Rad18 Rad18-lik 54.2 12 0.00025 21.3 1.8 19 350-369 3-21 (26)
126 COG1996 RPC10 DNA-directed RNA 54.1 6.8 0.00015 26.1 1.0 10 293-302 7-16 (49)
127 PRK04023 DNA polymerase II lar 54.1 11 0.00024 41.4 3.1 11 179-189 625-635 (1121)
128 smart00531 TFIIE Transcription 53.8 16 0.00034 30.9 3.4 12 209-220 100-111 (147)
129 KOG1280|consensus 52.9 11 0.00023 36.1 2.4 26 293-318 80-105 (381)
130 PRK06266 transcription initiat 52.1 12 0.00026 32.8 2.5 13 209-221 118-130 (178)
131 COG1997 RPL43A Ribosomal prote 51.7 4.8 0.0001 30.2 -0.0 10 321-330 54-63 (89)
132 KOG3408|consensus 51.3 8.5 0.00018 30.8 1.3 26 347-372 56-81 (129)
133 PRK09678 DNA-binding transcrip 51.2 2.9 6.4E-05 30.5 -1.2 42 209-252 2-45 (72)
134 PF03604 DNA_RNApol_7kD: DNA d 51.1 11 0.00024 22.7 1.4 7 209-215 18-24 (32)
135 KOG1701|consensus 50.7 1.8 3.8E-05 42.4 -3.1 12 180-191 302-313 (468)
136 PF05443 ROS_MUCR: ROS/MUCR tr 47.7 10 0.00023 31.3 1.3 25 348-375 72-96 (132)
137 KOG2593|consensus 47.6 16 0.00036 36.1 2.9 33 293-328 129-161 (436)
138 PRK09678 DNA-binding transcrip 47.4 7.6 0.00017 28.3 0.5 39 237-277 2-42 (72)
139 PF09845 DUF2072: Zn-ribbon co 46.9 31 0.00067 28.3 3.9 12 350-361 3-14 (131)
140 PF04959 ARS2: Arsenite-resist 46.9 10 0.00023 34.1 1.3 28 292-319 77-104 (214)
141 KOG2807|consensus 46.1 25 0.00053 33.5 3.6 32 346-383 343-374 (378)
142 KOG1044|consensus 45.7 3.9 8.5E-05 41.7 -1.7 92 264-364 133-234 (670)
143 PF14353 CpXC: CpXC protein 45.6 5.7 0.00012 32.7 -0.5 21 237-257 39-59 (128)
144 TIGR01384 TFS_arch transcripti 44.6 4.4 9.6E-05 32.0 -1.3 12 236-247 16-27 (104)
145 KOG0943|consensus 44.0 17 0.00037 40.7 2.5 9 149-157 1256-1264(3015)
146 PF05443 ROS_MUCR: ROS/MUCR tr 44.0 14 0.00031 30.5 1.6 23 293-318 73-95 (132)
147 KOG1280|consensus 43.6 18 0.00038 34.7 2.3 36 180-215 79-116 (381)
148 KOG1834|consensus 43.1 15 0.00033 38.2 1.9 8 103-110 371-378 (952)
149 COG1592 Rubrerythrin [Energy p 42.7 15 0.00033 31.6 1.7 23 236-271 134-156 (166)
150 KOG4377|consensus 42.7 14 0.00031 36.1 1.6 21 353-373 408-428 (480)
151 KOG1189|consensus 42.4 18 0.0004 38.3 2.4 10 44-53 381-390 (960)
152 PF03344 Daxx: Daxx Family; I 41.9 8.5 0.00018 41.3 0.0 9 63-71 81-89 (713)
153 COG5188 PRP9 Splicing factor 3 41.5 16 0.00034 35.0 1.6 47 293-339 239-394 (470)
154 COG4957 Predicted transcriptio 41.1 15 0.00032 30.1 1.2 23 209-234 77-99 (148)
155 KOG4167|consensus 40.1 7.1 0.00015 41.0 -0.9 25 209-233 793-817 (907)
156 PF12760 Zn_Tnp_IS1595: Transp 39.9 47 0.001 21.7 3.3 9 263-271 36-44 (46)
157 KOG3214|consensus 39.6 11 0.00024 29.0 0.3 40 319-362 22-61 (109)
158 PRK14714 DNA polymerase II lar 38.8 28 0.0006 39.5 3.2 25 67-98 428-452 (1337)
159 KOG4377|consensus 37.5 19 0.00042 35.2 1.6 24 321-344 402-427 (480)
160 PF08274 PhnA_Zn_Ribbon: PhnA 37.4 14 0.0003 21.9 0.4 8 348-355 19-26 (30)
161 KOG4167|consensus 37.3 9.6 0.00021 40.1 -0.5 27 179-205 791-817 (907)
162 KOG1924|consensus 36.8 33 0.00071 36.7 3.2 6 104-109 644-649 (1102)
163 PF05285 SDA1: SDA1; InterPro 36.7 49 0.0011 32.1 4.3 13 362-374 25-37 (324)
164 KOG0262|consensus 36.1 31 0.00067 38.9 3.0 22 16-37 676-697 (1640)
165 COG4530 Uncharacterized protei 36.0 19 0.00041 28.3 1.0 11 348-358 26-36 (129)
166 PF14283 DUF4366: Domain of un 35.9 11 0.00024 34.2 -0.3 6 278-283 108-113 (218)
167 COG1198 PriA Primosomal protei 35.8 22 0.00048 38.4 1.9 14 260-273 471-484 (730)
168 COG1198 PriA Primosomal protei 35.0 10 0.00022 40.8 -0.7 46 181-245 436-484 (730)
169 PF04889 Cwf_Cwc_15: Cwf15/Cwc 35.0 28 0.0006 32.2 2.2 6 363-368 58-63 (244)
170 PF07975 C1_4: TFIIH C1-like d 34.8 16 0.00035 24.7 0.4 20 293-312 22-41 (51)
171 PTZ00303 phosphatidylinositol 32.7 15 0.00033 39.0 0.2 11 182-192 462-472 (1374)
172 smart00440 ZnF_C2C2 C2C2 Zinc 32.6 20 0.00043 22.8 0.6 11 264-274 28-38 (40)
173 PRK14714 DNA polymerase II lar 32.4 36 0.00079 38.7 2.9 11 236-246 692-702 (1337)
174 PF05191 ADK_lid: Adenylate ki 31.4 23 0.00049 22.0 0.7 9 238-246 3-11 (36)
175 KOG3540|consensus 31.2 31 0.00067 34.6 1.9 9 260-268 112-120 (615)
176 KOG2593|consensus 31.1 58 0.0013 32.4 3.7 34 209-245 129-162 (436)
177 PF01096 TFIIS_C: Transcriptio 30.8 13 0.00029 23.4 -0.4 12 263-274 27-38 (39)
178 smart00349 KRAB krueppel assoc 30.6 6 0.00013 25.0 -2.3 29 43-71 1-29 (61)
179 COG3357 Predicted transcriptio 30.5 27 0.00059 26.5 1.1 12 209-220 59-70 (97)
180 PRK00432 30S ribosomal protein 30.5 18 0.0004 24.2 0.2 11 348-358 37-47 (50)
181 PF07754 DUF1610: Domain of un 30.3 22 0.00048 19.8 0.4 8 320-327 16-23 (24)
182 PF06220 zf-U1: U1 zinc finger 30.0 38 0.00083 21.2 1.6 12 348-359 3-14 (38)
183 COG1998 RPS31 Ribosomal protei 29.9 30 0.00064 23.0 1.0 10 348-357 37-46 (51)
184 smart00735 ZM ZASP-like motif. 29.5 27 0.00058 19.8 0.7 22 2-23 3-24 (26)
185 COG0068 HypF Hydrogenase matur 29.5 10 0.00022 40.0 -1.7 81 151-245 102-182 (750)
186 KOG3555|consensus 29.2 45 0.00098 32.1 2.5 25 215-239 155-179 (434)
187 KOG0717|consensus 29.0 32 0.00069 34.5 1.6 22 349-370 293-314 (508)
188 KOG2907|consensus 28.9 32 0.0007 27.2 1.3 8 183-190 28-35 (116)
189 COG5406 Nucleosome binding fac 28.4 42 0.0009 35.0 2.3 30 41-70 475-504 (1001)
190 KOG0782|consensus 28.4 21 0.00045 36.5 0.2 27 279-305 240-266 (1004)
191 KOG3214|consensus 28.3 26 0.00056 27.0 0.7 7 349-355 24-30 (109)
192 COG3091 SprT Zn-dependent meta 28.1 26 0.00056 29.5 0.7 8 348-355 140-147 (156)
193 PRK03824 hypA hydrogenase nick 27.3 36 0.00078 28.3 1.4 10 237-246 71-80 (135)
194 PF13878 zf-C2H2_3: zinc-finge 27.0 65 0.0014 20.5 2.3 10 182-191 15-24 (41)
195 PF05495 zf-CHY: CHY zinc fing 26.4 21 0.00046 25.9 -0.1 11 236-246 41-51 (71)
196 PF13821 DUF4187: Domain of un 26.1 65 0.0014 22.1 2.3 18 349-366 28-45 (55)
197 COG4957 Predicted transcriptio 25.8 43 0.00092 27.5 1.5 22 293-317 77-98 (148)
198 TIGR01206 lysW lysine biosynth 25.4 25 0.00053 24.1 0.1 7 238-244 24-30 (54)
199 PRK03564 formate dehydrogenase 25.2 39 0.00085 32.4 1.5 49 179-244 186-234 (309)
200 COG5112 UFD2 U1-like Zn-finger 25.2 29 0.00062 27.1 0.4 24 348-371 55-78 (126)
201 PF13453 zf-TFIIB: Transcripti 24.9 41 0.00088 21.3 1.1 12 351-362 22-33 (41)
202 PF08790 zf-LYAR: LYAR-type C2 24.8 38 0.00082 19.7 0.8 9 238-246 2-10 (28)
203 COG2879 Uncharacterized small 24.7 69 0.0015 22.5 2.2 18 360-377 24-41 (65)
204 PF04780 DUF629: Protein of un 24.4 52 0.0011 33.4 2.2 26 350-375 59-84 (466)
205 PF09416 UPF1_Zn_bind: RNA hel 23.7 78 0.0017 26.8 2.8 10 235-244 59-68 (152)
206 PF14311 DUF4379: Domain of un 23.0 47 0.001 22.6 1.2 10 293-302 29-38 (55)
207 COG5151 SSL1 RNA polymerase II 22.6 88 0.0019 29.6 3.1 91 209-315 309-411 (421)
208 PF04780 DUF629: Protein of un 22.4 54 0.0012 33.3 1.9 25 321-345 58-82 (466)
209 COG3364 Zn-ribbon containing p 22.4 49 0.0011 25.7 1.2 14 180-193 2-15 (112)
210 PF15135 UPF0515: Uncharacteri 22.3 78 0.0017 29.0 2.6 14 263-276 154-167 (278)
211 PF03115 Astro_capsid: Astrovi 22.3 29 0.00063 37.7 0.0 54 12-71 152-205 (787)
212 KOG4124|consensus 21.4 25 0.00054 33.7 -0.6 21 178-199 211-231 (442)
213 COG3091 SprT Zn-dependent meta 21.3 45 0.00098 28.1 0.9 11 264-275 117-127 (156)
214 COG2331 Uncharacterized protei 21.1 41 0.00088 24.6 0.5 33 179-218 11-43 (82)
215 PF01363 FYVE: FYVE zinc finge 21.0 60 0.0013 23.1 1.4 9 210-218 11-19 (69)
216 KOG0978|consensus 20.6 48 0.001 35.4 1.1 18 238-255 680-697 (698)
217 PF13451 zf-trcl: Probable zin 20.5 45 0.00098 22.3 0.6 14 320-333 4-17 (49)
218 PRK12380 hydrogenase nickel in 20.5 49 0.0011 26.5 0.9 10 293-302 71-80 (113)
219 TIGR00100 hypA hydrogenase nic 20.2 47 0.001 26.7 0.8 10 293-302 71-80 (115)
220 COG1655 Uncharacterized protei 20.2 44 0.00095 30.2 0.6 18 235-252 18-35 (267)
221 TIGR00244 transcriptional regu 20.1 49 0.0011 27.8 0.9 15 237-251 29-43 (147)
222 PF01780 Ribosomal_L37ae: Ribo 20.1 35 0.00075 26.1 -0.0 10 321-330 54-63 (90)
223 KOG3408|consensus 20.0 67 0.0015 25.9 1.6 27 176-202 53-79 (129)
No 1
>KOG1074|consensus
Probab=99.94 E-value=1.6e-28 Score=245.40 Aligned_cols=59 Identities=17% Similarity=0.277 Sum_probs=54.0
Q ss_pred ccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHHHHHHHHHhCCCCCccc
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRALTAHVREAHPGCEYKK 379 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~ 379 (458)
..|..|++.|...+.|..|+++|.+.++|.|.+|++.|..+.+|+.||.+|+...+...
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~sr 938 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSR 938 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCcc
Confidence 67999999999999999999999999999999999999999999999999987655443
No 2
>KOG2462|consensus
Probab=99.94 E-value=1.8e-27 Score=211.64 Aligned_cols=133 Identities=26% Similarity=0.555 Sum_probs=105.2
Q ss_pred eecCccccccCCchhhhhccchhcc---CcceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHh
Q psy2838 237 FKCDHCVKSFNQKPNLISHIKSVHE---GIKYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMT 313 (458)
Q Consensus 237 ~~C~~C~~~f~~~~~L~~H~~~~~~---~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~ 313 (458)
|+|+.|++.+.+.++|.+|..+|.. .+.+.|.+|+|.|.+...|+.|+++|. .++.|.+|||.|.+...|+.|+|
T Consensus 131 ~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred eeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccc
Confidence 5555555555555555555554432 366888888888888888888886654 45888889999988888999999
Q ss_pred hhccCccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHHHHHHHHHh
Q psy2838 314 TVHQAQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRALTAHVREA 371 (458)
Q Consensus 314 ~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~ 371 (458)
+|+|+|||.|+.|++.|..+++|+.||++|...++|+|..|+|.|..++.|.+|....
T Consensus 209 THTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 209 THTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESA 266 (279)
T ss_pred cccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhc
Confidence 9999999999999999999999999998888888888999999999999999987643
No 3
>KOG2462|consensus
Probab=99.94 E-value=1.9e-27 Score=211.38 Aligned_cols=135 Identities=27% Similarity=0.564 Sum_probs=121.4
Q ss_pred CCcccccccccccCCHHHHHHHHHhhcC---CCccccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhh
Q psy2838 178 VKKFPCDQCGKSFTLKQNLTYHVNSIHL---GVRIKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLIS 254 (458)
Q Consensus 178 ~k~~~C~~C~~~f~~~~~L~~H~~~~h~---~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~ 254 (458)
...|+|..|++.|.+.++|.+|.+.|-. .+.+.|++|+|.|.+...|+.|+++|. .+++|.+|||.|...+.|+-
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 4579999999999999999999986643 234899999999999999999999997 68999999999999999999
Q ss_pred ccchhccCcceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHhh
Q psy2838 255 HIKSVHEGIKYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMTT 314 (458)
Q Consensus 255 H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~ 314 (458)
|+|+|+|+|||.|..|++.|..+++|+.||++|...++|+|..|+|+|...+.|.+|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999988888889999999999988888888764
No 4
>KOG1074|consensus
Probab=99.92 E-value=1.7e-26 Score=230.96 Aligned_cols=141 Identities=23% Similarity=0.447 Sum_probs=125.8
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccchhccC----cceecC---cccccccCHHHHH
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIKSVHEG----IKYKCE---ECTKTFAQKQNLL 281 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~~~~----~~~~C~---~C~~~f~~~~~L~ 281 (458)
-.|-+|.++....+.|+.|.++|+|++||+|.+|++.|.++.+|+.||-.|... ..|.|+ +|.+.|.+.-.|.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lp 685 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLP 685 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccccc
Confidence 469999999999999999999999999999999999999999999999865543 458899 9999999999999
Q ss_pred HHHHHhhcCc----------------------------------------------------------------------
Q psy2838 282 SHVQAIHMGI---------------------------------------------------------------------- 291 (458)
Q Consensus 282 ~H~~~~h~~~---------------------------------------------------------------------- 291 (458)
.|++.|.++.
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 9986654211
Q ss_pred --------------------------------------------------------------------------------
Q psy2838 292 -------------------------------------------------------------------------------- 291 (458)
Q Consensus 292 -------------------------------------------------------------------------------- 291 (458)
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~ 845 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKT 845 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccccc
Confidence
Q ss_pred ---------------------------------eeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHH
Q psy2838 292 ---------------------------------KYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRT 338 (458)
Q Consensus 292 ---------------------------------~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~ 338 (458)
+..|.+|++.|...+.|..|+++|+++|||.|.+|++.|..+.+|+.
T Consensus 846 n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKv 925 (958)
T KOG1074|consen 846 NEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKV 925 (958)
T ss_pred ccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhh
Confidence 26899999999999999999999999999999999999999999999
Q ss_pred HHhhccCCCcc
Q psy2838 339 HTLSVHSGVRL 349 (458)
Q Consensus 339 H~~~~h~~~~~ 349 (458)
||.+|+-..++
T Consensus 926 HMgtH~w~q~~ 936 (958)
T KOG1074|consen 926 HMGTHMWVQPP 936 (958)
T ss_pred hhccccccCCC
Confidence 99988765543
No 5
>KOG3608|consensus
Probab=99.90 E-value=1.6e-24 Score=197.11 Aligned_cols=225 Identities=24% Similarity=0.443 Sum_probs=188.8
Q ss_pred cCcccchh--hhhhhhcCCcccccccc----------CCCCCCC-Cccccc--ccccccCCHHHHHHHHHhhcCCCcccc
Q psy2838 147 AGLEFNRS--QFEKTFQNYSMTTTGHR----------GGKGPPV-KKFPCD--QCGKSFTLKQNLTYHVNSIHLGVRIKC 211 (458)
Q Consensus 147 ~~~~~~c~--~c~~~~~~~~~~~~~~~----------~~~~~~~-k~~~C~--~C~~~f~~~~~L~~H~~~~h~~~~~~C 211 (458)
.+..|.|. .|+..|.+...+..|.. ......+ ..+.|. .|-+.+.++..|+.|++.|.+++...|
T Consensus 131 ~g~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvAC 210 (467)
T KOG3608|consen 131 LGQNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVAC 210 (467)
T ss_pred chhhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEec
Confidence 44556664 47777776544433311 1122222 236675 599999999999999998888888999
Q ss_pred ccCccccCChHHHHHHHHHhc--CCceeecCccccccCCchhhhhccchhccCcceecCcccccccCHHHHHHHHHHhhc
Q psy2838 212 DFCDKTFAHKPNLIAHMNSAH--NGVRFKCDHCVKSFNQKPNLISHIKSVHEGIKYKCEECTKTFAQKQNLLSHVQAIHM 289 (458)
Q Consensus 212 ~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~ 289 (458)
+.||..|.++..|..|++..+ ...+|.|..|.+.|.+...|..|+..|. .-|+|+.|..+....+.|.+|++..|.
T Consensus 211 p~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs 288 (467)
T KOG3608|consen 211 PHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHS 288 (467)
T ss_pred chHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhc
Confidence 999999999999999998654 4568999999999999999999998665 469999999999999999999987775
Q ss_pred C-ceeecCccCcccCChhHHHHHHhhhccCccccCcc--ccccCCCHHHHHHHHhhccCC---CccccCcCcccCCCHHH
Q psy2838 290 G-IKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCAD--CGRLFAQEHTLRTHTLSVHSG---VRLTCRTCGLFCDSKRA 363 (458)
Q Consensus 290 ~-~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~---~~~~C~~C~~~f~~~~~ 363 (458)
. ++|+|..|++.|.+.+.|.+|...|. +..|+|.. |.++|++...|++|++.+|.+ .+|.|..|.+.|++-.+
T Consensus 289 ~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~ 367 (467)
T KOG3608|consen 289 KDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKS 367 (467)
T ss_pred cCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchh
Confidence 4 56999999999999999999999877 67799987 999999999999999999954 35889999999999999
Q ss_pred HHHHHHHhCCC
Q psy2838 364 LTAHVREAHPG 374 (458)
Q Consensus 364 L~~H~~~~h~~ 374 (458)
|.+|+++.|+-
T Consensus 368 L~~HL~kkH~f 378 (467)
T KOG3608|consen 368 LSAHLMKKHGF 378 (467)
T ss_pred HHHHHHHhhcc
Confidence 99999999863
No 6
>KOG3608|consensus
Probab=99.89 E-value=1.3e-23 Score=191.25 Aligned_cols=208 Identities=25% Similarity=0.487 Sum_probs=180.5
Q ss_pred Cccccc--ccccccCCHHHHHHHHHhhcC------------CCc-cccc--cCccccCChHHHHHHHHHhcCCceeecCc
Q psy2838 179 KKFPCD--QCGKSFTLKQNLTYHVNSIHL------------GVR-IKCD--FCDKTFAHKPNLIAHMNSAHNGVRFKCDH 241 (458)
Q Consensus 179 k~~~C~--~C~~~f~~~~~L~~H~~~~h~------------~~~-~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~C~~ 241 (458)
..|.|. .|+..|.+...|..|+..|.. +++ +.|. .|-+.|.++..|+.|++.|.+++...|+.
T Consensus 133 ~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~ 212 (467)
T KOG3608|consen 133 QNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPH 212 (467)
T ss_pred hhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecch
Confidence 347785 599999999999999874432 112 5665 49999999999999999999999999999
Q ss_pred cccccCCchhhhhccchhcc--CcceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHhh-hccC
Q psy2838 242 CVKSFNQKPNLISHIKSVHE--GIKYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMTT-VHQA 318 (458)
Q Consensus 242 C~~~f~~~~~L~~H~~~~~~--~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~-h~~~ 318 (458)
|+..|.++..|..|++..+. ..+|.|..|.|.|.+...|..|+..|-. -|+|+.|+.+....++|..|++. |...
T Consensus 213 Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~d 290 (467)
T KOG3608|consen 213 CGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKD 290 (467)
T ss_pred HHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccC
Confidence 99999999999999986553 3689999999999999999999865543 49999999999999999999986 4568
Q ss_pred ccccCccccccCCCHHHHHHHHhhccCCCccccCc--CcccCCCHHHHHHHHHHhCCC---CCcccCCCCCCCCcC
Q psy2838 319 QKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRT--CGLFCDSKRALTAHVREAHPG---CEYKKRGRGRPKLEV 389 (458)
Q Consensus 319 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~---~~~~~~~~~~~~~~~ 389 (458)
+||+|..|++.|.+.++|.+|.. .|++..|.|.. |.++|.+...|++|++.+|.+ .+|.|-.|.+.....
T Consensus 291 kpfKCd~Cd~~c~~esdL~kH~~-~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G 365 (467)
T KOG3608|consen 291 KPFKCDECDTRCVRESDLAKHVQ-VHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSG 365 (467)
T ss_pred CCccccchhhhhccHHHHHHHHH-hccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccc
Confidence 99999999999999999999976 67788899988 999999999999999999943 579999998766443
No 7
>KOG3623|consensus
Probab=99.89 E-value=3.4e-24 Score=210.90 Aligned_cols=109 Identities=19% Similarity=0.382 Sum_probs=92.2
Q ss_pred cccchhhhhhhhcCCccccccccCCCCCCCCcccccccccccCCHHHHHHHHHhhcC-------------CCccccccCc
Q psy2838 149 LEFNRSQFEKTFQNYSMTTTGHRGGKGPPVKKFPCDQCGKSFTLKQNLTYHVNSIHL-------------GVRIKCDFCD 215 (458)
Q Consensus 149 ~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~~h~-------------~~~~~C~~C~ 215 (458)
....|.+|...+.....+..|........+..|.|..|..+|.....|.+||..|.. .++|+|..|+
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECg 288 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECG 288 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccc
Confidence 456788998887776666666543444456679999999999999999999986543 2459999999
Q ss_pred cccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccc
Q psy2838 216 KTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 216 ~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 257 (458)
|.|..+..|+.|+|+|.|++||.|+.|+|.|+...++..||.
T Consensus 289 KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 289 KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 999999999999999999999999999999999999999974
No 8
>KOG3623|consensus
Probab=99.85 E-value=2.6e-22 Score=197.80 Aligned_cols=105 Identities=28% Similarity=0.577 Sum_probs=96.2
Q ss_pred cccccccccccCCHHHHHHHHHhhcCCC--ccccccCccccCChHHHHHHHHHhcCC-------------ceeecCcccc
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNSIHLGV--RIKCDFCDKTFAHKPNLIAHMNSAHNG-------------VRFKCDHCVK 244 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~--~~~C~~C~~~f~~~~~L~~H~~~h~~~-------------~~~~C~~C~~ 244 (458)
...|++|.+.+.....|+.|++..|... .|.|..|.++|..+..|.+||.+|... +.|+|..|+|
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 4789999999999999999998766543 399999999999999999999998642 4599999999
Q ss_pred ccCCchhhhhccchhccCcceecCcccccccCHHHHHHHH
Q psy2838 245 SFNQKPNLISHIKSVHEGIKYKCEECTKTFAQKQNLLSHV 284 (458)
Q Consensus 245 ~f~~~~~L~~H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~ 284 (458)
.|.-+..|+.|+|+|.|+|||.|+.|+|.|.....+..||
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHm 329 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHM 329 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccc
Confidence 9999999999999999999999999999999999998887
No 9
>KOG3576|consensus
Probab=99.72 E-value=2.1e-18 Score=145.83 Aligned_cols=115 Identities=25% Similarity=0.493 Sum_probs=100.4
Q ss_pred CcceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHh
Q psy2838 262 GIKYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTL 341 (458)
Q Consensus 262 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 341 (458)
...|.|.+|+|.|.-...|.+|++-|..-++|.|..||+.|.....|++|+++|++.+||+|..|++.|+++-+|..|++
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 45688888888888888888888766666678999999999999999999999999999999999999999999999999
Q ss_pred hccCC-----------CccccCcCcccCCCHHHHHHHHHHhCCCCC
Q psy2838 342 SVHSG-----------VRLTCRTCGLFCDSKRALTAHVREAHPGCE 376 (458)
Q Consensus 342 ~~h~~-----------~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~ 376 (458)
++|+. +-|.|..||++-.....+..|++.||+.-+
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 98874 236799999999999999999999998644
No 10
>KOG3576|consensus
Probab=99.65 E-value=3.1e-17 Score=138.81 Aligned_cols=86 Identities=34% Similarity=0.586 Sum_probs=61.7
Q ss_pred CCCcccccccccccCCHHHHHHHHHhhcCCCccccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhcc
Q psy2838 177 PVKKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHI 256 (458)
Q Consensus 177 ~~k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 256 (458)
+...|.|.+|+|.|.....|.+|++-|..-+++-|..||+.|.....|++|+++|++.+||+|..|++.|.++-+|..|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHH
Confidence 34567777777777777777777775444455777777777777777777777777777777777777777777777777
Q ss_pred chhccC
Q psy2838 257 KSVHEG 262 (458)
Q Consensus 257 ~~~~~~ 262 (458)
+..|+.
T Consensus 194 ~kvhgv 199 (267)
T KOG3576|consen 194 KKVHGV 199 (267)
T ss_pred HHHcCc
Confidence 666653
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.38 E-value=1.7e-12 Score=130.41 Aligned_cols=146 Identities=18% Similarity=0.432 Sum_probs=115.2
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCc--cccccCCchhhhhccchhccCcceecCcccccccCHHHHHHHHHH
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDH--CVKSFNQKPNLISHIKSVHEGIKYKCEECTKTFAQKQNLLSHVQA 286 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 286 (458)
..|+.|..... ...|..|.... ......|+. |+..|. +..+..| +.|+.|++.|. ...|..|+..
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYC-SRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhC-CCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHh
Confidence 57999988754 55777888543 335567885 999883 4445555 48999999996 6789999987
Q ss_pred hhcCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCC----------CHHHHHHHHhhccCCCccccCcCcc
Q psy2838 287 IHMGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFA----------QEHTLRTHTLSVHSGVRLTCRTCGL 356 (458)
Q Consensus 287 ~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~----------~~~~L~~H~~~~h~~~~~~C~~C~~ 356 (458)
+| .++.|+ |++.+ .+..|..|+.+|.+.+++.|..|++.|. ....|..|... ++.+.+.|..|++
T Consensus 475 ~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG~rt~~C~~Cgk 549 (567)
T PLN03086 475 FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-CGSRTAPCDSCGR 549 (567)
T ss_pred cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh-cCCcceEccccCC
Confidence 76 679999 99755 6689999999999999999999999985 24589999655 6888889999999
Q ss_pred cCCCHHHHHHHHHHhCC
Q psy2838 357 FCDSKRALTAHVREAHP 373 (458)
Q Consensus 357 ~f~~~~~L~~H~~~~h~ 373 (458)
.+..+ .|..|+...|.
T Consensus 550 ~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 550 SVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeeeh-hHHHHHHHhhc
Confidence 98655 58999988875
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.38 E-value=6.2e-13 Score=133.53 Aligned_cols=148 Identities=18% Similarity=0.475 Sum_probs=119.3
Q ss_pred CcccccccccccCCHHHHHHHHHhhcCCCcccccc--CccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhcc
Q psy2838 179 KKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDF--CDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHI 256 (458)
Q Consensus 179 k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 256 (458)
..-.|..|..... ..+|..|.. +.......|+. |+..|. +..+..| +.|+.|++.|. ...|..|+
T Consensus 406 ~~V~C~NC~~~i~-l~~l~lHe~-~C~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 406 DTVECRNCKHYIP-SRSIALHEA-YCSRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred CeEECCCCCCccc-hhHHHHHHh-hCCCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 3457999988764 556778986 45555578985 999884 3444444 58999999996 67899999
Q ss_pred chhccCcceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccC----------ChhHHHHHHhhhccCccccCccc
Q psy2838 257 KSVHEGIKYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYN----------QVTNLLSHMTTVHQAQKYKCADC 326 (458)
Q Consensus 257 ~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~----------~~~~L~~H~~~h~~~~~~~C~~C 326 (458)
+.+| +++.|+ |++.+ .+..|..|+..+...+++.|..|++.|. ..+.|..|..+. +.+++.|..|
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~C 547 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSC 547 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEcccc
Confidence 9876 789999 99765 6789999998888888899999999995 245899999885 8999999999
Q ss_pred cccCCCHHHHHHHHhhccC
Q psy2838 327 GRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 327 ~~~f~~~~~L~~H~~~~h~ 345 (458)
|+.|..+ .|..|+...|.
T Consensus 548 gk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 548 GRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred CCeeeeh-hHHHHHHHhhc
Confidence 9988776 68899888775
No 13
>KOG3993|consensus
Probab=99.14 E-value=5.2e-12 Score=118.71 Aligned_cols=195 Identities=16% Similarity=0.185 Sum_probs=115.0
Q ss_pred cccccccccccCCHHHHHHHHHhhcCCCccccccCccccCChHHHHHHHHHhcCCceeec---CccccccCCchhhhhcc
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNSAHNGVRFKC---DHCVKSFNQKPNLISHI 256 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C---~~C~~~f~~~~~L~~H~ 256 (458)
.|.|..|...|.+...|.+|.-..-...-|+|+.|+|.|....+|..|.|.|....--.= +-=.+...+....+.--
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 478888888888888888775432222347788888888888888888777753211000 00000000000000000
Q ss_pred ch--hccCcceecCcccccccCHHHHHHHHHHhhcCce-----------------eecCccCcccCChhHHHHHHhhhcc
Q psy2838 257 KS--VHEGIKYKCEECTKTFAQKQNLLSHVQAIHMGIK-----------------YTCEVCSKSYNQVTNLLSHMTTVHQ 317 (458)
Q Consensus 257 ~~--~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~-----------------~~C~~C~~~f~~~~~L~~H~~~h~~ 317 (458)
+. ......|.|.+|+|.|.+...|+.|+..|+.... +.|..|.-.+.....--.+...+.+
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~ 426 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAG 426 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeec
Confidence 00 0112368888888888888888888766664221 3445555444433322222222221
Q ss_pred -CccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHHHHHHHHHhCCC
Q psy2838 318 -AQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRALTAHVREAHPG 374 (458)
Q Consensus 318 -~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~ 374 (458)
.....|+.|+-.+.++..--.|.+.-+....|.|.+|.-.|.+...|.+|+.+.|+.
T Consensus 427 sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 427 SAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred cccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 122457788877777665555554455556688999999999999999999999974
No 14
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=99.12 E-value=1.2e-12 Score=83.84 Aligned_cols=36 Identities=11% Similarity=0.032 Sum_probs=21.4
Q ss_pred ceeeecchhHHHHHHHhcCCCcCCCCCCCCC-CCCCC
Q psy2838 43 YNYYQLSSDEKFEILKSISASFTPGYGGFLP-NTPPL 78 (458)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~-~~~~~ 78 (458)
|+|+||||+||+|||++|+|+||.+|++++. ++..+
T Consensus 1 Vtf~Dvav~fs~eEW~~L~~~Qk~ly~dvm~Eny~~l 37 (41)
T PF01352_consen 1 VTFEDVAVYFSQEEWELLDPAQKNLYRDVMLENYRNL 37 (41)
T ss_dssp ------TT---HHHHHTS-HHHHHHHHHHHHHTTTS-
T ss_pred CeEEEEEEEcChhhcccccceecccchhHHHHhhccc
Confidence 7999999999999999999999999999953 44333
No 15
>PHA00733 hypothetical protein
Probab=99.06 E-value=1.7e-10 Score=94.94 Aligned_cols=80 Identities=19% Similarity=0.230 Sum_probs=58.6
Q ss_pred eeecCccCcccCChhHHH------HHHhhhccCccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHHHH
Q psy2838 292 KYTCEVCSKSYNQVTNLL------SHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRALT 365 (458)
Q Consensus 292 ~~~C~~C~~~f~~~~~L~------~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~ 365 (458)
++.|.+|.+.|.+...|. +|+. +++.++|.|+.|++.|.+...|..|++.+ ..+|.|..|++.|.....|.
T Consensus 40 ~~~~~~~~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 40 RLIRAVVKTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hHHHHHHhhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHH
Confidence 355555555555544433 3433 34578899999999999999999997653 34688999999999999999
Q ss_pred HHHHHhCCC
Q psy2838 366 AHVREAHPG 374 (458)
Q Consensus 366 ~H~~~~h~~ 374 (458)
.|++.+|+.
T Consensus 117 ~H~~~~h~~ 125 (128)
T PHA00733 117 DHVCKKHNI 125 (128)
T ss_pred HHHHHhcCc
Confidence 999988864
No 16
>KOG3993|consensus
Probab=99.01 E-value=1.9e-11 Score=114.93 Aligned_cols=192 Identities=13% Similarity=0.111 Sum_probs=115.9
Q ss_pred ccchhhhhhhhcCCccccccccCCCCCCCCcccccccccccCCHHHHHHHHHhhcCCCcccccc----CccccCChHHHH
Q psy2838 150 EFNRSQFEKTFQNYSMTTTGHRGGKGPPVKKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDF----CDKTFAHKPNLI 225 (458)
Q Consensus 150 ~~~c~~c~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~----C~~~f~~~~~L~ 225 (458)
.|.|..|...|.+...|..|.-.+. -.-.|+|+.|+|+|....+|..|.|. |..++-.=.- =.+...+. .+.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RI--V~vEYrCPEC~KVFsCPANLASHRRW-HKPR~eaa~a~~~P~k~~~~~r-ae~ 342 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRI--VHVEYRCPECDKVFSCPANLASHRRW-HKPRPEAAKAGSPPPKQAVETR-AEV 342 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCee--EEeeecCCcccccccCchhhhhhhcc-cCCchhhhhcCCCChhhhhhhh-hhh
Confidence 6889999999998888877642111 12359999999999999999999984 4433211000 00000000 111
Q ss_pred HHH-HH--hcCCceeecCccccccCCchhhhhccchhccCcc-----------------eecCcccccccCHHHHHHHHH
Q psy2838 226 AHM-NS--AHNGVRFKCDHCVKSFNQKPNLISHIKSVHEGIK-----------------YKCEECTKTFAQKQNLLSHVQ 285 (458)
Q Consensus 226 ~H~-~~--h~~~~~~~C~~C~~~f~~~~~L~~H~~~~~~~~~-----------------~~C~~C~~~f~~~~~L~~H~~ 285 (458)
+-. +. -.....|.|.+|++.|.....|+.|+.+|+.... +-|..|.-.+.....--.+..
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl 422 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVL 422 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccccccccccccee
Confidence 000 00 0112358888888888888888888776664311 223333333322111111110
Q ss_pred Hhh-cCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHhhccC
Q psy2838 286 AIH-MGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 286 ~~h-~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~ 345 (458)
.+. ......|++|+..+.++..--.|.+.-+.+..|.|.+|.-.|.+...|.+|+...|.
T Consensus 423 ~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 423 YVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred eeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 000 011256888888887776666666666677789999999999999999999887775
No 17
>PHA00733 hypothetical protein
Probab=98.98 E-value=3.5e-10 Score=93.18 Aligned_cols=81 Identities=16% Similarity=0.283 Sum_probs=58.1
Q ss_pred cceecCcccccccCHHHHHHH--H---HHhhcCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHH
Q psy2838 263 IKYKCEECTKTFAQKQNLLSH--V---QAIHMGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLR 337 (458)
Q Consensus 263 ~~~~C~~C~~~f~~~~~L~~H--~---~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 337 (458)
+++.|.+|.+.|.....|..| + ..++...+|.|+.|++.|.+...|..|++.| ..+|.|..|++.|.....|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHH
Confidence 556666666666655555444 1 1234456688888888888888888888865 34688888888888888888
Q ss_pred HHHhhccC
Q psy2838 338 THTLSVHS 345 (458)
Q Consensus 338 ~H~~~~h~ 345 (458)
+|+...|+
T Consensus 117 ~H~~~~h~ 124 (128)
T PHA00733 117 DHVCKKHN 124 (128)
T ss_pred HHHHHhcC
Confidence 88887775
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.75 E-value=3.2e-09 Score=71.78 Aligned_cols=42 Identities=19% Similarity=0.581 Sum_probs=26.0
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHH
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTL 336 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L 336 (458)
|.|+.||+.|...++|..|+++|+ ++|+|..|++.|.+.+.|
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 566666666666666666666665 456666666666655544
No 19
>PHA02768 hypothetical protein; Provisional
Probab=98.69 E-value=9.2e-09 Score=69.58 Aligned_cols=43 Identities=16% Similarity=0.504 Sum_probs=30.6
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhh
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLI 253 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 253 (458)
|.|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 677777777777777777777776 4677777777777666553
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=98.35 E-value=2e-07 Score=53.83 Aligned_cols=26 Identities=42% Similarity=0.809 Sum_probs=19.9
Q ss_pred HHHHHHhhhccCccccCccccccCCC
Q psy2838 307 NLLSHMTTVHQAQKYKCADCGRLFAQ 332 (458)
Q Consensus 307 ~L~~H~~~h~~~~~~~C~~C~~~f~~ 332 (458)
+|.+|+++|++++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 46778888888888888888887753
No 21
>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=98.29 E-value=5.7e-07 Score=51.89 Aligned_cols=25 Identities=40% Similarity=0.683 Sum_probs=18.4
Q ss_pred HHHHHHHHhcCCceeecCccccccC
Q psy2838 223 NLIAHMNSAHNGVRFKCDHCVKSFN 247 (458)
Q Consensus 223 ~L~~H~~~h~~~~~~~C~~C~~~f~ 247 (458)
+|.+|+++|++++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4677777777777777777777775
No 22
>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=98.15 E-value=2.6e-06 Score=75.71 Aligned_cols=95 Identities=21% Similarity=0.557 Sum_probs=53.1
Q ss_pred hccCcceecCcccccccCHHHHHHHHHHhh--cCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHH
Q psy2838 259 VHEGIKYKCEECTKTFAQKQNLLSHVQAIH--MGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTL 336 (458)
Q Consensus 259 ~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L 336 (458)
.|+.+.|+|..|....-.- .-..|+.... ....|+|.-|++. -.|.|-.|...|-.-...
T Consensus 137 ~hGGrif~CsfC~~flCED-DQFEHQAsCQvLe~E~~KC~SCNrl-----------------Gq~sCLRCK~cfCddHvr 198 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCED-DQFEHQASCQVLESETFKCQSCNRL-----------------GQYSCLRCKICFCDDHVR 198 (314)
T ss_pred cCCCeEEEeecCCCeeecc-chhhhhhhhhhhhcccccccccccc-----------------cchhhhheeeeehhhhhh
Confidence 4666777777776533322 2223432221 2233777766642 124555555555443322
Q ss_pred HHHHhhccCCCccccCcCcccCCCHHHHHHHHHHhC
Q psy2838 337 RTHTLSVHSGVRLTCRTCGLFCDSKRALTAHVREAH 372 (458)
Q Consensus 337 ~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~h 372 (458)
++- .+.-.++++.|+.|++.......|..-.|+|-
T Consensus 199 rKg-~ky~k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 199 RKG-FKYEKGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred hcc-cccccCCCCCCCCCCCcccccccceeeeecch
Confidence 222 22334567889999999888888887777664
No 23
>PHA00732 hypothetical protein
Probab=98.12 E-value=1.6e-06 Score=64.73 Aligned_cols=45 Identities=24% Similarity=0.524 Sum_probs=29.5
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHhh
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLS 342 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 342 (458)
|.|..|++.|.+...|..|++.+|. ++.|+.|++.|. .|..|+++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---Chhhhhcc
Confidence 5677777777777777777764322 256777777776 36667543
No 24
>PHA00616 hypothetical protein
Probab=98.11 E-value=1.5e-06 Score=56.00 Aligned_cols=31 Identities=19% Similarity=0.405 Sum_probs=16.3
Q ss_pred cccCcCcccCCCHHHHHHHHHHhCCCCCccc
Q psy2838 349 LTCRTCGLFCDSKRALTAHVREAHPGCEYKK 379 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~ 379 (458)
|+|+.||+.|..++.|.+|+++||+..++.|
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCccce
Confidence 4455555555555555555555555544443
No 25
>PHA00616 hypothetical protein
Probab=98.06 E-value=1.6e-06 Score=55.75 Aligned_cols=32 Identities=22% Similarity=0.591 Sum_probs=16.5
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCc
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCA 324 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~ 324 (458)
|+|+.||+.|...+.|..|++.||+++++.|.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 44555555555555555555555555555443
No 26
>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=98.03 E-value=7.6e-06 Score=56.61 Aligned_cols=51 Identities=24% Similarity=0.486 Sum_probs=35.1
Q ss_pred cccCccccccCCCHHHHHHHHhhccCCC--ccccCcCcccCCCHHHHHHHHHHhCC
Q psy2838 320 KYKCADCGRLFAQEHTLRTHTLSVHSGV--RLTCRTCGLFCDSKRALTAHVREAHP 373 (458)
Q Consensus 320 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~--~~~C~~C~~~f~~~~~L~~H~~~~h~ 373 (458)
.|.|+.|++ ..+...|..|....|... .+.|++|...+. .+|..|+..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 377888888 455667888877766643 356888877644 378888887763
No 27
>PHA00732 hypothetical protein
Probab=97.99 E-value=4.4e-06 Score=62.33 Aligned_cols=44 Identities=32% Similarity=0.499 Sum_probs=21.7
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccc
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 257 (458)
|.|..|++.|.+...|..|++.+|. ++.|+.|++.|. .|..|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---Chhhhhc
Confidence 4455555555555555555543221 235555555554 3555554
No 28
>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=97.92 E-value=1.7e-05 Score=54.91 Aligned_cols=50 Identities=34% Similarity=0.640 Sum_probs=32.5
Q ss_pred cccccccccccCCHHHHHHHHHhhcCCC--ccccccCccccCChHHHHHHHHHhc
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNSIHLGV--RIKCDFCDKTFAHKPNLIAHMNSAH 232 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~--~~~C~~C~~~f~~~~~L~~H~~~h~ 232 (458)
.|.|++|++ ..+...|..|+...|... .+.|++|...+. .+|..|+..+|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 367777777 445667777776666543 377777776543 37777776665
No 29
>KOG2231|consensus
Probab=97.64 E-value=0.00023 Score=73.21 Aligned_cols=48 Identities=21% Similarity=0.415 Sum_probs=31.2
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCccc------cccCCCHHHHHHHHhhcc
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADC------GRLFAQEHTLRTHTLSVH 344 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C------~~~f~~~~~L~~H~~~~h 344 (458)
-.|..|...|.....|.+|++.+| |.|..| +..|.....|..|.+..|
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 456777777777777777776655 445555 345666677777776666
No 30
>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=97.61 E-value=0.00012 Score=65.46 Aligned_cols=85 Identities=21% Similarity=0.393 Sum_probs=48.6
Q ss_pred HhhcCceeecCccCcccCChhHHHHHHhhh--ccCccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHH
Q psy2838 286 AIHMGIKYTCEVCSKSYNQVTNLLSHMTTV--HQAQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRA 363 (458)
Q Consensus 286 ~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h--~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~ 363 (458)
..|+++.|+|.+|....-.-. --.|+.+- .....|+|.-|++. ..|.|-.|...|-
T Consensus 136 w~hGGrif~CsfC~~flCEDD-QFEHQAsCQvLe~E~~KC~SCNrl-----------------Gq~sCLRCK~cfC---- 193 (314)
T PF06524_consen 136 WDHGGRIFKCSFCDNFLCEDD-QFEHQASCQVLESETFKCQSCNRL-----------------GQYSCLRCKICFC---- 193 (314)
T ss_pred ccCCCeEEEeecCCCeeeccc-hhhhhhhhhhhhcccccccccccc-----------------cchhhhheeeeeh----
Confidence 357788888888875443322 23454432 12345888888752 1233444544453
Q ss_pred HHHHHHHh----CCCCCcccCCCCCCCCcCCCCC
Q psy2838 364 LTAHVREA----HPGCEYKKRGRGRPKLEVPGGG 393 (458)
Q Consensus 364 L~~H~~~~----h~~~~~~~~~~~~~~~~~~~~~ 393 (458)
..|+|.. -.++++.|++|+-....+-..+
T Consensus 194 -ddHvrrKg~ky~k~k~~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 194 -DDHVRRKGFKYEKGKPIPCPKCGYETQETKDLS 226 (314)
T ss_pred -hhhhhhcccccccCCCCCCCCCCCcccccccce
Confidence 3455442 3457899999997765544433
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.55 E-value=4.8e-05 Score=60.07 Aligned_cols=74 Identities=24% Similarity=0.421 Sum_probs=19.6
Q ss_pred ecCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHHHHHHHHHHhC
Q psy2838 294 TCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKRALTAHVREAH 372 (458)
Q Consensus 294 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~h 372 (458)
+|.+|+..|.+...|..|+...|+...- ....+.....+..++.. .....+.|..|++.|.+...|..||+.++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~-~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRK-KVKESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccc-ccCCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 4777777777777777777666653211 11122233444444322 12225778888888888888888888753
No 32
>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=97.47 E-value=7.6e-05 Score=41.59 Aligned_cols=21 Identities=38% Similarity=0.700 Sum_probs=11.4
Q ss_pred ccCcCcccCCCHHHHHHHHHH
Q psy2838 350 TCRTCGLFCDSKRALTAHVRE 370 (458)
Q Consensus 350 ~C~~C~~~f~~~~~L~~H~~~ 370 (458)
.|+.|++.|.++..|.+|++.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHhH
Confidence 455555555555555555554
No 33
>KOG1146|consensus
Probab=97.46 E-value=1.2e-05 Score=86.94 Aligned_cols=49 Identities=16% Similarity=0.295 Sum_probs=33.0
Q ss_pred ccCcccccc-CCCHHHHHHHHhhc------cCCCccccCcCcccCCCHHHHHHHHH
Q psy2838 321 YKCADCGRL-FAQEHTLRTHTLSV------HSGVRLTCRTCGLFCDSKRALTAHVR 369 (458)
Q Consensus 321 ~~C~~C~~~-f~~~~~L~~H~~~~------h~~~~~~C~~C~~~f~~~~~L~~H~~ 369 (458)
|.|-.|+.- ..+...|+.|..+- ..+..|.|.+|.+....+.++..|.+
T Consensus 735 ~~civcd~~st~~l~~l~~h~~~~rs~ke~v~g~~~~c~l~~y~t~~kanfqlh~K 790 (1406)
T KOG1146|consen 735 FDCIVCDVFSTDRLDQLWFHNTRERSRKEQVPGDVPSCKLKPYATNTKANFQLHNK 790 (1406)
T ss_pred HHHhhhhhhhhhhHHHHhhcchhhhhhhhcccCCCCcceecccccccchhhhhhcc
Confidence 788888853 33445666674321 12345789999999888888877765
No 34
>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=97.40 E-value=0.00012 Score=41.03 Aligned_cols=24 Identities=38% Similarity=0.699 Sum_probs=12.4
Q ss_pred cccCcCcccCCCHHHHHHHHHHhC
Q psy2838 349 LTCRTCGLFCDSKRALTAHVREAH 372 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~~h 372 (458)
|.|++|++.|.+...|..|++.+|
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 345555555555555555555554
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.35 E-value=0.00014 Score=57.40 Aligned_cols=22 Identities=32% Similarity=0.853 Sum_probs=10.7
Q ss_pred ceecCcccccccCHHHHHHHHH
Q psy2838 264 KYKCEECTKTFAQKQNLLSHVQ 285 (458)
Q Consensus 264 ~~~C~~C~~~f~~~~~L~~H~~ 285 (458)
.+.|..|++.|.+...|..|++
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMR 71 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHc
Confidence 3455555555555555555554
No 36
>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=97.33 E-value=0.00012 Score=41.03 Aligned_cols=23 Identities=30% Similarity=0.756 Sum_probs=10.3
Q ss_pred ccCccccccCCCHHHHHHHHhhc
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSV 343 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~ 343 (458)
|.|++|++.|.+...|+.|+.++
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 34555555555555555554443
No 37
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.31 E-value=0.00034 Score=64.99 Aligned_cols=78 Identities=21% Similarity=0.334 Sum_probs=48.5
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCccccc-------cCCCHHHHHHHHhhccCCCccc-cCcC-cccCCCHHH
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGR-------LFAQEHTLRTHTLSVHSGVRLT-CRTC-GLFCDSKRA 363 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~-------~f~~~~~L~~H~~~~h~~~~~~-C~~C-~~~f~~~~~ 363 (458)
-.|..|...|..-..|.+|++..|. .|-+|++ -|.+..+|.+|.+..|---.++ |..= -+.|.....
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~e 296 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTE 296 (493)
T ss_pred chhhhccceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEeccHHH
Confidence 3577777777777777777776553 3555544 3677778888866554222222 2110 145777788
Q ss_pred HHHHHHHhCCC
Q psy2838 364 LTAHVREAHPG 374 (458)
Q Consensus 364 L~~H~~~~h~~ 374 (458)
|..|+...|+.
T Consensus 297 l~~h~~~~h~~ 307 (493)
T COG5236 297 LLEHLTRFHKV 307 (493)
T ss_pred HHHHHHHHhhc
Confidence 88888887764
No 38
>KOG2231|consensus
Probab=97.26 E-value=0.00041 Score=71.44 Aligned_cols=104 Identities=25% Similarity=0.530 Sum_probs=63.1
Q ss_pred ccccCccccCChHHHHHHHHHhcCCceeecCcccc---------ccCCchhhhhccchhcc-C----cceecCccccccc
Q psy2838 210 KCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVK---------SFNQKPNLISHIKSVHE-G----IKYKCEECTKTFA 275 (458)
Q Consensus 210 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~---------~f~~~~~L~~H~~~~~~-~----~~~~C~~C~~~f~ 275 (458)
.|..| ..|.....|+.|+..-|. -+.|..|-. ...+...|..|++.--. . -.-.|..|...|.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 45555 555666777777754443 244444421 12234556666553221 1 1246888888888
Q ss_pred CHHHHHHHHHHhhcCceeecCcc------CcccCChhHHHHHHhhhccCccccCc
Q psy2838 276 QKQNLLSHVQAIHMGIKYTCEVC------SKSYNQVTNLLSHMTTVHQAQKYKCA 324 (458)
Q Consensus 276 ~~~~L~~H~~~~h~~~~~~C~~C------~~~f~~~~~L~~H~~~h~~~~~~~C~ 324 (458)
....|.+|++..| |.|.+| +.-|.....|..|.+.+| |.|.
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCE 240 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----cccc
Confidence 8888888886655 556666 344666778888888777 5665
No 39
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.11 E-value=0.00013 Score=66.92 Aligned_cols=23 Identities=22% Similarity=0.678 Sum_probs=17.2
Q ss_pred cCccccCccccccCCCHHHHHHH
Q psy2838 317 QAQKYKCADCGRLFAQEHTLRTH 339 (458)
Q Consensus 317 ~~~~~~C~~C~~~f~~~~~L~~H 339 (458)
..|||+|++|+|+|.....|+-|
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYH 417 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYH 417 (423)
T ss_pred cCCceeccccchhhccCccceec
Confidence 34677787788777777777777
No 40
>KOG1146|consensus
Probab=97.03 E-value=0.00071 Score=73.69 Aligned_cols=106 Identities=23% Similarity=0.351 Sum_probs=76.4
Q ss_pred hhhhhhhhcCCccccccccCCCCCCCCcccccccccccCCHHHHHHHHHhhcC-------------------------CC
Q psy2838 153 RSQFEKTFQNYSMTTTGHRGGKGPPVKKFPCDQCGKSFTLKQNLTYHVNSIHL-------------------------GV 207 (458)
Q Consensus 153 c~~c~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~~h~-------------------------~~ 207 (458)
+..++..+...+.+..+.+ ..+.-.+.|+|+.|+..|+....|..|||..|. .+
T Consensus 439 ~~~~e~~~~s~r~~~~~t~-~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTV-VLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred ccchhhhhhhhccccccee-eeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 3444445544444333322 223334889999999999999999999997442 34
Q ss_pred ccccccCccccCChHHHHHHHHHhc--C-----------------------------------------CceeecCcccc
Q psy2838 208 RIKCDFCDKTFAHKPNLIAHMNSAH--N-----------------------------------------GVRFKCDHCVK 244 (458)
Q Consensus 208 ~~~C~~C~~~f~~~~~L~~H~~~h~--~-----------------------------------------~~~~~C~~C~~ 244 (458)
+|.|..|...+..+.+|.+|+..-. . +-.+.|..|++
T Consensus 518 p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~y 597 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSY 597 (1406)
T ss_pred cccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcc
Confidence 5889999999999999999986421 0 01288999999
Q ss_pred ccCCchhhhhccchh
Q psy2838 245 SFNQKPNLISHIKSV 259 (458)
Q Consensus 245 ~f~~~~~L~~H~~~~ 259 (458)
.-+-..+|+.|+..-
T Consensus 598 etniarnlrihmtss 612 (1406)
T KOG1146|consen 598 ETNIARNLRIHMTAS 612 (1406)
T ss_pred hhhhhhccccccccC
Confidence 988889999998643
No 41
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.97 E-value=0.0015 Score=60.94 Aligned_cols=128 Identities=24% Similarity=0.474 Sum_probs=93.4
Q ss_pred ccccc--CccccCChHHHHHHHHHhcCCceeecCccc---cccC------CchhhhhccchhccCcc----eecCccccc
Q psy2838 209 IKCDF--CDKTFAHKPNLIAHMNSAHNGVRFKCDHCV---KSFN------QKPNLISHIKSVHEGIK----YKCEECTKT 273 (458)
Q Consensus 209 ~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~---~~f~------~~~~L~~H~~~~~~~~~----~~C~~C~~~ 273 (458)
|.|+. |..+......|+.|.+..|+ .+.|.+|- +.|. ++..|..|...-..+.- -.|..|...
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 77875 77777778899999998876 37788875 3343 34556667543222222 369999999
Q ss_pred ccCHHHHHHHHHHhhcCceeecCccCcc-------cCChhHHHHHHhhhccCccccCcc--cc----ccCCCHHHHHHHH
Q psy2838 274 FAQKQNLLSHVQAIHMGIKYTCEVCSKS-------YNQVTNLLSHMTTVHQAQKYKCAD--CG----RLFAQEHTLRTHT 340 (458)
Q Consensus 274 f~~~~~L~~H~~~~h~~~~~~C~~C~~~-------f~~~~~L~~H~~~h~~~~~~~C~~--C~----~~f~~~~~L~~H~ 340 (458)
|-....|..|++..|. .|-+|++. |.+...|..|.+..| |.|.. |- ..|.....|..|+
T Consensus 230 FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf~~~~el~~h~ 301 (493)
T COG5236 230 FYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVFPYHTELLEHL 301 (493)
T ss_pred ecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEeccHHHHHHHH
Confidence 9999999999987774 56677654 778889999987654 66643 42 3799999999999
Q ss_pred hhccCC
Q psy2838 341 LSVHSG 346 (458)
Q Consensus 341 ~~~h~~ 346 (458)
...|+.
T Consensus 302 ~~~h~~ 307 (493)
T COG5236 302 TRFHKV 307 (493)
T ss_pred HHHhhc
Confidence 888764
No 42
>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=96.96 E-value=0.00042 Score=40.24 Aligned_cols=20 Identities=35% Similarity=1.004 Sum_probs=8.1
Q ss_pred ccCccccccCCCHHHHHHHH
Q psy2838 321 YKCADCGRLFAQEHTLRTHT 340 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~ 340 (458)
|.|..|++.|.+...|..|+
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHK 21 (27)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCccCCccCChhHHHHHh
Confidence 33444444444444444443
No 43
>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=96.88 E-value=0.00058 Score=39.63 Aligned_cols=24 Identities=42% Similarity=0.785 Sum_probs=14.3
Q ss_pred cccccccccccCCHHHHHHHHHhh
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNSI 203 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~~ 203 (458)
+|.|..|++.|.+...|..|++.+
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 355666666666666666666543
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.61 E-value=0.0013 Score=36.94 Aligned_cols=24 Identities=29% Similarity=0.686 Sum_probs=14.7
Q ss_pred cccCcCcccCCCHHHHHHHHHHhCC
Q psy2838 349 LTCRTCGLFCDSKRALTAHVREAHP 373 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~~h~ 373 (458)
|+|+.|++... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 45777777766 6677777776653
No 45
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.56 E-value=0.0011 Score=61.06 Aligned_cols=70 Identities=20% Similarity=0.357 Sum_probs=38.8
Q ss_pred CCcccccc--cccccCCHHHHHHHHHhhcCCCc-cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhh
Q psy2838 178 VKKFPCDQ--CGKSFTLKQNLTYHVNSIHLGVR-IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLIS 254 (458)
Q Consensus 178 ~k~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~-~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~ 254 (458)
.|||+|++ |.|.|++...|+.|+..-|.... ..=+ .-..|.-.....+||+|..|+|.+.+...|+-
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p----------~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP----------SPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC----------CccccccccccCCceeccccchhhccCcccee
Confidence 47888876 88888888888888762221111 0000 00001111233467777777777777777776
Q ss_pred ccc
Q psy2838 255 HIK 257 (458)
Q Consensus 255 H~~ 257 (458)
|+.
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 654
No 46
>KOG2482|consensus
Probab=96.50 E-value=0.0036 Score=58.37 Aligned_cols=51 Identities=24% Similarity=0.337 Sum_probs=41.0
Q ss_pred ccCccccccCCCHHHHHHHHhhccCC---------------------------CccccCcCcccCCCHHHHHHHHHHh
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSVHSG---------------------------VRLTCRTCGLFCDSKRALTAHVREA 371 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~h~~---------------------------~~~~C~~C~~~f~~~~~L~~H~~~~ 371 (458)
..|-.|....-+...|..||...|.- ..-.|-.|.-.|.....|..||..+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 58999998888899999999887730 0123899999999999999998754
No 47
>KOG2785|consensus
Probab=96.24 E-value=0.0073 Score=57.58 Aligned_cols=52 Identities=23% Similarity=0.397 Sum_probs=41.2
Q ss_pred cccCccccccCCCHHHHHHHHhhccC-----------------------CCccccCcCc---ccCCCHHHHHHHHHHh
Q psy2838 320 KYKCADCGRLFAQEHTLRTHTLSVHS-----------------------GVRLTCRTCG---LFCDSKRALTAHVREA 371 (458)
Q Consensus 320 ~~~C~~C~~~f~~~~~L~~H~~~~h~-----------------------~~~~~C~~C~---~~f~~~~~L~~H~~~~ 371 (458)
|-.|-.|++.+.+...-..||..+|+ +.-+.|-.|+ +.|.+....+.||+..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 45678888888888888888877775 1235699998 9999999999999864
No 48
>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=96.10 E-value=0.0042 Score=41.01 Aligned_cols=28 Identities=29% Similarity=0.443 Sum_probs=15.4
Q ss_pred ccccCcCcccCCCHHHHHHHHHHhCCCC
Q psy2838 348 RLTCRTCGLFCDSKRALTAHVREAHPGC 375 (458)
Q Consensus 348 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~ 375 (458)
+..|++|+..+....+|++|+...|..+
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCcchhhccchhhHHHHHHHHhccc
Confidence 4456666666666666666666666543
No 49
>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=96.10 E-value=0.0029 Score=41.77 Aligned_cols=31 Identities=29% Similarity=0.419 Sum_probs=16.8
Q ss_pred cCccccCccccccCCCHHHHHHHHhhccCCC
Q psy2838 317 QAQKYKCADCGRLFAQEHTLRTHTLSVHSGV 347 (458)
Q Consensus 317 ~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~ 347 (458)
.+.|-.|++|+..+.+..+|++|+...|..+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 3456667777777777777777766666543
No 50
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.08 E-value=0.0057 Score=34.60 Aligned_cols=23 Identities=39% Similarity=0.713 Sum_probs=17.0
Q ss_pred cccCcCcccCCCHHHHHHHHHHh
Q psy2838 349 LTCRTCGLFCDSKRALTAHVREA 371 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~~ 371 (458)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45777788887777788777754
No 51
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.98 E-value=0.0019 Score=65.27 Aligned_cols=144 Identities=22% Similarity=0.317 Sum_probs=85.5
Q ss_pred ccccccCccccCChHHHHHHHH--HhcCC--ceeecC--ccccccCCchhhhhccchhccCcceecCc--ccccccCHHH
Q psy2838 208 RIKCDFCDKTFAHKPNLIAHMN--SAHNG--VRFKCD--HCVKSFNQKPNLISHIKSVHEGIKYKCEE--CTKTFAQKQN 279 (458)
Q Consensus 208 ~~~C~~C~~~f~~~~~L~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~~~~~~~~~C~~--C~~~f~~~~~ 279 (458)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...+....++.|.. |...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 4677777777777777777777 67777 778887 68888888888888877776666555544 3333332222
Q ss_pred H-----HHHHHHhhcCceeecCc--cCcccCChhHHHHHHhhhccCc--cccCccccccCCCHHHHHHHHhhccCCCccc
Q psy2838 280 L-----LSHVQAIHMGIKYTCEV--CSKSYNQVTNLLSHMTTVHQAQ--KYKCADCGRLFAQEHTLRTHTLSVHSGVRLT 350 (458)
Q Consensus 280 L-----~~H~~~~h~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~--~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~ 350 (458)
- ............+.|.. |...+.....+..|...|.... .+.+..|.+.|.....+..|++.+.....+.
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 448 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLL 448 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCcee
Confidence 1 01101112222233322 5556666666666666665544 3555677777777777777755544433333
Q ss_pred c
Q psy2838 351 C 351 (458)
Q Consensus 351 C 351 (458)
|
T Consensus 449 ~ 449 (467)
T COG5048 449 C 449 (467)
T ss_pred e
Confidence 3
No 52
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.95 E-value=0.0042 Score=34.84 Aligned_cols=23 Identities=30% Similarity=0.645 Sum_probs=10.6
Q ss_pred ccCccccccCCCHHHHHHHHhhcc
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSVH 344 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~h 344 (458)
|+|+.|++... ...|.+|++.+|
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 34555555554 555555554444
No 53
>KOG2482|consensus
Probab=95.92 E-value=0.017 Score=54.12 Aligned_cols=22 Identities=32% Similarity=0.600 Sum_probs=19.2
Q ss_pred ccCccccccCCCHHHHHHHHhh
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLS 342 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~ 342 (458)
-.|-.|...|.....|..||..
T Consensus 335 ~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 335 SRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred cccccccccccCcchhhhhccc
Confidence 4688899999999999999854
No 54
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.88 E-value=0.0063 Score=34.39 Aligned_cols=20 Identities=30% Similarity=0.966 Sum_probs=9.3
Q ss_pred cCccccccCCCHHHHHHHHh
Q psy2838 322 KCADCGRLFAQEHTLRTHTL 341 (458)
Q Consensus 322 ~C~~C~~~f~~~~~L~~H~~ 341 (458)
.|..|++.|.....|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 34444444444444444443
No 55
>KOG2785|consensus
Probab=95.64 E-value=0.028 Score=53.71 Aligned_cols=50 Identities=26% Similarity=0.472 Sum_probs=38.3
Q ss_pred eecCccCcccCChhHHHHHHhhhccCc-----------------------cccCcccc---ccCCCHHHHHHHHhh
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQ-----------------------KYKCADCG---RLFAQEHTLRTHTLS 342 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~-----------------------~~~C~~C~---~~f~~~~~L~~H~~~ 342 (458)
-.|-.|++.+.+...-..||..+|+-. -|.|-.|+ +.|.+....+.||..
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 567777777777777777777776531 27899998 999999999999865
No 56
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.64 E-value=0.008 Score=33.98 Aligned_cols=20 Identities=30% Similarity=0.825 Sum_probs=9.2
Q ss_pred ecCccCcccCChhHHHHHHh
Q psy2838 294 TCEVCSKSYNQVTNLLSHMT 313 (458)
Q Consensus 294 ~C~~C~~~f~~~~~L~~H~~ 313 (458)
.|.+|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 34444444444444444443
No 57
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.63 E-value=0.002 Score=65.13 Aligned_cols=159 Identities=21% Similarity=0.258 Sum_probs=114.4
Q ss_pred CcccccccccccCCHHHHHHHHH--hhcCC--Cccccc--cCccccCChHHHHHHHHHhcCCceeecCc--cccccCCch
Q psy2838 179 KKFPCDQCGKSFTLKQNLTYHVN--SIHLG--VRIKCD--FCDKTFAHKPNLIAHMNSAHNGVRFKCDH--CVKSFNQKP 250 (458)
Q Consensus 179 k~~~C~~C~~~f~~~~~L~~H~~--~~h~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~ 250 (458)
.++.|..|...|.....|..|.+ .|..+ .++.|+ .|++.|.....+..|...|.+..++.|.. |...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 57999999999999999999999 67777 789999 79999999999999999999988887765 444444433
Q ss_pred hhhhccc-----hhccCcceecCc--ccccccCHHHHHHHHHHhhcCc--eeecCccCcccCChhHHHHHHhhhccCccc
Q psy2838 251 NLISHIK-----SVHEGIKYKCEE--CTKTFAQKQNLLSHVQAIHMGI--KYTCEVCSKSYNQVTNLLSHMTTVHQAQKY 321 (458)
Q Consensus 251 ~L~~H~~-----~~~~~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~--~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~ 321 (458)
.-..+.. .......+.|.. |...+.....+..|...+-... .+.+..|.+.|.....+..|++.|....++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 3211111 112223444433 6677777777777764444433 378888999999999999999999887766
Q ss_pred cCccccccCCCHHHHHH
Q psy2838 322 KCADCGRLFAQEHTLRT 338 (458)
Q Consensus 322 ~C~~C~~~f~~~~~L~~ 338 (458)
.|..+. .|.....+..
T Consensus 448 ~~~~~~-~~~~~~~~~~ 463 (467)
T COG5048 448 LCSILK-SFRRDLDLSN 463 (467)
T ss_pred eecccc-ccchhhhhhc
Confidence 665544 3444444433
No 58
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.61 E-value=0.0058 Score=34.59 Aligned_cols=22 Identities=27% Similarity=0.584 Sum_probs=13.0
Q ss_pred cccCcCcccCCCHHHHHHHHHH
Q psy2838 349 LTCRTCGLFCDSKRALTAHVRE 370 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~ 370 (458)
|.|.+|++.|.+...|..|++.
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 3466666666666666666543
No 59
>PRK04860 hypothetical protein; Provisional
Probab=95.19 E-value=0.012 Score=50.38 Aligned_cols=37 Identities=24% Similarity=0.662 Sum_probs=24.9
Q ss_pred eeecCccCcccCChhHHHHHHhhhccCccccCccccccCCC
Q psy2838 292 KYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQ 332 (458)
Q Consensus 292 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 332 (458)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|..
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 36776 765 45566777777777777777777766654
No 60
>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=94.97 E-value=0.0062 Score=35.27 Aligned_cols=21 Identities=24% Similarity=0.697 Sum_probs=11.3
Q ss_pred cccCcCcccCCCHHHHHHHHH
Q psy2838 349 LTCRTCGLFCDSKRALTAHVR 369 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~ 369 (458)
|+|..|++.|.+...|..|++
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 445555555555555555543
No 61
>PRK04860 hypothetical protein; Provisional
Probab=94.86 E-value=0.017 Score=49.48 Aligned_cols=26 Identities=12% Similarity=0.371 Sum_probs=12.3
Q ss_pred HHHHHHHHHhcCCceeecCccccccC
Q psy2838 222 PNLIAHMNSAHNGVRFKCDHCVKSFN 247 (458)
Q Consensus 222 ~~L~~H~~~h~~~~~~~C~~C~~~f~ 247 (458)
..+.+|.++|.++++|.|..|+..|.
T Consensus 129 ~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 129 LTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred CHHHHHHHHhcCCccEECCCCCceeE
Confidence 34444444444444444444444443
No 62
>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=94.38 E-value=0.017 Score=33.39 Aligned_cols=21 Identities=29% Similarity=0.774 Sum_probs=11.2
Q ss_pred eecCccCcccCChhHHHHHHh
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMT 313 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~ 313 (458)
|.|..|++.|.+...|..|++
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 445555555555555555554
No 63
>KOG4173|consensus
Probab=94.16 E-value=0.021 Score=49.50 Aligned_cols=29 Identities=21% Similarity=0.592 Sum_probs=20.1
Q ss_pred cCccccC--ccccccCCCHHHHHHHHhhccC
Q psy2838 317 QAQKYKC--ADCGRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 317 ~~~~~~C--~~C~~~f~~~~~L~~H~~~~h~ 345 (458)
|..-|+| ..|+..|.+...-+.|+...|.
T Consensus 141 G~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 141 GQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred CccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 3455777 4588888887777777766664
No 64
>KOG2893|consensus
Probab=94.14 E-value=0.02 Score=50.75 Aligned_cols=49 Identities=35% Similarity=0.682 Sum_probs=32.9
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccchhcc
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIKSVHE 261 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~~~ 261 (458)
-.|.+|++.|....-|.+|++..| |+|.+|.+...+--.|..|....|.
T Consensus 11 pwcwycnrefddekiliqhqkakh----fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceeehhhhhh
Confidence 357777777777777777776543 6777777776666667776654443
No 65
>KOG4173|consensus
Probab=93.06 E-value=0.031 Score=48.49 Aligned_cols=52 Identities=29% Similarity=0.606 Sum_probs=40.9
Q ss_pred CCcccccc--cccccCCHHHHHHHHHhhcCCCccccccCccccCChHHHHHHHHHhc
Q psy2838 178 VKKFPCDQ--CGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNSAH 232 (458)
Q Consensus 178 ~k~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 232 (458)
...|.|++ |...|.....+..|..+.|+. .|.+|.+.|.+...|..|+...|
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHH
Confidence 45688886 888888888888887655553 59999999999999999987655
No 66
>cd07765 KRAB_A-box KRAB (Kruppel-associated box) domain -A box. The KRAB domain is a transcription repression module, found in a subgroup of the zinc finger proteins (ZFPs) of the C2H2 family, KRAB-ZFPs. KRAB-ZFPs comprise the largest group of transcriptional regulators in mammals, and are only found in tetrapods. These proteins have been shown to play important roles in cell differentiation and organ development, and in regulating viral replication and transcription. A KRAB domain may consist of an A-box, or of an A-box plus either a B-box, a divergent B-box (b), or a C-box. Only the A-box is included in this model. The A-box is needed for repression, the B- and C- boxes are not. KRAB-ZFPs have one or two KRAB domains at their amino-terminal end, and multiple C2H2 zinc finger motifs at their C-termini. Some KRAB-ZFPs also contain a SCAN domain which mediates homo- and hetero-oligomerization. The KRAB domain is a protein-protein interaction module which represses transcription through
Probab=93.06 E-value=0.0079 Score=36.21 Aligned_cols=29 Identities=7% Similarity=-0.015 Sum_probs=26.4
Q ss_pred ceeeecchhHHHHHHHhcCCCcCCCCCCC
Q psy2838 43 YNYYQLSSDEKFEILKSISASFTPGYGGF 71 (458)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~y~~~ 71 (458)
++|.||++.|+.++|.++.++++.+|+++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (40)
T cd07765 1 VTFEDVAVYFSQEEWELLDPAQRDLYRDV 29 (40)
T ss_pred CcceeeeeecCHHHHhcCCHHHHHHHHHH
Confidence 46899999999999999999999998876
No 67
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.47 E-value=0.14 Score=40.57 Aligned_cols=23 Identities=22% Similarity=0.576 Sum_probs=11.7
Q ss_pred eecCccCcccCChhHHHHHHhhh
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTV 315 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h 315 (458)
|.|+.|...|-..-.+..|...|
T Consensus 82 y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 82 YVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred eeCCCCCCccccccchhhhhhcc
Confidence 55555555555544444554443
No 68
>KOG2893|consensus
Probab=92.47 E-value=0.028 Score=49.85 Aligned_cols=46 Identities=24% Similarity=0.584 Sum_probs=25.6
Q ss_pred cCccCcccCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHhhcc
Q psy2838 295 CEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLSVH 344 (458)
Q Consensus 295 C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h 344 (458)
|-+|++.|.....|.+|++.. -|+|.+|.+...+--.|..|-..+|
T Consensus 13 cwycnrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhh
Confidence 556666666666666665543 2666666665555545555543333
No 69
>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=91.78 E-value=0.26 Score=39.48 Aligned_cols=25 Identities=32% Similarity=0.707 Sum_probs=19.9
Q ss_pred ccc----CcCcccCCCHHHHHHHHHHhCC
Q psy2838 349 LTC----RTCGLFCDSKRALTAHVREAHP 373 (458)
Q Consensus 349 ~~C----~~C~~~f~~~~~L~~H~~~~h~ 373 (458)
|.| ..|++.+.+...|.+|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 668 8888888888888888888774
No 70
>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=91.15 E-value=0.17 Score=31.09 Aligned_cols=23 Identities=17% Similarity=0.535 Sum_probs=15.5
Q ss_pred ccccCcCcccCCCHHHHHHHHHH
Q psy2838 348 RLTCRTCGLFCDSKRALTAHVRE 370 (458)
Q Consensus 348 ~~~C~~C~~~f~~~~~L~~H~~~ 370 (458)
+|.|.+|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 45677777777777777777654
No 71
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.90 E-value=0.21 Score=28.20 Aligned_cols=19 Identities=26% Similarity=0.555 Sum_probs=10.5
Q ss_pred ccCcCcccCCCHHHHHHHHH
Q psy2838 350 TCRTCGLFCDSKRALTAHVR 369 (458)
Q Consensus 350 ~C~~C~~~f~~~~~L~~H~~ 369 (458)
.|+.||+.| ....|.+|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 356666666 4455555554
No 72
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.37 E-value=0.25 Score=27.88 Aligned_cols=18 Identities=28% Similarity=0.698 Sum_probs=8.2
Q ss_pred ccccCccccCChHHHHHHH
Q psy2838 210 KCDFCDKTFAHKPNLIAHM 228 (458)
Q Consensus 210 ~C~~C~~~f~~~~~L~~H~ 228 (458)
.|+.|++.| ....|.+|+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred cCCCCCCEE-CHHHHHHHH
Confidence 344444444 334444444
No 73
>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=89.49 E-value=0.45 Score=38.09 Aligned_cols=24 Identities=17% Similarity=0.505 Sum_probs=17.0
Q ss_pred cccccCccccCChHHHHHHHHHhcC
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHN 233 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~ 233 (458)
..|..|+....- +++..|++..|.
T Consensus 12 lIC~~C~~av~~-~~v~~HL~~~H~ 35 (109)
T PF12013_consen 12 LICRQCQYAVQP-SEVESHLRKRHH 35 (109)
T ss_pred EEeCCCCcccCc-hHHHHHHHHhcc
Confidence 578888877654 788888885443
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=89.29 E-value=0.74 Score=36.60 Aligned_cols=29 Identities=24% Similarity=0.581 Sum_probs=15.2
Q ss_pred ccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCC
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDS 360 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~ 360 (458)
..|+.||++|-... ..+..|+.||..|.-
T Consensus 10 R~Cp~CG~kFYDLn-----------k~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 10 RTCPSCGAKFYDLN-----------KDPIVCPKCGTEFPP 38 (108)
T ss_pred ccCCCCcchhccCC-----------CCCccCCCCCCccCc
Confidence 45666666554321 134556666666543
No 75
>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=88.01 E-value=0.43 Score=29.16 Aligned_cols=22 Identities=14% Similarity=0.647 Sum_probs=13.3
Q ss_pred eecCccCcccCChhHHHHHHhh
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTT 314 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~ 314 (458)
|.|.+|++.|.+...+..|++.
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred eEccccCCccCCHHHHHHHHCh
Confidence 5566666666666666666543
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.64 E-value=0.25 Score=33.31 Aligned_cols=27 Identities=30% Similarity=0.623 Sum_probs=19.7
Q ss_pred CccccCcCcccCCCHHHHHHHHHHhCC
Q psy2838 347 VRLTCRTCGLFCDSKRALTAHVREAHP 373 (458)
Q Consensus 347 ~~~~C~~C~~~f~~~~~L~~H~~~~h~ 373 (458)
.-+.|+-|+..|.......+|+.+.|+
T Consensus 16 ~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 16 EFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 345577777777777777777777775
No 77
>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=87.21 E-value=0.36 Score=29.35 Aligned_cols=11 Identities=45% Similarity=1.216 Sum_probs=5.6
Q ss_pred eecCccCcccC
Q psy2838 293 YTCEVCSKSYN 303 (458)
Q Consensus 293 ~~C~~C~~~f~ 303 (458)
|+|.+||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 45555555443
No 78
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.98 E-value=1.3 Score=35.22 Aligned_cols=45 Identities=20% Similarity=0.478 Sum_probs=26.3
Q ss_pred ecCccccccCCchhhhhccchhccCcceecCcccccccCHHHHHHHH
Q psy2838 238 KCDHCVKSFNQKPNLISHIKSVHEGIKYKCEECTKTFAQKQNLLSHV 284 (458)
Q Consensus 238 ~C~~C~~~f~~~~~L~~H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~ 284 (458)
.|--|...|........- .......|.|+.|...|-..-++-.|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~~FC~dCD~fiHe 101 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKNVFCVDCDVFVHE 101 (112)
T ss_pred cccCcCCCCCCccccccc--ccccccceeCCCCCCccccccchhhhh
Confidence 377777777654311100 012234678888888887777777775
No 79
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=85.52 E-value=0.34 Score=32.66 Aligned_cols=30 Identities=20% Similarity=0.513 Sum_probs=22.9
Q ss_pred ccCccccCccccccCCCHHHHHHHHhhccC
Q psy2838 316 HQAQKYKCADCGRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 316 ~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~ 345 (458)
.++.-+.|+.|+..|....+..+|+.+.|+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 355667888888888888888888776664
No 80
>KOG2186|consensus
Probab=85.01 E-value=0.36 Score=43.66 Aligned_cols=46 Identities=30% Similarity=0.705 Sum_probs=26.5
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccc
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 257 (458)
|.|..||.... +..|.+|+-..++ ..|.|-.|++.|.. ..+..|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 55666666543 3455556665555 45666666666655 45555554
No 81
>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=84.21 E-value=0.57 Score=37.25 Aligned_cols=34 Identities=29% Similarity=0.753 Sum_probs=27.4
Q ss_pred cCceeecCccCcccCChhHHHHHHhhhccCccccCccccccCCCH
Q psy2838 289 MGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGRLFAQE 333 (458)
Q Consensus 289 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 333 (458)
.+.+..|+.||+.|.... ..|..|++||..|.-.
T Consensus 6 lGtKR~Cp~CG~kFYDLn-----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLN-----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccCC-----------CCCccCCCCCCccCcc
Confidence 355689999999997642 3788999999998776
No 82
>KOG0943|consensus
Probab=81.96 E-value=1.5 Score=48.23 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=4.9
Q ss_pred CCcccccccc
Q psy2838 178 VKKFPCDQCG 187 (458)
Q Consensus 178 ~k~~~C~~C~ 187 (458)
..-|.|..||
T Consensus 1255 QDIfECkTCG 1264 (3015)
T KOG0943|consen 1255 QDIFECKTCG 1264 (3015)
T ss_pred chhhhhcccc
Confidence 3345555554
No 83
>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=80.78 E-value=1.1 Score=29.30 Aligned_cols=24 Identities=25% Similarity=0.628 Sum_probs=12.3
Q ss_pred cccCcCcccCCCH----HHHHHHHHHhC
Q psy2838 349 LTCRTCGLFCDSK----RALTAHVREAH 372 (458)
Q Consensus 349 ~~C~~C~~~f~~~----~~L~~H~~~~h 372 (458)
..|.+|++.+... +.|.+|++..|
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 4466666666553 56666665544
No 84
>KOG1832|consensus
Probab=80.73 E-value=0.72 Score=49.15 Aligned_cols=14 Identities=14% Similarity=0.356 Sum_probs=8.2
Q ss_pred CcCcccCCCHHHHH
Q psy2838 352 RTCGLFCDSKRALT 365 (458)
Q Consensus 352 ~~C~~~f~~~~~L~ 365 (458)
..|...|.+.....
T Consensus 1303 dqc~VtFNstG~Vm 1316 (1516)
T KOG1832|consen 1303 DQCAVTFNSTGDVM 1316 (1516)
T ss_pred cceEEEeccCccch
Confidence 45667776655433
No 85
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.72 E-value=0.47 Score=43.05 Aligned_cols=13 Identities=38% Similarity=0.915 Sum_probs=6.5
Q ss_pred eecCccCcccCCh
Q psy2838 293 YTCEVCSKSYNQV 305 (458)
Q Consensus 293 ~~C~~C~~~f~~~ 305 (458)
+.|++|++.|.+.
T Consensus 6 ~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 6 ITCPVCGKEFKTK 18 (214)
T ss_pred eECCCCCCeeeee
Confidence 4455555555443
No 86
>KOG2186|consensus
Probab=78.71 E-value=1 Score=40.78 Aligned_cols=55 Identities=20% Similarity=0.545 Sum_probs=36.6
Q ss_pred ceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHhhhccCccc
Q psy2838 264 KYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMTTVHQAQKY 321 (458)
Q Consensus 264 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~ 321 (458)
-|.|..||....- ..+.+|+-+.++ .-|.|-.|++.|.. ..+..|..--+....|
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcchHHHh
Confidence 3778888877653 456678755555 56888888888877 5667776655544444
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=74.50 E-value=1.8 Score=34.97 Aligned_cols=14 Identities=7% Similarity=-0.092 Sum_probs=7.8
Q ss_pred ccccCcCcccCCCH
Q psy2838 348 RLTCRTCGLFCDSK 361 (458)
Q Consensus 348 ~~~C~~C~~~f~~~ 361 (458)
+..|+.||..|.-.
T Consensus 26 p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 26 PAVSPYTGEQFPPE 39 (129)
T ss_pred CccCCCcCCccCcc
Confidence 45566666665443
No 88
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=73.38 E-value=1.7 Score=39.34 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=14.2
Q ss_pred ceeecCccccccCCchhhhhccc
Q psy2838 235 VRFKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 235 ~~~~C~~C~~~f~~~~~L~~H~~ 257 (458)
+.+.|++|+..|.++.-+....+
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCce
Confidence 45677777777776655444443
No 89
>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=73.16 E-value=1.5 Score=39.47 Aligned_cols=26 Identities=35% Similarity=0.839 Sum_probs=13.2
Q ss_pred cccCccccccCCCHHHHHHHHhhccC
Q psy2838 320 KYKCADCGRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 320 ~~~C~~C~~~f~~~~~L~~H~~~~h~ 345 (458)
.|.|+.|+|.|.-..-.++|+.+.|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 35555555555555555555555554
No 90
>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=72.62 E-value=2.2 Score=26.12 Aligned_cols=10 Identities=30% Similarity=0.810 Sum_probs=5.1
Q ss_pred eecCccCccc
Q psy2838 293 YTCEVCSKSY 302 (458)
Q Consensus 293 ~~C~~C~~~f 302 (458)
|+|.+||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4555555443
No 91
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=72.57 E-value=3.3 Score=25.69 Aligned_cols=10 Identities=20% Similarity=0.926 Sum_probs=4.4
Q ss_pred ecCccccccC
Q psy2838 238 KCDHCVKSFN 247 (458)
Q Consensus 238 ~C~~C~~~f~ 247 (458)
.|+.|+..|.
T Consensus 4 ~Cp~C~~~y~ 13 (36)
T PF13717_consen 4 TCPNCQAKYE 13 (36)
T ss_pred ECCCCCCEEe
Confidence 3444444443
No 92
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=72.41 E-value=3.2 Score=25.87 Aligned_cols=9 Identities=33% Similarity=1.080 Sum_probs=3.8
Q ss_pred cCccccccC
Q psy2838 239 CDHCVKSFN 247 (458)
Q Consensus 239 C~~C~~~f~ 247 (458)
|+.|+..|.
T Consensus 5 CP~C~~~f~ 13 (37)
T PF13719_consen 5 CPNCQTRFR 13 (37)
T ss_pred CCCCCceEE
Confidence 444444443
No 93
>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=72.38 E-value=7.5 Score=31.55 Aligned_cols=31 Identities=13% Similarity=0.011 Sum_probs=22.7
Q ss_pred CCccccCcCcccCCCHHHHHHHHHHhCCCCCcccCCCCCCCC
Q psy2838 346 GVRLTCRTCGLFCDSKRALTAHVREAHPGCEYKKRGRGRPKL 387 (458)
Q Consensus 346 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~ 387 (458)
+.+..|+.||++|... ...|..|+.||....
T Consensus 7 GtKr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~ 37 (129)
T TIGR02300 7 GTKRICPNTGSKFYDL-----------NRRPAVSPYTGEQFP 37 (129)
T ss_pred CccccCCCcCcccccc-----------CCCCccCCCcCCccC
Confidence 4466799999999753 235788999987543
No 94
>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=72.28 E-value=2.5 Score=24.07 Aligned_cols=10 Identities=30% Similarity=0.786 Sum_probs=5.9
Q ss_pred ccCcCcccCC
Q psy2838 350 TCRTCGLFCD 359 (458)
Q Consensus 350 ~C~~C~~~f~ 359 (458)
.|+.||+.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 3666666653
No 95
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=71.75 E-value=3.1 Score=28.72 Aligned_cols=9 Identities=33% Similarity=1.099 Sum_probs=4.4
Q ss_pred ccccCcCcc
Q psy2838 348 RLTCRTCGL 356 (458)
Q Consensus 348 ~~~C~~C~~ 356 (458)
+|.|+.||+
T Consensus 50 ~Y~Cp~CGF 58 (61)
T COG2888 50 PYRCPKCGF 58 (61)
T ss_pred ceECCCcCc
Confidence 455555543
No 96
>KOG4124|consensus
Probab=69.80 E-value=0.74 Score=43.57 Aligned_cols=51 Identities=12% Similarity=0.015 Sum_probs=33.5
Q ss_pred CCcccccc--CccccCChHHHHHH-----HHHhcCCceeecCccccccCCchhhhhccc
Q psy2838 206 GVRIKCDF--CDKTFAHKPNLIAH-----MNSAHNGVRFKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 206 ~~~~~C~~--C~~~f~~~~~L~~H-----~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 257 (458)
+.++.|.. |.+..........| +-.-+..+||+|+ |++.+.++..|+.|-.
T Consensus 176 E~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~~-~~~~~~T~~~l~~HS~ 233 (442)
T KOG4124|consen 176 EYRVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKMP-ESLVMDTSSPLSDHSM 233 (442)
T ss_pred cccccccCchhhhhhhccccccccccccccccccccCCccCc-ccccccccchhhhccc
Confidence 45577765 66665544444333 3333456788887 8899999888888865
No 97
>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=69.42 E-value=3.3 Score=26.88 Aligned_cols=24 Identities=29% Similarity=0.624 Sum_probs=11.2
Q ss_pred ccccCccccccCCC----HHHHHHHHhh
Q psy2838 319 QKYKCADCGRLFAQ----EHTLRTHTLS 342 (458)
Q Consensus 319 ~~~~C~~C~~~f~~----~~~L~~H~~~ 342 (458)
...+|..|++.+.. .+.|.+|++.
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 34556666665544 2566666543
No 98
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=69.28 E-value=5.2 Score=33.88 Aligned_cols=11 Identities=36% Similarity=1.117 Sum_probs=5.4
Q ss_pred eecCccCcccC
Q psy2838 293 YTCEVCSKSYN 303 (458)
Q Consensus 293 ~~C~~C~~~f~ 303 (458)
|.|+.|+..|.
T Consensus 100 Y~Cp~C~~~y~ 110 (147)
T smart00531 100 YKCPNCQSKYT 110 (147)
T ss_pred EECcCCCCEee
Confidence 44555554444
No 99
>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=69.20 E-value=3.7 Score=25.60 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=3.6
Q ss_pred ecCcccccc
Q psy2838 238 KCDHCVKSF 246 (458)
Q Consensus 238 ~C~~C~~~f 246 (458)
.|+.|+..|
T Consensus 4 ~CP~C~~~~ 12 (38)
T TIGR02098 4 QCPNCKTSF 12 (38)
T ss_pred ECCCCCCEE
Confidence 344444433
No 100
>KOG1189|consensus
Probab=68.96 E-value=4.8 Score=42.44 Aligned_cols=20 Identities=20% Similarity=0.233 Sum_probs=9.9
Q ss_pred eeeecchhHHHHHHHhcCCC
Q psy2838 44 NYYQLSSDEKFEILKSISAS 63 (458)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~ 63 (458)
-++.||+..-.+-.+.|+.+
T Consensus 434 hQkeLa~qlnee~~~Rls~~ 453 (960)
T KOG1189|consen 434 HQKELADQLNEEALRRLSNQ 453 (960)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 34445555555555555444
No 101
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=67.77 E-value=2.4 Score=36.13 Aligned_cols=16 Identities=25% Similarity=0.453 Sum_probs=9.9
Q ss_pred eecCccccccCCchhh
Q psy2838 237 FKCDHCVKSFNQKPNL 252 (458)
Q Consensus 237 ~~C~~C~~~f~~~~~L 252 (458)
++|+.||++|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 6677777776654443
No 102
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=67.48 E-value=1.2 Score=37.91 Aligned_cols=12 Identities=25% Similarity=0.587 Sum_probs=6.7
Q ss_pred cccCcCcccCCC
Q psy2838 349 LTCRTCGLFCDS 360 (458)
Q Consensus 349 ~~C~~C~~~f~~ 360 (458)
++|+.||++|.+
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 446666666554
No 103
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=66.83 E-value=3.7 Score=28.39 Aligned_cols=9 Identities=44% Similarity=1.198 Sum_probs=4.3
Q ss_pred ccccCcCcc
Q psy2838 348 RLTCRTCGL 356 (458)
Q Consensus 348 ~~~C~~C~~ 356 (458)
.|.|+.||+
T Consensus 48 ~Y~CP~CGF 56 (59)
T PRK14890 48 PYTCPKCGF 56 (59)
T ss_pred ceECCCCCC
Confidence 444555543
No 104
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=65.57 E-value=5.1 Score=27.82 Aligned_cols=6 Identities=17% Similarity=0.334 Sum_probs=1.9
Q ss_pred ceecCc
Q psy2838 264 KYKCEE 269 (458)
Q Consensus 264 ~~~C~~ 269 (458)
+..|..
T Consensus 38 ~v~C~~ 43 (60)
T PF02176_consen 38 PVPCPY 43 (60)
T ss_dssp EEE-SS
T ss_pred cEECCC
Confidence 333333
No 105
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=64.59 E-value=3.4 Score=26.93 Aligned_cols=11 Identities=27% Similarity=0.918 Sum_probs=5.0
Q ss_pred eecCccCcccC
Q psy2838 293 YTCEVCSKSYN 303 (458)
Q Consensus 293 ~~C~~C~~~f~ 303 (458)
|.|..|+..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44444444443
No 106
>PF12907 zf-met2: Zinc-binding
Probab=64.22 E-value=5.2 Score=25.43 Aligned_cols=12 Identities=25% Similarity=0.415 Sum_probs=5.1
Q ss_pred HHHHHHHhhccC
Q psy2838 334 HTLRTHTLSVHS 345 (458)
Q Consensus 334 ~~L~~H~~~~h~ 345 (458)
..|..|....|.
T Consensus 18 ~~L~eH~enKHp 29 (40)
T PF12907_consen 18 PQLKEHAENKHP 29 (40)
T ss_pred HHHHHHHHccCC
Confidence 334444444443
No 107
>KOG2807|consensus
Probab=64.18 E-value=5.5 Score=37.65 Aligned_cols=85 Identities=19% Similarity=0.485 Sum_probs=48.9
Q ss_pred eeecCccccccCCchhhhhccchhccCcceecCcccccccCHHHHHHHHHHhhcC--ce------------eecCccCcc
Q psy2838 236 RFKCDHCVKSFNQKPNLISHIKSVHEGIKYKCEECTKTFAQKQNLLSHVQAIHMG--IK------------YTCEVCSKS 301 (458)
Q Consensus 236 ~~~C~~C~~~f~~~~~L~~H~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~--~~------------~~C~~C~~~ 301 (458)
-|.|+.|... .-..|..|+.|+.+......|.+-. ||.- ++ -.|-.|+-.
T Consensus 276 Gy~CP~Ckak--------------vCsLP~eCpiC~ltLVss~hLARSy--hhL~PL~~F~Eip~~~~~~~~~Cf~C~~~ 339 (378)
T KOG2807|consen 276 GYFCPQCKAK--------------VCSLPIECPICSLTLVSSPHLARSY--HHLFPLKPFVEIPETEYNGSRFCFACQGE 339 (378)
T ss_pred ceeCCcccCe--------------eecCCccCCccceeEecchHHHHHH--HhhcCCcchhhccccccCCCcceeeeccc
Confidence 3778888643 2335778888888877777776543 2210 00 125555111
Q ss_pred cCChhHHHHHHhhhccCccccCccccccCCCHHHHHHHHhhccCCCccccCcCc
Q psy2838 302 YNQVTNLLSHMTTVHQAQKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCG 355 (458)
Q Consensus 302 f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~ 355 (458)
-.....|+|..|...|-.--+...|...| .|+.|.
T Consensus 340 -------------~~~~~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 340 -------------LLSSGRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred -------------cCCCCcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 11223488888888887777777774322 366664
No 108
>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=64.04 E-value=6.7 Score=33.67 Aligned_cols=16 Identities=6% Similarity=0.289 Sum_probs=8.5
Q ss_pred eecCccCcccCChhHH
Q psy2838 293 YTCEVCSKSYNQVTNL 308 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L 308 (458)
|.|+.|+..|+....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 5555555555544444
No 109
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=63.99 E-value=5.2 Score=26.79 Aligned_cols=25 Identities=32% Similarity=0.688 Sum_probs=15.6
Q ss_pred cccCcCcccCCCH-----HHHHHHHHHhCC
Q psy2838 349 LTCRTCGLFCDSK-----RALTAHVREAHP 373 (458)
Q Consensus 349 ~~C~~C~~~f~~~-----~~L~~H~~~~h~ 373 (458)
-.|..|++.+... +.|.+|++..|+
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3477777766544 577777775443
No 110
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=61.85 E-value=2.9 Score=29.09 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=10.1
Q ss_pred HHHHHHhhccCCCccccCc----CcccC
Q psy2838 335 TLRTHTLSVHSGVRLTCRT----CGLFC 358 (458)
Q Consensus 335 ~L~~H~~~~h~~~~~~C~~----C~~~f 358 (458)
.|..|+...-......|++ |+..+
T Consensus 25 ~l~~H~~~~C~~~~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPYSPYGCKERV 52 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS----S--EE
T ss_pred HHHHHHHccCCCCcEECCCCCCCCCCcc
Confidence 4555544344444444555 55544
No 111
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=61.20 E-value=5 Score=34.52 Aligned_cols=23 Identities=26% Similarity=0.670 Sum_probs=15.8
Q ss_pred eeecCccCcccCChhHHHHHHhhhccCccccCcccc
Q psy2838 292 KYTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCG 327 (458)
Q Consensus 292 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 327 (458)
.|.|++||..+ -++.|-+||+||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 47788887643 346677788887
No 112
>PF15269 zf-C2H2_7: Zinc-finger
Probab=60.01 E-value=6.9 Score=25.21 Aligned_cols=23 Identities=26% Similarity=0.644 Sum_probs=18.0
Q ss_pred cccCcCcccCCCHHHHHHHHHHh
Q psy2838 349 LTCRTCGLFCDSKRALTAHVREA 371 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~~ 371 (458)
|+|-.|..++..++.|..||+-.
T Consensus 21 ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ceeecCCcccchHHHHHHHHHHH
Confidence 55888888888888888888643
No 113
>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=59.51 E-value=2.9 Score=26.90 Aligned_cols=11 Identities=36% Similarity=1.195 Sum_probs=5.6
Q ss_pred eecCccCcccC
Q psy2838 293 YTCEVCSKSYN 303 (458)
Q Consensus 293 ~~C~~C~~~f~ 303 (458)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 45555555544
No 114
>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=58.92 E-value=8.7 Score=32.96 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=7.4
Q ss_pred cccccCccccCChHHH
Q psy2838 209 IKCDFCDKTFAHKPNL 224 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L 224 (458)
|.|+.|+..|....++
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 4455555444444333
No 115
>KOG1832|consensus
Probab=58.50 E-value=3.5 Score=44.23 Aligned_cols=9 Identities=22% Similarity=0.523 Sum_probs=4.0
Q ss_pred ccccCCCHH
Q psy2838 326 CGRLFAQEH 334 (458)
Q Consensus 326 C~~~f~~~~ 334 (458)
|.-+|.+..
T Consensus 1305 c~VtFNstG 1313 (1516)
T KOG1832|consen 1305 CAVTFNSTG 1313 (1516)
T ss_pred eEEEeccCc
Confidence 444444443
No 116
>PHA00626 hypothetical protein
Probab=58.45 E-value=5.8 Score=27.01 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=4.5
Q ss_pred eecCcccccc
Q psy2838 265 YKCEECTKTF 274 (458)
Q Consensus 265 ~~C~~C~~~f 274 (458)
|+|+.|++.|
T Consensus 24 YkCkdCGY~f 33 (59)
T PHA00626 24 YVCCDCGYND 33 (59)
T ss_pred eEcCCCCCee
Confidence 4444444444
No 117
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=58.36 E-value=7.9 Score=33.95 Aligned_cols=15 Identities=13% Similarity=0.454 Sum_probs=7.6
Q ss_pred eecCccCcccCChhH
Q psy2838 293 YTCEVCSKSYNQVTN 307 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~ 307 (458)
|.|+.|+..|+....
T Consensus 118 Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 118 FFCPNCHIRFTFDEA 132 (178)
T ss_pred EECCCCCcEEeHHHH
Confidence 555555555544443
No 118
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=58.05 E-value=6.8 Score=25.70 Aligned_cols=9 Identities=33% Similarity=1.154 Sum_probs=3.8
Q ss_pred eecCccccc
Q psy2838 237 FKCDHCVKS 245 (458)
Q Consensus 237 ~~C~~C~~~ 245 (458)
|+|+.|+..
T Consensus 4 y~C~~CG~~ 12 (46)
T PRK00398 4 YKCARCGRE 12 (46)
T ss_pred EECCCCCCE
Confidence 444444443
No 119
>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=56.28 E-value=5.5 Score=26.83 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=4.1
Q ss_pred eecCcccccc
Q psy2838 237 FKCDHCVKSF 246 (458)
Q Consensus 237 ~~C~~C~~~f 246 (458)
|+|..|+..|
T Consensus 6 y~C~~Cg~~f 15 (52)
T TIGR02605 6 YRCTACGHRF 15 (52)
T ss_pred EEeCCCCCEe
Confidence 3444444433
No 120
>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=55.47 E-value=5.8 Score=25.05 Aligned_cols=11 Identities=27% Similarity=1.229 Sum_probs=5.2
Q ss_pred eecCccccccC
Q psy2838 237 FKCDHCVKSFN 247 (458)
Q Consensus 237 ~~C~~C~~~f~ 247 (458)
|+|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555554443
No 121
>PF15269 zf-C2H2_7: Zinc-finger
Probab=55.31 E-value=8.8 Score=24.73 Aligned_cols=23 Identities=30% Similarity=0.492 Sum_probs=20.3
Q ss_pred cccccccccccCCHHHHHHHHHh
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNS 202 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~ 202 (458)
.|+|-+|..+..-++.|-.||+.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 48899999999999999999973
No 122
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=55.10 E-value=3.8 Score=38.31 Aligned_cols=74 Identities=16% Similarity=0.373 Sum_probs=41.5
Q ss_pred cceecCcccccccCHHHHHHHHHHhhc-------C-------ceeecCccCcccCChhHHHHHHh-hhccCccccCcccc
Q psy2838 263 IKYKCEECTKTFAQKQNLLSHVQAIHM-------G-------IKYTCEVCSKSYNQVTNLLSHMT-TVHQAQKYKCADCG 327 (458)
Q Consensus 263 ~~~~C~~C~~~f~~~~~L~~H~~~~h~-------~-------~~~~C~~C~~~f~~~~~L~~H~~-~h~~~~~~~C~~C~ 327 (458)
.|..|+.|.........|.+-. ||. + +.-.|-.|.-.|..... |-. .-+..-.|+|+.|.
T Consensus 321 LPi~CP~Csl~LilsthLarSy--hhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~---~~~~~~~ss~rY~Ce~CK 395 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSY--HHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPV---SPFDESTSSGRYQCELCK 395 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHH--HhhccCcccccccCCCCCCCccceeccCCCCCCCC---Ccccccccccceechhhh
Confidence 4677777776665555554332 121 0 11347777777764321 110 01123458888888
Q ss_pred ccCCCHHHHHHHHh
Q psy2838 328 RLFAQEHTLRTHTL 341 (458)
Q Consensus 328 ~~f~~~~~L~~H~~ 341 (458)
..|-.--+...|..
T Consensus 396 ~~FC~dCdvfiHe~ 409 (421)
T COG5151 396 STFCSDCDVFIHET 409 (421)
T ss_pred hhhhhhhHHHHHHH
Confidence 88888888777744
No 123
>PRK04023 DNA polymerase II large subunit; Validated
Probab=54.89 E-value=10 Score=41.70 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=13.0
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCccceeee
Q psy2838 67 GYGGFLPNTPPLGHHYLSPSGLPGKAEYLEI 97 (458)
Q Consensus 67 ~y~~~~~~~~~~~~~~~~~~~~p~~~~~~~~ 97 (458)
.|+|||.+-.+|+ |. ++.+.||.+
T Consensus 408 ~yGdFlENNhpL~-----Ps--~y~~EWW~q 431 (1121)
T PRK04023 408 NYGDFLENNHPLL-----PS--SYCEEWWIQ 431 (1121)
T ss_pred ccchhhhcCCcCC-----Cc--cccHHHHHH
Confidence 4666665555554 21 255666655
No 124
>KOG1701|consensus
Probab=54.27 E-value=3.1 Score=40.81 Aligned_cols=41 Identities=22% Similarity=0.522 Sum_probs=19.2
Q ss_pred ccccCccccCChHHHHHHHHHhcCCceeecCccccccCCch
Q psy2838 210 KCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKP 250 (458)
Q Consensus 210 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~ 250 (458)
.|..|+|...-...-.+=|..--...-|+|..|.+...-.+
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~ 316 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQS 316 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhcccc
Confidence 56666665433332222232222223567777766554433
No 125
>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=54.16 E-value=12 Score=21.30 Aligned_cols=19 Identities=16% Similarity=0.412 Sum_probs=13.5
Q ss_pred ccCcCcccCCCHHHHHHHHH
Q psy2838 350 TCRTCGLFCDSKRALTAHVR 369 (458)
Q Consensus 350 ~C~~C~~~f~~~~~L~~H~~ 369 (458)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 478888777 5567777765
No 126
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=54.14 E-value=6.8 Score=26.11 Aligned_cols=10 Identities=30% Similarity=1.036 Sum_probs=4.1
Q ss_pred eecCccCccc
Q psy2838 293 YTCEVCSKSY 302 (458)
Q Consensus 293 ~~C~~C~~~f 302 (458)
|.|..|++.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 3444444433
No 127
>PRK04023 DNA polymerase II large subunit; Validated
Probab=54.09 E-value=11 Score=41.40 Aligned_cols=11 Identities=36% Similarity=0.918 Sum_probs=6.8
Q ss_pred Ccccccccccc
Q psy2838 179 KKFPCDQCGKS 189 (458)
Q Consensus 179 k~~~C~~C~~~ 189 (458)
....|+.||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34567777765
No 128
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=53.83 E-value=16 Score=30.94 Aligned_cols=12 Identities=25% Similarity=0.789 Sum_probs=6.6
Q ss_pred cccccCccccCC
Q psy2838 209 IKCDFCDKTFAH 220 (458)
Q Consensus 209 ~~C~~C~~~f~~ 220 (458)
|.|+.|+..|..
T Consensus 100 Y~Cp~C~~~y~~ 111 (147)
T smart00531 100 YKCPNCQSKYTF 111 (147)
T ss_pred EECcCCCCEeeH
Confidence 555555555543
No 129
>KOG1280|consensus
Probab=52.90 E-value=11 Score=36.12 Aligned_cols=26 Identities=19% Similarity=0.368 Sum_probs=12.8
Q ss_pred eecCccCcccCChhHHHHHHhhhccC
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQA 318 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~ 318 (458)
|.|++|++.=.+...|..|+...|.+
T Consensus 80 ftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 80 FTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred ccCCcccccccchhHHHHHhhhcCcc
Confidence 55555555544445555555444433
No 130
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=52.12 E-value=12 Score=32.78 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=5.7
Q ss_pred cccccCccccCCh
Q psy2838 209 IKCDFCDKTFAHK 221 (458)
Q Consensus 209 ~~C~~C~~~f~~~ 221 (458)
|.|+.|+..|...
T Consensus 118 Y~Cp~C~~rytf~ 130 (178)
T PRK06266 118 FFCPNCHIRFTFD 130 (178)
T ss_pred EECCCCCcEEeHH
Confidence 4444444444333
No 131
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=51.67 E-value=4.8 Score=30.23 Aligned_cols=10 Identities=50% Similarity=1.368 Sum_probs=4.8
Q ss_pred ccCccccccC
Q psy2838 321 YKCADCGRLF 330 (458)
Q Consensus 321 ~~C~~C~~~f 330 (458)
++|..|+..|
T Consensus 54 W~C~kCg~~f 63 (89)
T COG1997 54 WKCRKCGAKF 63 (89)
T ss_pred EEcCCCCCee
Confidence 4455554444
No 132
>KOG3408|consensus
Probab=51.34 E-value=8.5 Score=30.82 Aligned_cols=26 Identities=19% Similarity=0.434 Sum_probs=21.8
Q ss_pred CccccCcCcccCCCHHHHHHHHHHhC
Q psy2838 347 VRLTCRTCGLFCDSKRALTAHVREAH 372 (458)
Q Consensus 347 ~~~~C~~C~~~f~~~~~L~~H~~~~h 372 (458)
..|+|-.|.+-|.+...|..|.+..-
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ktK~ 81 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKTKV 81 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhccH
Confidence 35889999999999999999988653
No 133
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=51.21 E-value=2.9 Score=30.46 Aligned_cols=42 Identities=12% Similarity=0.383 Sum_probs=20.2
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecC--ccccccCCchhh
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCD--HCVKSFNQKPNL 252 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~--~C~~~f~~~~~L 252 (458)
+.|+.|+.......+-..+.. ..+..+.|. .|+.+|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEE
Confidence 356666655432222222211 334556676 677777654443
No 134
>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=51.06 E-value=11 Score=22.70 Aligned_cols=7 Identities=43% Similarity=1.198 Sum_probs=2.9
Q ss_pred cccccCc
Q psy2838 209 IKCDFCD 215 (458)
Q Consensus 209 ~~C~~C~ 215 (458)
.+|+.||
T Consensus 18 irC~~CG 24 (32)
T PF03604_consen 18 IRCPECG 24 (32)
T ss_dssp SSBSSSS
T ss_pred EECCcCC
Confidence 3444444
No 135
>KOG1701|consensus
Probab=50.72 E-value=1.8 Score=42.42 Aligned_cols=12 Identities=25% Similarity=0.874 Sum_probs=6.3
Q ss_pred cccccccccccC
Q psy2838 180 KFPCDQCGKSFT 191 (458)
Q Consensus 180 ~~~C~~C~~~f~ 191 (458)
-|+|..|++...
T Consensus 302 CFtC~~C~r~L~ 313 (468)
T KOG1701|consen 302 CFTCRTCRRQLA 313 (468)
T ss_pred ceehHhhhhhhc
Confidence 455655655443
No 136
>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=47.67 E-value=10 Score=31.29 Aligned_cols=25 Identities=28% Similarity=0.509 Sum_probs=15.9
Q ss_pred ccccCcCcccCCCHHHHHHHHHHhCCCC
Q psy2838 348 RLTCRTCGLFCDSKRALTAHVREAHPGC 375 (458)
Q Consensus 348 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~ 375 (458)
...|-.||+.|.. |.+|++.||+-.
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred eeEEccCCcccch---HHHHHHHccCCC
Confidence 3569999999976 589999998753
No 137
>KOG2593|consensus
Probab=47.56 E-value=16 Score=36.09 Aligned_cols=33 Identities=27% Similarity=0.786 Sum_probs=17.3
Q ss_pred eecCccCcccCChhHHHHHHhhhccCccccCccccc
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQKYKCADCGR 328 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~ 328 (458)
|.|+.|.+.|+....++. .-...-.|.|..|+-
T Consensus 129 Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred ccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 667777666665544332 111223466666653
No 138
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=47.43 E-value=7.6 Score=28.33 Aligned_cols=39 Identities=18% Similarity=0.429 Sum_probs=18.3
Q ss_pred eecCccccccCCchhhhhccchhccCcceecC--cccccccCH
Q psy2838 237 FKCDHCVKSFNQKPNLISHIKSVHEGIKYKCE--ECTKTFAQK 277 (458)
Q Consensus 237 ~~C~~C~~~f~~~~~L~~H~~~~~~~~~~~C~--~C~~~f~~~ 277 (458)
+.|+.|+.......+-..+.. ..+..+.|. .||.+|...
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITY 42 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEE
Confidence 456677655433222222211 233455665 566666543
No 139
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=46.89 E-value=31 Score=28.33 Aligned_cols=12 Identities=25% Similarity=0.797 Sum_probs=6.3
Q ss_pred ccCcCcccCCCH
Q psy2838 350 TCRTCGLFCDSK 361 (458)
Q Consensus 350 ~C~~C~~~f~~~ 361 (458)
+|..||+.|...
T Consensus 3 ~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 3 QCTKCGRVFEDG 14 (131)
T ss_pred ccCcCCCCcCCC
Confidence 455555555543
No 140
>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=46.86 E-value=10 Score=34.13 Aligned_cols=28 Identities=21% Similarity=0.535 Sum_probs=16.0
Q ss_pred eeecCccCcccCChhHHHHHHhhhccCc
Q psy2838 292 KYTCEVCSKSYNQVTNLLSHMTTVHQAQ 319 (458)
Q Consensus 292 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~ 319 (458)
+|.|..|+|.|.-..-.++|+...|.++
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 4666666666666666666666666553
No 141
>KOG2807|consensus
Probab=46.10 E-value=25 Score=33.48 Aligned_cols=32 Identities=16% Similarity=0.150 Sum_probs=25.0
Q ss_pred CCccccCcCcccCCCHHHHHHHHHHhCCCCCcccCCCC
Q psy2838 346 GVRLTCRTCGLFCDSKRALTAHVREAHPGCEYKKRGRG 383 (458)
Q Consensus 346 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~ 383 (458)
...|.|..|...|----+...|-..| .|.+|.
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 34688999999999888888887776 355554
No 142
>KOG1044|consensus
Probab=45.67 E-value=3.9 Score=41.66 Aligned_cols=92 Identities=18% Similarity=0.444 Sum_probs=45.6
Q ss_pred ceecCcccccccCHHHHHHHHHHhhcCceeecCccCcccCChhHHHHH-----HhhhccCccccCccccccCCCHHHHHH
Q psy2838 264 KYKCEECTKTFAQKQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSH-----MTTVHQAQKYKCADCGRLFAQEHTLRT 338 (458)
Q Consensus 264 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H-----~~~h~~~~~~~C~~C~~~f~~~~~L~~ 338 (458)
+-.|.-|+.....-..|..--+.-|. .-|+|..|+....... +..| .+--+..--.+|..|.+.+.-+. |.
T Consensus 133 ps~cagc~~~lk~gq~llald~qwhv-~cfkc~~c~~vL~gey-~skdg~pyce~dy~~~fgvkc~~c~~fisgkv-Lq- 208 (670)
T KOG1044|consen 133 PSTCAGCGEELKNGQALLALDKQWHV-SCFKCKSCSAVLNGEY-MSKDGVPYCEKDYQAKFGVKCEECEKFISGKV-LQ- 208 (670)
T ss_pred Cccccchhhhhhccceeeeeccceee-eeeehhhhccccccee-eccCCCcchhhhhhhhcCeehHHhhhhhhhhh-hh-
Confidence 45677777666555444322111111 1278888877654321 1100 00011112246888876555442 22
Q ss_pred HHhhccCCCcc-----ccCcCcccCCCHHHH
Q psy2838 339 HTLSVHSGVRL-----TCRTCGLFCDSKRAL 364 (458)
Q Consensus 339 H~~~~h~~~~~-----~C~~C~~~f~~~~~L 364 (458)
-+++.| .|..|+..|..-..|
T Consensus 209 -----ag~kh~HPtCARCsRCgqmF~eGEEM 234 (670)
T KOG1044|consen 209 -----AGDKHFHPTCARCSRCGQMFGEGEEM 234 (670)
T ss_pred -----ccCcccCcchhhhhhhccccccchhe
Confidence 222223 488899999876554
No 143
>PF14353 CpXC: CpXC protein
Probab=45.59 E-value=5.7 Score=32.65 Aligned_cols=21 Identities=29% Similarity=0.572 Sum_probs=10.9
Q ss_pred eecCccccccCCchhhhhccc
Q psy2838 237 FKCDHCVKSFNQKPNLISHIK 257 (458)
Q Consensus 237 ~~C~~C~~~f~~~~~L~~H~~ 257 (458)
|.|+.||..|.-...+.-|-.
T Consensus 39 ~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred EECCCCCCceecCCCEEEEcC
Confidence 555555555554444444433
No 144
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=44.63 E-value=4.4 Score=31.96 Aligned_cols=12 Identities=17% Similarity=0.443 Sum_probs=6.2
Q ss_pred eeecCccccccC
Q psy2838 236 RFKCDHCVKSFN 247 (458)
Q Consensus 236 ~~~C~~C~~~f~ 247 (458)
.+.|+.|++.+.
T Consensus 16 ~~~C~~C~~~~~ 27 (104)
T TIGR01384 16 VYVCPSCGYEKE 27 (104)
T ss_pred eEECcCCCCccc
Confidence 355555555443
No 145
>KOG0943|consensus
Probab=44.03 E-value=17 Score=40.67 Aligned_cols=9 Identities=11% Similarity=-0.090 Sum_probs=3.7
Q ss_pred cccchhhhh
Q psy2838 149 LEFNRSQFE 157 (458)
Q Consensus 149 ~~~~c~~c~ 157 (458)
..|.|..|+
T Consensus 1256 DIfECkTCG 1264 (3015)
T KOG0943|consen 1256 DIFECKTCG 1264 (3015)
T ss_pred hhhhhcccc
Confidence 334444433
No 146
>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=43.96 E-value=14 Score=30.47 Aligned_cols=23 Identities=30% Similarity=0.598 Sum_probs=10.2
Q ss_pred eecCccCcccCChhHHHHHHhhhccC
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQA 318 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~ 318 (458)
..|-.||+.|.. |++|++.|||-
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eEEccCCcccch---HHHHHHHccCC
Confidence 555556655554 35555555543
No 147
>KOG1280|consensus
Probab=43.58 E-value=18 Score=34.68 Aligned_cols=36 Identities=28% Similarity=0.548 Sum_probs=23.0
Q ss_pred cccccccccccCCHHHHHHHHHhhcCCCc--cccccCc
Q psy2838 180 KFPCDQCGKSFTLKQNLTYHVNSIHLGVR--IKCDFCD 215 (458)
Q Consensus 180 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~--~~C~~C~ 215 (458)
-|.|++|++.=.+...|..|+...|.+.. ..|++|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 56777777666666777777766665544 4555554
No 148
>KOG1834|consensus
Probab=43.13 E-value=15 Score=38.20 Aligned_cols=8 Identities=38% Similarity=0.891 Sum_probs=3.9
Q ss_pred EeeeeeCC
Q psy2838 103 YTWVKTEP 110 (458)
Q Consensus 103 ~~~~~~e~ 110 (458)
..|||+.|
T Consensus 371 SfwMkHg~ 378 (952)
T KOG1834|consen 371 SFWMKHGP 378 (952)
T ss_pred EEeeecCC
Confidence 34555554
No 149
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=42.73 E-value=15 Score=31.57 Aligned_cols=23 Identities=17% Similarity=0.405 Sum_probs=14.1
Q ss_pred eeecCccccccCCchhhhhccchhccCcceecCccc
Q psy2838 236 RFKCDHCVKSFNQKPNLISHIKSVHEGIKYKCEECT 271 (458)
Q Consensus 236 ~~~C~~C~~~f~~~~~L~~H~~~~~~~~~~~C~~C~ 271 (458)
.|.|++||..+ -++-|-+|++|+
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 57777776543 234566777776
No 150
>KOG4377|consensus
Probab=42.71 E-value=14 Score=36.08 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=18.1
Q ss_pred cCcccCCCHHHHHHHHHHhCC
Q psy2838 353 TCGLFCDSKRALTAHVREAHP 373 (458)
Q Consensus 353 ~C~~~f~~~~~L~~H~~~~h~ 373 (458)
-|+..+.+.+.+..|.|+|-.
T Consensus 408 Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 408 GCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred CCceEEEehhhhhhhhhhhhh
Confidence 489999999999999988853
No 151
>KOG1189|consensus
Probab=42.40 E-value=18 Score=38.33 Aligned_cols=10 Identities=20% Similarity=-0.187 Sum_probs=5.0
Q ss_pred eeeecchhHH
Q psy2838 44 NYYQLSSDEK 53 (458)
Q Consensus 44 ~~~~~~~~~~ 53 (458)
.+.||++.|-
T Consensus 381 ~~~dv~~~f~ 390 (960)
T KOG1189|consen 381 AVKDVSYFFK 390 (960)
T ss_pred hhcccceeec
Confidence 4455555554
No 152
>PF03344 Daxx: Daxx Family; InterPro: IPR005012 Daxx is a ubiquitously expressed protein that functions, in part, as a transcriptional co-repressor through its interaction with a growing number of nuclear, DNA-associated proteins. Human Daxx contains four structural domains commonly found in transcriptional regulatory proteins: two predicted paired amphipathic helices, an acid-rich domain and a Ser/Pro/Thr (SPT)-rich domain. The post-translational modification status of the SPT-domain of hDaxx regulates its association with transcription factors such as Pax3 and ETS-1, effectively bringing hDaxx to sites of active transcription. Through its presence at the site of active transcription, hDaxx could then be able to associate with acetylated histones present in the nucleosomes and Dek that is associated with chromatin. Through its association with the SPT-domain of hDaxx, histone deacetylases may also be brought to the site of active transcription. As a consequence, nucleosomes in the vicinity of the site of active transcription will have the histone tails deacetylated, allowing the deactylated tail to bind to DNA, thereby leading to an inactive chromatin structure and transcriptional repression []. The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis as a component of nuclear promyelocytic leukemia protein (PML) oncogenic domains (PODS). Daxx associates with PODs through a direct interaction with PML, a critical component of PODs. The interaction is a dynamic, cell cycle regulated event and is dependent on the post-translational modification of PML by the small ubiquitin-related modifier SUMO-1. ; PDB: 2KZS_A 2KZU_A.
Probab=41.91 E-value=8.5 Score=41.34 Aligned_cols=9 Identities=11% Similarity=-0.034 Sum_probs=3.6
Q ss_pred CcCCCCCCC
Q psy2838 63 SFTPGYGGF 71 (458)
Q Consensus 63 ~~~~~y~~~ 71 (458)
.+.....++
T Consensus 81 ~~~~d~~ev 89 (713)
T PF03344_consen 81 AQTSDMPEV 89 (713)
T ss_dssp HHTTT-TTH
T ss_pred ccccCCHHH
Confidence 344444444
No 153
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=41.54 E-value=16 Score=35.04 Aligned_cols=47 Identities=15% Similarity=0.528 Sum_probs=0.0
Q ss_pred eecCccCcccCChhHHHHHHhhhccCcc----------------------------------------------------
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQAQK---------------------------------------------------- 320 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~---------------------------------------------------- 320 (458)
+-|..|++.|....-+..|.......+.
T Consensus 239 ~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~~v~~Ey~l~r~~kyl~d~~s~trs~V~r~la~ta~ER~aei~~l~r 318 (470)
T COG5188 239 VYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEEFVYSEYVLHRYLKYLGDPVSETRSLVLRSLAITAKERKAEISLLSR 318 (470)
T ss_pred eeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHhCChhHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q ss_pred --------------------------------------------------------ccCcccc-ccCCCHHHHHHH
Q psy2838 321 --------------------------------------------------------YKCADCG-RLFAQEHTLRTH 339 (458)
Q Consensus 321 --------------------------------------------------------~~C~~C~-~~f~~~~~L~~H 339 (458)
|.|.+|| +++.-+..+.+|
T Consensus 319 ~~~~~at~S~e~EGaeq~d~eQ~DE~~~~k~fdmPLG~DG~PmP~WL~klhgLd~ef~CEICgNyvy~GR~~FdrH 394 (470)
T COG5188 319 RKKQPATKSSEKEGAEQVDGEQRDEHVSGKSFDMPLGPDGLPMPRWLCKLHGLDIEFECEICGNYVYYGRDRFDRH 394 (470)
T ss_pred HhhccCCCchhhcccccccccccchhhccCcccCCCCCCCCCCchHHHHhcCCCcceeeeecccccccchHHHHhh
No 154
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=41.10 E-value=15 Score=30.12 Aligned_cols=23 Identities=26% Similarity=0.267 Sum_probs=14.5
Q ss_pred cccccCccccCChHHHHHHHHHhcCC
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNG 234 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~ 234 (458)
..|-++|+.|. +|++|+.+|++-
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 35666666664 567777776653
No 155
>KOG4167|consensus
Probab=40.07 E-value=7.1 Score=41.01 Aligned_cols=25 Identities=28% Similarity=0.487 Sum_probs=21.4
Q ss_pred cccccCccccCChHHHHHHHHHhcC
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHN 233 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~ 233 (458)
|.|.+|++.|....++..||++|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 8899999999888888899888863
No 156
>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=39.88 E-value=47 Score=21.65 Aligned_cols=9 Identities=33% Similarity=1.209 Sum_probs=4.3
Q ss_pred cceecCccc
Q psy2838 263 IKYKCEECT 271 (458)
Q Consensus 263 ~~~~C~~C~ 271 (458)
..|+|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 345555544
No 157
>KOG3214|consensus
Probab=39.64 E-value=11 Score=28.97 Aligned_cols=40 Identities=20% Similarity=0.344 Sum_probs=21.1
Q ss_pred ccccCccccccCCCHHHHHHHHhhccCCCccccCcCcccCCCHH
Q psy2838 319 QKYKCADCGRLFAQEHTLRTHTLSVHSGVRLTCRTCGLFCDSKR 362 (458)
Q Consensus 319 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~ 362 (458)
..|.|+.|+---.-...| .+.|......|.+|+..|.+.-
T Consensus 22 t~FnClfcnHek~v~~~~----Dk~~~iG~~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 22 TQFNCLFCNHEKSVSCTL----DKKHNIGKASCRICEESFQTTI 61 (109)
T ss_pred eeeccCccccccceeeee----hhhcCcceeeeeehhhhhccch
Confidence 347777776322111111 1223333456999999887653
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=38.75 E-value=28 Score=39.55 Aligned_cols=25 Identities=32% Similarity=0.505 Sum_probs=13.8
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCccceeeee
Q psy2838 67 GYGGFLPNTPPLGHHYLSPSGLPGKAEYLEIH 98 (458)
Q Consensus 67 ~y~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~ 98 (458)
.|++|+.+-.+|+ |. .+.+.||.+.
T Consensus 428 ~yGdFlENNh~L~-----P~--~y~~EWw~~e 452 (1337)
T PRK14714 428 NYGEFVENNHPLL-----PA--SYCEEWWIQE 452 (1337)
T ss_pred ccchhhhcCCcCC-----Cc--cchHHHHHHH
Confidence 4666666555554 22 1566777663
No 159
>KOG4377|consensus
Probab=37.53 E-value=19 Score=35.23 Aligned_cols=24 Identities=13% Similarity=0.402 Sum_probs=17.7
Q ss_pred ccC--ccccccCCCHHHHHHHHhhcc
Q psy2838 321 YKC--ADCGRLFAQEHTLRTHTLSVH 344 (458)
Q Consensus 321 ~~C--~~C~~~f~~~~~L~~H~~~~h 344 (458)
|.| .-|+..+.+.+.+..|.++|-
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhh
Confidence 556 358888888888888866554
No 160
>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=37.37 E-value=14 Score=21.92 Aligned_cols=8 Identities=50% Similarity=1.265 Sum_probs=3.7
Q ss_pred ccccCcCc
Q psy2838 348 RLTCRTCG 355 (458)
Q Consensus 348 ~~~C~~C~ 355 (458)
.+.|+.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 34444444
No 161
>KOG4167|consensus
Probab=37.30 E-value=9.6 Score=40.10 Aligned_cols=27 Identities=30% Similarity=0.623 Sum_probs=23.8
Q ss_pred CcccccccccccCCHHHHHHHHHhhcC
Q psy2838 179 KKFPCDQCGKSFTLKQNLTYHVNSIHL 205 (458)
Q Consensus 179 k~~~C~~C~~~f~~~~~L~~H~~~~h~ 205 (458)
.-|.|..|++.|.....+..||++|..
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 459999999999999999999997653
No 162
>KOG1924|consensus
Probab=36.80 E-value=33 Score=36.72 Aligned_cols=6 Identities=50% Similarity=1.082 Sum_probs=2.9
Q ss_pred eeeeeC
Q psy2838 104 TWVKTE 109 (458)
Q Consensus 104 ~~~~~e 109 (458)
=|++..
T Consensus 644 FWvkv~ 649 (1102)
T KOG1924|consen 644 FWVKVN 649 (1102)
T ss_pred eeeecc
Confidence 355544
No 163
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=36.68 E-value=49 Score=32.09 Aligned_cols=13 Identities=38% Similarity=0.603 Sum_probs=7.3
Q ss_pred HHHHHHHHHhCCC
Q psy2838 362 RALTAHVREAHPG 374 (458)
Q Consensus 362 ~~L~~H~~~~h~~ 374 (458)
..|..-.|...|.
T Consensus 25 rsli~l~Rev~P~ 37 (324)
T PF05285_consen 25 RSLINLFREVNPE 37 (324)
T ss_pred HHHHHHHHHHCHH
Confidence 3455556666554
No 164
>KOG0262|consensus
Probab=36.09 E-value=31 Score=38.88 Aligned_cols=22 Identities=23% Similarity=0.167 Sum_probs=13.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC
Q psy2838 16 TSRRDSFPPPHPLGQNGFDPTG 37 (458)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~ 37 (458)
+.+|--.+||+-+.|.-.+-|-
T Consensus 676 ~~~rI~~lpPtIlkP~~LWTGK 697 (1640)
T KOG0262|consen 676 TFKRIKLLPPTILKPAPLWTGK 697 (1640)
T ss_pred hccceeccCccccccccccccc
Confidence 5566677777777775444433
No 165
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.96 E-value=19 Score=28.27 Aligned_cols=11 Identities=9% Similarity=-0.000 Sum_probs=6.4
Q ss_pred ccccCcCcccC
Q psy2838 348 RLTCRTCGLFC 358 (458)
Q Consensus 348 ~~~C~~C~~~f 358 (458)
+..|++||++|
T Consensus 26 PiVsPytG~s~ 36 (129)
T COG4530 26 PIVSPYTGKSY 36 (129)
T ss_pred ccccCcccccc
Confidence 45566666665
No 166
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=35.85 E-value=11 Score=34.19 Aligned_cols=6 Identities=33% Similarity=0.512 Sum_probs=2.3
Q ss_pred HHHHHH
Q psy2838 278 QNLLSH 283 (458)
Q Consensus 278 ~~L~~H 283 (458)
..|..-
T Consensus 108 ~DLl~l 113 (218)
T PF14283_consen 108 ADLLAL 113 (218)
T ss_pred HHHHHH
Confidence 344433
No 167
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.80 E-value=22 Score=38.36 Aligned_cols=14 Identities=36% Similarity=0.714 Sum_probs=8.9
Q ss_pred ccCcceecCccccc
Q psy2838 260 HEGIKYKCEECTKT 273 (458)
Q Consensus 260 ~~~~~~~C~~C~~~ 273 (458)
+...|..|+.||..
T Consensus 471 ~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 471 QEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCC
Confidence 34467777777743
No 168
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.02 E-value=10 Score=40.82 Aligned_cols=46 Identities=22% Similarity=0.574 Sum_probs=26.0
Q ss_pred ccccccccccCCH---HHHHHHHHhhcCCCccccccCccccCChHHHHHHHHHhcCCceeecCccccc
Q psy2838 181 FPCDQCGKSFTLK---QNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKS 245 (458)
Q Consensus 181 ~~C~~C~~~f~~~---~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 245 (458)
..|..||..+... ..|..|+. .....|.+||.. ...|..|+.|+..
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~----~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKA----TGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred eecccCCCcccCCCCCcceEEecC----CCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 3466666555332 12333432 244667777653 3468899999865
No 169
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=34.99 E-value=28 Score=32.22 Aligned_cols=6 Identities=33% Similarity=0.451 Sum_probs=2.3
Q ss_pred HHHHHH
Q psy2838 363 ALTAHV 368 (458)
Q Consensus 363 ~L~~H~ 368 (458)
.|+..+
T Consensus 58 dlr~eL 63 (244)
T PF04889_consen 58 DLRAEL 63 (244)
T ss_pred HHHHHH
Confidence 343333
No 170
>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=34.75 E-value=16 Score=24.67 Aligned_cols=20 Identities=20% Similarity=0.589 Sum_probs=6.6
Q ss_pred eecCccCcccCChhHHHHHH
Q psy2838 293 YTCEVCSKSYNQVTNLLSHM 312 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~ 312 (458)
|.|+.|...|--.-.+-.|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE 41 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHE 41 (51)
T ss_dssp E--TTTT--B-HHHHHTTTT
T ss_pred EECCCCCCccccCcChhhhc
Confidence 55555555444444433333
No 171
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=32.70 E-value=15 Score=38.96 Aligned_cols=11 Identities=36% Similarity=1.138 Sum_probs=5.9
Q ss_pred cccccccccCC
Q psy2838 182 PCDQCGKSFTL 192 (458)
Q Consensus 182 ~C~~C~~~f~~ 192 (458)
.|..|++.|..
T Consensus 462 tC~~C~kkFfS 472 (1374)
T PTZ00303 462 SCPSCGRAFIS 472 (1374)
T ss_pred cccCcCCcccc
Confidence 35555555543
No 172
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=32.63 E-value=20 Score=22.76 Aligned_cols=11 Identities=27% Similarity=0.902 Sum_probs=6.1
Q ss_pred ceecCcccccc
Q psy2838 264 KYKCEECTKTF 274 (458)
Q Consensus 264 ~~~C~~C~~~f 274 (458)
-|.|..|+..+
T Consensus 28 fy~C~~C~~~w 38 (40)
T smart00440 28 FYVCTKCGHRW 38 (40)
T ss_pred EEEeCCCCCEe
Confidence 45666665544
No 173
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=32.44 E-value=36 Score=38.66 Aligned_cols=11 Identities=18% Similarity=0.628 Sum_probs=7.2
Q ss_pred eeecCcccccc
Q psy2838 236 RFKCDHCVKSF 246 (458)
Q Consensus 236 ~~~C~~C~~~f 246 (458)
.|.|+.|+...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 46777777654
No 174
>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=31.37 E-value=23 Score=21.96 Aligned_cols=9 Identities=22% Similarity=0.870 Sum_probs=4.2
Q ss_pred ecCcccccc
Q psy2838 238 KCDHCVKSF 246 (458)
Q Consensus 238 ~C~~C~~~f 246 (458)
.|+.|+..|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 344444444
No 175
>KOG3540|consensus
Probab=31.21 E-value=31 Score=34.60 Aligned_cols=9 Identities=33% Similarity=0.682 Sum_probs=4.1
Q ss_pred ccCcceecC
Q psy2838 260 HEGIKYKCE 268 (458)
Q Consensus 260 ~~~~~~~C~ 268 (458)
|..+||.|.
T Consensus 112 h~Vrp~~Cl 120 (615)
T KOG3540|consen 112 HPVRPYRCL 120 (615)
T ss_pred cccccceee
Confidence 334455553
No 176
>KOG2593|consensus
Probab=31.06 E-value=58 Score=32.40 Aligned_cols=34 Identities=21% Similarity=0.478 Sum_probs=17.1
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccc
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKS 245 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 245 (458)
|.|+.|.+.|.....+. ..-.....|.|..|+-.
T Consensus 129 Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred ccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 66666666665443332 12222234666666543
No 177
>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=30.78 E-value=13 Score=23.42 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=7.5
Q ss_pred cceecCcccccc
Q psy2838 263 IKYKCEECTKTF 274 (458)
Q Consensus 263 ~~~~C~~C~~~f 274 (458)
.-|.|..|+..|
T Consensus 27 ~fy~C~~C~~~w 38 (39)
T PF01096_consen 27 LFYVCCNCGHRW 38 (39)
T ss_dssp EEEEESSSTEEE
T ss_pred EEEEeCCCCCee
Confidence 346777777654
No 178
>smart00349 KRAB krueppel associated box.
Probab=30.58 E-value=6 Score=24.98 Aligned_cols=29 Identities=7% Similarity=0.009 Sum_probs=24.6
Q ss_pred ceeeecchhHHHHHHHhcCCCcCCCCCCC
Q psy2838 43 YNYYQLSSDEKFEILKSISASFTPGYGGF 71 (458)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~y~~~ 71 (458)
+.|.++++.+..++|.++.+.++.++.+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (61)
T smart00349 1 VTFEDVAVYFSQEEWEQLDPAQRNLYRDV 29 (61)
T ss_pred CeeecceeecCHHHHhccCHHHHHHHHHH
Confidence 36789999999999999999888877665
No 179
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=30.50 E-value=27 Score=26.45 Aligned_cols=12 Identities=25% Similarity=0.711 Sum_probs=7.2
Q ss_pred cccccCccccCC
Q psy2838 209 IKCDFCDKTFAH 220 (458)
Q Consensus 209 ~~C~~C~~~f~~ 220 (458)
-.|..||+.|..
T Consensus 59 a~CkkCGfef~~ 70 (97)
T COG3357 59 ARCKKCGFEFRD 70 (97)
T ss_pred hhhcccCccccc
Confidence 456666666654
No 180
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=30.50 E-value=18 Score=24.25 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=6.1
Q ss_pred ccccCcCcccC
Q psy2838 348 RLTCRTCGLFC 358 (458)
Q Consensus 348 ~~~C~~C~~~f 358 (458)
++.|..|++.+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 45566665543
No 181
>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=30.29 E-value=22 Score=19.84 Aligned_cols=8 Identities=38% Similarity=1.497 Sum_probs=4.5
Q ss_pred cccCcccc
Q psy2838 320 KYKCADCG 327 (458)
Q Consensus 320 ~~~C~~C~ 327 (458)
.|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555555
No 182
>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=29.98 E-value=38 Score=21.23 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=4.9
Q ss_pred ccccCcCcccCC
Q psy2838 348 RLTCRTCGLFCD 359 (458)
Q Consensus 348 ~~~C~~C~~~f~ 359 (458)
+|.|.+|...|.
T Consensus 3 ryyCdyC~~~~~ 14 (38)
T PF06220_consen 3 RYYCDYCKKYLT 14 (38)
T ss_dssp S-B-TTT--B-S
T ss_pred Ceecccccceec
Confidence 567888888773
No 183
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=29.85 E-value=30 Score=23.05 Aligned_cols=10 Identities=40% Similarity=1.036 Sum_probs=5.3
Q ss_pred ccccCcCccc
Q psy2838 348 RLTCRTCGLF 357 (458)
Q Consensus 348 ~~~C~~C~~~ 357 (458)
++.|..|+++
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 4555555543
No 184
>smart00735 ZM ZASP-like motif. Short motif (26 amino acids) present in an alpha-actinin-binding protein, ZASP, and similar molecules.
Probab=29.54 E-value=27 Score=19.82 Aligned_cols=22 Identities=23% Similarity=0.330 Sum_probs=16.8
Q ss_pred cccccCCCCCCCCCCCCCCCCC
Q psy2838 2 VTYSYNTPSPAPSTTSRRDSFP 23 (458)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~ 23 (458)
|+-.||+|..-.|..+..++++
T Consensus 3 v~~qyn~P~glys~~n~~~~l~ 24 (26)
T smart00735 3 VHKQYNSPIGLYSSENIAETLQ 24 (26)
T ss_pred cccccCCCCCCCCcccHHHhhc
Confidence 4568999998888877776654
No 185
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.46 E-value=10 Score=40.01 Aligned_cols=81 Identities=20% Similarity=0.340 Sum_probs=49.2
Q ss_pred cchhhhhhhhcCCccccccccCCCCCCCCcccccccccccCCHHHHHHHHHhhcCCCccccccCccccCChHHHHHHHHH
Q psy2838 151 FNRSQFEKTFQNYSMTTTGHRGGKGPPVKKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNS 230 (458)
Q Consensus 151 ~~c~~c~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~ 230 (458)
-.|..|-..+.+.+.-..+. .-..|..||-.|+-...|-.-........--.|+.|.+.|.+..+-+-|.
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~Y--------PF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA-- 171 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYLY--------PFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHA-- 171 (750)
T ss_pred hhhHHHHHHhcCCCCcceec--------cccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccccccc--
Confidence 35888888777666544432 12359999998876655533222111112246899988887776644443
Q ss_pred hcCCceeecCccccc
Q psy2838 231 AHNGVRFKCDHCVKS 245 (458)
Q Consensus 231 h~~~~~~~C~~C~~~ 245 (458)
.+..|+.||-.
T Consensus 172 ----Qp~aCp~CGP~ 182 (750)
T COG0068 172 ----QPIACPKCGPH 182 (750)
T ss_pred ----ccccCcccCCC
Confidence 46789999853
No 186
>KOG3555|consensus
Probab=29.21 E-value=45 Score=32.08 Aligned_cols=25 Identities=16% Similarity=0.336 Sum_probs=10.4
Q ss_pred ccccCChHHHHHHHHHhcCCceeec
Q psy2838 215 DKTFAHKPNLIAHMNSAHNGVRFKC 239 (458)
Q Consensus 215 ~~~f~~~~~L~~H~~~h~~~~~~~C 239 (458)
|.+|.....|..|.-.+.....+.|
T Consensus 155 ghtYss~ckLe~~aC~~sksiav~c 179 (434)
T KOG3555|consen 155 GHTYSSRCKLEYHACHVSKSIAVIC 179 (434)
T ss_pred CCeehhhhhHHHHhhhhhhhhhhhh
Confidence 3344444444444443333333333
No 187
>KOG0717|consensus
Probab=28.98 E-value=32 Score=34.49 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=14.2
Q ss_pred cccCcCcccCCCHHHHHHHHHH
Q psy2838 349 LTCRTCGLFCDSKRALTAHVRE 370 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~H~~~ 370 (458)
++|.+|++.|.+...|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 5666666666666666666543
No 188
>KOG2907|consensus
Probab=28.90 E-value=32 Score=27.24 Aligned_cols=8 Identities=25% Similarity=0.949 Sum_probs=4.7
Q ss_pred cccccccc
Q psy2838 183 CDQCGKSF 190 (458)
Q Consensus 183 C~~C~~~f 190 (458)
|..|...|
T Consensus 28 C~~Ck~~~ 35 (116)
T KOG2907|consen 28 CIRCKIEY 35 (116)
T ss_pred eccccccC
Confidence 66665554
No 189
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=28.45 E-value=42 Score=35.02 Aligned_cols=30 Identities=13% Similarity=-0.045 Sum_probs=18.5
Q ss_pred ccceeeecchhHHHHHHHhcCCCcCCCCCC
Q psy2838 41 SEYNYYQLSSDEKFEILKSISASFTPGYGG 70 (458)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~ 70 (458)
....++.|+--.-.+-+..+++++..+...
T Consensus 475 r~EhQK~L~~k~~~egL~rf~~a~~~gpds 504 (1001)
T COG5406 475 RVEHQKELLDKIIEEGLERFRNASDAGPDS 504 (1001)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccCCcc
Confidence 334455566666666666666677666655
No 190
>KOG0782|consensus
Probab=28.38 E-value=21 Score=36.53 Aligned_cols=27 Identities=19% Similarity=0.386 Sum_probs=11.7
Q ss_pred HHHHHHHHhhcCceeecCccCcccCCh
Q psy2838 279 NLLSHVQAIHMGIKYTCEVCSKSYNQV 305 (458)
Q Consensus 279 ~L~~H~~~~h~~~~~~C~~C~~~f~~~ 305 (458)
.+.+|-..|.....-+|..|+|.|.++
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQK 266 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQK 266 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhh
Confidence 344443333222234555555555443
No 191
>KOG3214|consensus
Probab=28.26 E-value=26 Score=27.03 Aligned_cols=7 Identities=29% Similarity=1.023 Sum_probs=3.3
Q ss_pred cccCcCc
Q psy2838 349 LTCRTCG 355 (458)
Q Consensus 349 ~~C~~C~ 355 (458)
|.|++|+
T Consensus 24 FnClfcn 30 (109)
T KOG3214|consen 24 FNCLFCN 30 (109)
T ss_pred eccCccc
Confidence 4455554
No 192
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=28.09 E-value=26 Score=29.48 Aligned_cols=8 Identities=38% Similarity=1.103 Sum_probs=3.5
Q ss_pred ccccCcCc
Q psy2838 348 RLTCRTCG 355 (458)
Q Consensus 348 ~~~C~~C~ 355 (458)
.|.|..|+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 34444443
No 193
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.27 E-value=36 Score=28.32 Aligned_cols=10 Identities=30% Similarity=1.012 Sum_probs=4.2
Q ss_pred eecCcccccc
Q psy2838 237 FKCDHCVKSF 246 (458)
Q Consensus 237 ~~C~~C~~~f 246 (458)
+.|..|+..|
T Consensus 71 ~~C~~CG~~~ 80 (135)
T PRK03824 71 LKCRNCGNEW 80 (135)
T ss_pred EECCCCCCEE
Confidence 3444444333
No 194
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=27.00 E-value=65 Score=20.54 Aligned_cols=10 Identities=30% Similarity=1.069 Sum_probs=5.2
Q ss_pred cccccccccC
Q psy2838 182 PCDQCGKSFT 191 (458)
Q Consensus 182 ~C~~C~~~f~ 191 (458)
+|+.||..|.
T Consensus 15 ~C~~CgM~Y~ 24 (41)
T PF13878_consen 15 TCPTCGMLYS 24 (41)
T ss_pred CCCCCCCEEC
Confidence 4555555443
No 195
>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=26.42 E-value=21 Score=25.94 Aligned_cols=11 Identities=27% Similarity=0.670 Sum_probs=4.3
Q ss_pred eeecCcccccc
Q psy2838 236 RFKCDHCVKSF 246 (458)
Q Consensus 236 ~~~C~~C~~~f 246 (458)
...|..|...+
T Consensus 41 ~v~Cg~C~~~~ 51 (71)
T PF05495_consen 41 RVICGKCRTEQ 51 (71)
T ss_dssp EEEETTT--EE
T ss_pred CeECCCCCCcc
Confidence 44455554443
No 196
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=26.12 E-value=65 Score=22.12 Aligned_cols=18 Identities=28% Similarity=0.422 Sum_probs=12.6
Q ss_pred cccCcCcccCCCHHHHHH
Q psy2838 349 LTCRTCGLFCDSKRALTA 366 (458)
Q Consensus 349 ~~C~~C~~~f~~~~~L~~ 366 (458)
++|-.||..|.+...|..
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLER 45 (55)
T ss_pred ceeeeeCCccCCHHHHHh
Confidence 467777777777776654
No 197
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=25.78 E-value=43 Score=27.52 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=11.1
Q ss_pred eecCccCcccCChhHHHHHHhhhcc
Q psy2838 293 YTCEVCSKSYNQVTNLLSHMTTVHQ 317 (458)
Q Consensus 293 ~~C~~C~~~f~~~~~L~~H~~~h~~ 317 (458)
..|-.+|+.|. +|++|+.+|++
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccC
Confidence 44555555554 34555555544
No 198
>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=25.35 E-value=25 Score=24.09 Aligned_cols=7 Identities=43% Similarity=1.061 Sum_probs=3.0
Q ss_pred ecCcccc
Q psy2838 238 KCDHCVK 244 (458)
Q Consensus 238 ~C~~C~~ 244 (458)
.|+.|+.
T Consensus 24 ~Cp~CGa 30 (54)
T TIGR01206 24 ICDECGA 30 (54)
T ss_pred eCCCCCC
Confidence 4444443
No 199
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.25 E-value=39 Score=32.38 Aligned_cols=49 Identities=20% Similarity=0.572 Sum_probs=24.0
Q ss_pred CcccccccccccCCHHHHHHHHHhhcCCCccccccCccccCChHHHHHHHHHhcCCceeecCcccc
Q psy2838 179 KKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVK 244 (458)
Q Consensus 179 k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~ 244 (458)
..-.|++||..=. .+.+ +.....+.+-..|..|+..... ...+|+.|+.
T Consensus 186 ~~~~CPvCGs~P~-~s~v--~~~~~~G~RyL~CslC~teW~~--------------~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPV-SSVV--QIGTTQGLRYLHCNLCESEWHV--------------VRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcch-hhee--eccCCCCceEEEcCCCCCcccc--------------cCccCCCCCC
Confidence 3456788875421 1111 2221223333677777755421 2356777774
No 200
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=25.24 E-value=29 Score=27.09 Aligned_cols=24 Identities=21% Similarity=0.473 Sum_probs=20.3
Q ss_pred ccccCcCcccCCCHHHHHHHHHHh
Q psy2838 348 RLTCRTCGLFCDSKRALTAHVREA 371 (458)
Q Consensus 348 ~~~C~~C~~~f~~~~~L~~H~~~~ 371 (458)
.++|-.|.+.|.+...|..|.+..
T Consensus 55 qhYCieCaryf~t~~aL~~Hkkgk 78 (126)
T COG5112 55 QHYCIECARYFITEKALMEHKKGK 78 (126)
T ss_pred eeeeehhHHHHHHHHHHHHHhccc
Confidence 478999999999999999998643
No 201
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=24.87 E-value=41 Score=21.32 Aligned_cols=12 Identities=25% Similarity=0.567 Sum_probs=4.8
Q ss_pred cCcCcccCCCHH
Q psy2838 351 CRTCGLFCDSKR 362 (458)
Q Consensus 351 C~~C~~~f~~~~ 362 (458)
|+.|+-.+-...
T Consensus 22 C~~C~G~W~d~~ 33 (41)
T PF13453_consen 22 CPSCGGIWFDAG 33 (41)
T ss_pred CCCCCeEEccHH
Confidence 444444333333
No 202
>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=24.82 E-value=38 Score=19.69 Aligned_cols=9 Identities=44% Similarity=1.088 Sum_probs=4.0
Q ss_pred ecCcccccc
Q psy2838 238 KCDHCVKSF 246 (458)
Q Consensus 238 ~C~~C~~~f 246 (458)
.|-.|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 344444444
No 203
>COG2879 Uncharacterized small protein [Function unknown]
Probab=24.74 E-value=69 Score=22.53 Aligned_cols=18 Identities=22% Similarity=0.338 Sum_probs=15.0
Q ss_pred CHHHHHHHHHHhCCCCCc
Q psy2838 360 SKRALTAHVREAHPGCEY 377 (458)
Q Consensus 360 ~~~~L~~H~~~~h~~~~~ 377 (458)
+-.+...|||.+|+++|.
T Consensus 24 dYdnYVehmr~~hPd~p~ 41 (65)
T COG2879 24 DYDNYVEHMRKKHPDKPP 41 (65)
T ss_pred cHHHHHHHHHHhCcCCCc
Confidence 457889999999998764
No 204
>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=24.40 E-value=52 Score=33.41 Aligned_cols=26 Identities=19% Similarity=0.484 Sum_probs=23.0
Q ss_pred ccCcCcccCCCHHHHHHHHHHhCCCC
Q psy2838 350 TCRTCGLFCDSKRALTAHVREAHPGC 375 (458)
Q Consensus 350 ~C~~C~~~f~~~~~L~~H~~~~h~~~ 375 (458)
.|+.|.+.|.....+..|+...|.+.
T Consensus 59 iCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 59 ICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eCCcccceeCCHHHHHHHHHHhhhhh
Confidence 49999999999999999999888763
No 205
>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=23.71 E-value=78 Score=26.84 Aligned_cols=10 Identities=20% Similarity=0.647 Sum_probs=2.5
Q ss_pred ceeecCcccc
Q psy2838 235 VRFKCDHCVK 244 (458)
Q Consensus 235 ~~~~C~~C~~ 244 (458)
..+.|-.||.
T Consensus 59 t~leCy~Cg~ 68 (152)
T PF09416_consen 59 TVLECYNCGS 68 (152)
T ss_dssp -B---TTT--
T ss_pred cEEEEEecCC
Confidence 3466766663
No 206
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=23.03 E-value=47 Score=22.59 Aligned_cols=10 Identities=20% Similarity=1.009 Sum_probs=4.1
Q ss_pred eecCccCccc
Q psy2838 293 YTCEVCSKSY 302 (458)
Q Consensus 293 ~~C~~C~~~f 302 (458)
++|..|+..|
T Consensus 29 W~C~~Cgh~w 38 (55)
T PF14311_consen 29 WKCPKCGHEW 38 (55)
T ss_pred EECCCCCCee
Confidence 3444444333
No 207
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=22.58 E-value=88 Score=29.60 Aligned_cols=91 Identities=15% Similarity=0.340 Sum_probs=53.8
Q ss_pred cccccCccccCChHHHHHHHHHhcCCceeecCccccccCCchhhhhccchhccC------------cceecCcccccccC
Q psy2838 209 IKCDFCDKTFAHKPNLIAHMNSAHNGVRFKCDHCVKSFNQKPNLISHIKSVHEG------------IKYKCEECTKTFAQ 276 (458)
Q Consensus 209 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~~~~------------~~~~C~~C~~~f~~ 276 (458)
|.|+.|....- ..|..|+.|........+|.+-..-.-.- +.-.|-.|.-.|..
T Consensus 309 y~CP~CktkVC--------------sLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~ 374 (421)
T COG5151 309 YECPVCKTKVC--------------SLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPK 374 (421)
T ss_pred eeCCcccceee--------------cCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCC
Confidence 77888864322 24677888887766666665433200011 22347777777765
Q ss_pred HHHHHHHHHHhhcCceeecCccCcccCChhHHHHHHhhh
Q psy2838 277 KQNLLSHVQAIHMGIKYTCEVCSKSYNQVTNLLSHMTTV 315 (458)
Q Consensus 277 ~~~L~~H~~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~h 315 (458)
...-..- ......+|+|+.|...|-.......|...|
T Consensus 375 ~~~~~~~--~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 375 PPVSPFD--ESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred CCCCccc--ccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 4321111 112233599999999998888888887765
No 208
>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=22.41 E-value=54 Score=33.32 Aligned_cols=25 Identities=20% Similarity=0.561 Sum_probs=18.7
Q ss_pred ccCccccccCCCHHHHHHHHhhccC
Q psy2838 321 YKCADCGRLFAQEHTLRTHTLSVHS 345 (458)
Q Consensus 321 ~~C~~C~~~f~~~~~L~~H~~~~h~ 345 (458)
+.|+.|.+.|.....+..|+...|.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhh
Confidence 5677888888888888888776663
No 209
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=22.37 E-value=49 Score=25.70 Aligned_cols=14 Identities=29% Similarity=0.769 Sum_probs=7.5
Q ss_pred cccccccccccCCH
Q psy2838 180 KFPCDQCGKSFTLK 193 (458)
Q Consensus 180 ~~~C~~C~~~f~~~ 193 (458)
+++|..||..|.+-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 34555566655543
No 210
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=22.29 E-value=78 Score=29.01 Aligned_cols=14 Identities=21% Similarity=0.859 Sum_probs=7.9
Q ss_pred cceecCcccccccC
Q psy2838 263 IKYKCEECTKTFAQ 276 (458)
Q Consensus 263 ~~~~C~~C~~~f~~ 276 (458)
--|.|+.|+..|..
T Consensus 154 aef~C~~C~h~F~G 167 (278)
T PF15135_consen 154 AEFHCPKCRHNFRG 167 (278)
T ss_pred eeeecccccccchh
Confidence 34666666666653
No 211
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=22.27 E-value=29 Score=37.69 Aligned_cols=54 Identities=13% Similarity=-0.082 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCcccccceeeecchhHHHHHHHhcCCCcCCCCCCC
Q psy2838 12 APSTTSRRDSFPPPHPLGQNGFDPTGQVKSEYNYYQLSSDEKFEILKSISASFTPGYGGF 71 (458)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~ 71 (458)
|-+-|--|-|.=+-+. |+ ...|..+++..=.||.|. +.-.=+|.+.+-.+.|+.
T Consensus 152 aV~Gtv~r~sln~~~~--p~--~tsws~lgARkH~dv~~G--~~~~~~l~~r~l~GPr~g 205 (787)
T PF03115_consen 152 AVSGTVVRVSLNLTGT--PS--STSWSGLGARKHVDVPVG--RPAVFKLTARDLAGPREG 205 (787)
T ss_dssp ------------------------------------------------------------
T ss_pred ccCceEEEEEecCCCC--CC--CCCccccCceeEEEEcCC--CceEEEECHHHcCCCcCc
Confidence 3344444555544333 22 234556666655555543 222224455555555554
No 212
>KOG4124|consensus
Probab=21.40 E-value=25 Score=33.69 Aligned_cols=21 Identities=10% Similarity=-0.102 Sum_probs=14.2
Q ss_pred CCcccccccccccCCHHHHHHH
Q psy2838 178 VKKFPCDQCGKSFTLKQNLTYH 199 (458)
Q Consensus 178 ~k~~~C~~C~~~f~~~~~L~~H 199 (458)
.++|+|. |++.+.++..|+.|
T Consensus 211 ~~p~k~~-~~~~~~T~~~l~~H 231 (442)
T KOG4124|consen 211 GTPKKMP-ESLVMDTSSPLSDH 231 (442)
T ss_pred cCCccCc-ccccccccchhhhc
Confidence 4567775 77777777776666
No 213
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.33 E-value=45 Score=28.10 Aligned_cols=11 Identities=27% Similarity=1.201 Sum_probs=5.3
Q ss_pred ceecCccccccc
Q psy2838 264 KYKCEECTKTFA 275 (458)
Q Consensus 264 ~~~C~~C~~~f~ 275 (458)
+|.|. |+..|.
T Consensus 117 ~Y~C~-C~q~~l 127 (156)
T COG3091 117 PYRCQ-CQQHYL 127 (156)
T ss_pred eEEee-cCCccc
Confidence 45555 555443
No 214
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.11 E-value=41 Score=24.61 Aligned_cols=33 Identities=18% Similarity=0.606 Sum_probs=18.7
Q ss_pred CcccccccccccCCHHHHHHHHHhhcCCCccccccCcccc
Q psy2838 179 KKFPCDQCGKSFTLKQNLTYHVNSIHLGVRIKCDFCDKTF 218 (458)
Q Consensus 179 k~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~C~~C~~~f 218 (458)
-.|+|..|+..| .+.+||. ....-.|+.|+..+
T Consensus 11 Y~Y~c~~cg~~~----dvvq~~~---ddplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRF----DVVQAMT---DDPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHH----HHHHhcc---cCccccChhhChHH
Confidence 457788887766 3444543 11224677777543
No 215
>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=21.00 E-value=60 Score=23.08 Aligned_cols=9 Identities=44% Similarity=1.191 Sum_probs=2.7
Q ss_pred ccccCcccc
Q psy2838 210 KCDFCDKTF 218 (458)
Q Consensus 210 ~C~~C~~~f 218 (458)
.|..|++.|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 455555555
No 216
>KOG0978|consensus
Probab=20.61 E-value=48 Score=35.39 Aligned_cols=18 Identities=28% Similarity=0.549 Sum_probs=10.0
Q ss_pred ecCccccccCCchhhhhc
Q psy2838 238 KCDHCVKSFNQKPNLISH 255 (458)
Q Consensus 238 ~C~~C~~~f~~~~~L~~H 255 (458)
+||.|+..|....-+..|
T Consensus 680 KCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 680 KCPKCNAAFGANDVHRIH 697 (698)
T ss_pred CCCCCCCCCCcccccccC
Confidence 566666666655444433
No 217
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=20.49 E-value=45 Score=22.30 Aligned_cols=14 Identities=36% Similarity=0.835 Sum_probs=6.5
Q ss_pred cccCccccccCCCH
Q psy2838 320 KYKCADCGRLFAQE 333 (458)
Q Consensus 320 ~~~C~~C~~~f~~~ 333 (458)
.+.|..||..|...
T Consensus 4 ~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 4 TLTCKDCGAEFVFT 17 (49)
T ss_pred eEEcccCCCeEEEe
Confidence 34455555444433
No 218
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=20.48 E-value=49 Score=26.55 Aligned_cols=10 Identities=30% Similarity=0.392 Sum_probs=4.9
Q ss_pred eecCccCccc
Q psy2838 293 YTCEVCSKSY 302 (458)
Q Consensus 293 ~~C~~C~~~f 302 (458)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 4455555444
No 219
>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=20.20 E-value=47 Score=26.72 Aligned_cols=10 Identities=40% Similarity=0.853 Sum_probs=4.5
Q ss_pred eecCccCccc
Q psy2838 293 YTCEVCSKSY 302 (458)
Q Consensus 293 ~~C~~C~~~f 302 (458)
..|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (115)
T TIGR00100 71 CECEDCSEEV 80 (115)
T ss_pred EEcccCCCEE
Confidence 4444444444
No 220
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.18 E-value=44 Score=30.21 Aligned_cols=18 Identities=17% Similarity=0.451 Sum_probs=9.4
Q ss_pred ceeecCccccccCCchhh
Q psy2838 235 VRFKCDHCVKSFNQKPNL 252 (458)
Q Consensus 235 ~~~~C~~C~~~f~~~~~L 252 (458)
+.+.|++|+..|....-+
T Consensus 18 k~ieCPvC~tkFkkeev~ 35 (267)
T COG1655 18 KTIECPVCNTKFKKEEVK 35 (267)
T ss_pred ceeccCcccchhhhhhee
Confidence 345566666665544433
No 221
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=20.11 E-value=49 Score=27.80 Aligned_cols=15 Identities=20% Similarity=0.454 Sum_probs=8.2
Q ss_pred eecCccccccCCchh
Q psy2838 237 FKCDHCVKSFNQKPN 251 (458)
Q Consensus 237 ~~C~~C~~~f~~~~~ 251 (458)
-.|..|++.|++...
T Consensus 29 ReC~~C~~RFTTyEr 43 (147)
T TIGR00244 29 RECLECHERFTTFER 43 (147)
T ss_pred ccCCccCCccceeee
Confidence 346666666655443
No 222
>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=20.08 E-value=35 Score=26.09 Aligned_cols=10 Identities=50% Similarity=1.484 Sum_probs=5.6
Q ss_pred ccCccccccC
Q psy2838 321 YKCADCGRLF 330 (458)
Q Consensus 321 ~~C~~C~~~f 330 (458)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (90)
T PF01780_consen 54 WKCKKCGKKF 63 (90)
T ss_dssp EEETTTTEEE
T ss_pred eecCCCCCEE
Confidence 5555555544
No 223
>KOG3408|consensus
Probab=20.03 E-value=67 Score=25.90 Aligned_cols=27 Identities=26% Similarity=0.531 Sum_probs=22.4
Q ss_pred CCCCcccccccccccCCHHHHHHHHHh
Q psy2838 176 PPVKKFPCDQCGKSFTLKQNLTYHVNS 202 (458)
Q Consensus 176 ~~~k~~~C~~C~~~f~~~~~L~~H~~~ 202 (458)
++...|-|-.|.+.|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 445568899999999999999999874
Done!